R36C8G last accessed: 2022-11-04

Other names: The Greengenes Database

A 16S rRNA gene database which provides chimera screening, standard alignment, and taxonomic classification using multiple published taxonomies.

Webpage:

http://greengenes.lbl.gov

Licence:

Name: CC
URL: https://creativecommons.org/licenses/by-sa/3.0/deed.en_US

Publications:

Publications
More detailed information about this field from each metasource.

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
PMID: 16820507
metasource: Fairsharing.org
version: FAIRsharing.org: Greengenes; Greengenes; DOI: https://doi.org/10.25504/FAIRsharing.bpxgb6; Last edited: April 26, 2021, 11:32 a.m.; Last accessed: Jan 03 2022 7:07 p.m.

Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB PubMed citations: 4302.

4302 articles citing: Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB

Bacterial communities of hookah tobacco products are diverse and differ across brands and flavors. PMID:35927334
Supercarriers of antibiotic resistome in a world's large river. PMID:35897057
Organelle 16S rRNA amplicon sequencing enables profiling of active gut microbiota in murine model. PMID:35896837
Prophylactic Treatment of Undernourished Mice with Cotrimoxazole Induces a Different Profile of Dysbiosis with Functional Metabolic Alterations. PMID:35892575
Nisin and Nisin Probiotic Disrupt Oral Pathogenic Biofilms and Restore Their Microbiome Composition towards Healthy Control Levels in a Peri-Implantitis Setting. PMID:35889055
Beneficial Shifts in the Gut Bacterial Community of Gilthead Seabream (Sparus aurata) Juveniles Supplemented with Allium-Derived Compound Propyl Propane Thiosulfonate (PTSO). PMID:35883368
Natural Environmental Variation Determines Microbial Diversity Patterns in Serofluid Dish, a Traditional Chinese Fermented Vegetable Food. PMID:35881202
Insights into the Antimicrobial Activities and Metabolomes of Aquimarina (Flavobacteriaceae, Bacteroidetes) Species from the Rare Marine Biosphere. PMID:35877716
Microbiome Heritability and Its Role in Adaptation of Hosts to Novel Resources. PMID:35865927
Comparative analysis of the gut microbiota of sand fly vectors of zoonotic visceral leishmaniasis (ZVL) in Iran; host-environment interplay shapes diversity. PMID:35853080
Octanoate Alleviates Dietary Soybean Oil-Induced Intestinal Physical Barrier Damage, Oxidative Stress, Inflammatory Response and Microbial Dysbiosis in Large Yellow Croaker (Larimichthys Crocea). PMID:35844501
Fecal microbiota transplantation in the treatment of irritable bowel syndrome: a single-center prospective study in Japan. PMID:35836115
Profile of the Lower Respiratory Tract Microbiome in Human Immunodeficiency Virus/Acquired Immunodeficiency Syndrome and Lung Disease. PMID:35814692
Identification of Nordic Berries with Beneficial Effects on Cognitive Outcomes and Gut Microbiota in High-Fat-Fed Middle-Aged C57BL/6J Mice. PMID:35807915
Feeding Fiber-Bound Polyphenol Ingredients at Different Levels Modulates Colonic Postbiotics to Improve Gut Health in Cats. PMID:35804553
Methanol utilizers of the rhizosphere and phyllosphere of a common grass and forb host species. PMID:35794633
Rickettsia helvetica infection is associated with microbiome modulation in Ixodes ricinus collected from humans in Serbia. PMID:35794219
Engineering probiotics to inhibit Clostridioides difficile infection by dynamic regulation of intestinal metabolism. PMID:35787625
Seasonal and spatial variability of zooplankton diversity in the Poyang Lake Basin using DNA metabarcoding. PMID:35784091
The Seasonal Patterns, Ecological Function and Assembly Processes of Bacterioplankton Communities in the Danjiangkou Reservoir, China. PMID:35783417
A single respiratory tract infection early in life reroutes healthy microbiome development and affects adult metabolism in a preclinical animal model. PMID:35780244
Dysbiosis and Predicted Functions of the Dental Biofilm of Dairy Goats with Periodontitis. PMID:35780192
Emu: species-level microbial community profiling of full-length 16S rRNA Oxford Nanopore sequencing data. PMID:35773532
Postbiotic heat-killed lactobacilli modulates on body weight associated with gut microbiota in a pig model. PMID:35767074
Increase in Bifidobacterium is a characteristic of the difference in the salivary microbiota of pregnant and non-pregnant women. PMID:35764953
Microbial Community Structure Is Most Strongly Associated With Geographical Distance and pH in Salt Lake Sediments. PMID:35756015
An evaluation of the microbiota of the upper reproductive tract of women with and without epithelial ovarian cancer. PMID:35754560
Copper-Nanocoated Ultra-Small Cells in Grain Boundaries Inside an Extinct Vent Chimney. PMID:35747369
Metformin Influence on the Intestinal Microbiota and Organism of Rats with Metabolic Syndrome. PMID:35743280
Dual-Hit Model of Parkinson's Disease: Impact of Dysbiosis on 6-Hydroxydopamine-Insulted Mice-Neuroprotective and Anti-Inflammatory Effects of Butyrate. PMID:35742813
Bacterial endophytes as indicators of susceptibility to Cercospora Leaf Spot (CLS) disease in Beta vulgaris L. PMID:35739218
Sparus aurata and Lates calcarifer skin microbiota under healthy and diseased conditions in UV and non-UV treated water. PMID:35729615
Evaluating hierarchical machine learning approaches to classify biological databases. PMID:35724625
Comparison of the Gut Microbiota in Healthy Infants With Different Delivery Modes and Feeding Types: A Cohort Study. PMID:35722310
Altered Gut Microbiota and Short-Chain Fatty Acids After Vonoprazan-Amoxicillin Dual Therapy for Helicobacter pylori Eradication. PMID:35719338
The Gut Microbiome of Preterm Infants Treated With Aminophylline Is Closely Related to the Occurrence of Feeding Intolerance and the Weight Gain. PMID:35719163
Heat stress impacts the multi-domain ruminal microbiota and some of the functional features independent of its effect on feed intake in lactating dairy cows. PMID:35701804
A potential oral microbiome signature associated with coronary artery disease in Tunisia. PMID:35695679
Gut microbiota in mucosa and feces of newly diagnosed, treatment-naïve adult inflammatory bowel disease and irritable bowel syndrome patients. PMID:35695669
Effects on community composition and function Pinus massoniana infected by Bursaphelenchus xylophilus. PMID:35690728
Lower airway microbiome of children with recurrent wheezing: a clinical cohort study. PMID:35685081
Supranutritional Selenium-Yeast Supplementation of Beef Cows during the Last Trimester of Pregnancy Results in Higher Whole-Blood Selenium Concentrations in Their Calves at Weaning, but Not Enough to Improve Nasal Microbial Diversity. PMID:35681824
Gut Microbiota, Plasma Metabolomic Profiles, and Carotid Artery Atherosclerosis in HIV Infection. PMID:35678187
Precision environmental health monitoring by longitudinal exposome and multi-omics profiling. PMID:35667843
Bacteroidetes and Firmicutes Drive Differing Microbial Diversity and Community Composition Among Micro-Environments in the Bovine Rumen. PMID:35664853
Gut bacterial isoamylamine promotes age-related cognitive dysfunction by promoting microglial cell death. PMID:35654045
Composition and Diversity of Gut Bacterial Community in Different Life Stages of a Leaf Beetle Gastrolina depressa. PMID:35648155
Subgingival Microbiome in Pregnancy and a Potential Relationship to Early Term Birth. PMID:35646730
Impact of a 7-day homogeneous diet on interpersonal variation in human gut microbiomes and metabolomes. PMID:35643079
Interaction effect between NAFLD severity and high carbohydrate diet on gut microbiome alteration and hepatic de novo lipogenesis. PMID:35634707
Quercetin Reduces Inflammation and Protects Gut Microbiota in Broilers. PMID:35630745
Administration of Hookworm Excretory/Secretory Proteins Improves Glucose Tolerance in a Mouse Model of Type 2 Diabetes. PMID:35625566
Differences in composition of interdigital skin microbiota predict sheep and feet that develop footrot. PMID:35624131
Characteristics of the gut microbiota in women with premenstrual symptoms: A cross-sectional study. PMID:35622782
Comparative Analysis of Metagenomics and Metataxonomics for the Characterization of Vermicompost Microbiomes. PMID:35620097
Feed Insects as a Reservoir of Granadaene-Producing Lactococci. PMID:35615513
Impact of Paenarthrobacter ureafaciens ZF1 on the soil enzyme activity and microbial community during the bioremediation of atrazine-contaminated soils. PMID:35610563
Microbiota Comparison of Amur ide (Leuciscus waleckii) Intestine and Waters at Alkaline Water and Freshwater as the Living Environment. PMID:35602074
Effect of Lactobacillus dominance modified by Korean Red Ginseng on the improvement of Alzheimer's disease in mice. PMID:35600775
Fate of face masks after being discarded into seawater: Aging and microbial colonization. PMID:35596986
Comparative and analytical characterization of the oral bacteriome of smokeless tobacco users with oral squamous cell carcinoma. PMID:35596785
Beneficial Effects of a Low-Glycemic Diet on Serum Metabolites and Gut Microbiota in Obese Women With Prevotella and Bacteriodes Enterotypes: A Randomized Clinical Trial. PMID:35592630
Effects of Low-Carbohydrate Diet and Exercise Training on Gut Microbiota. PMID:35592627
Functional Redundancy in Soil Microbial Community Based on Metagenomics Across the Globe. PMID:35586865
Insights into Prokaryotic Community and Its Potential Functions in Nitrogen Metabolism in the Bay of Bengal, a Pronounced Oxygen Minimum Zone. PMID:35579458
Dietary Diversity during Early Infancy Increases Microbial Diversity and Prevents Egg Allergy in High-Risk Infants. PMID:35573149
Not All Liver Abscesses Are Created Equal: The Impact of Tylosin and Antibiotic Alternatives on Bovine Liver Abscess Microbial Communities and a First Look at Bacteroidetes-Dominated Communities. PMID:35572696
Increased Relative Abundance of Ruminoccocus Is Associated With Reduced Cardiovascular Risk in an Obese Population. PMID:35571941
Hyaluronic Acid 35 kDa Protects against a Hyperosmotic, Formula Feeding Model of Necrotizing Enterocolitis. PMID:35565748
Analysis of Environmental and Pathogenic Bacteria Attached to Aerosol Particles Size-Separated with a Metal Mesh Device. PMID:35565166
MetaSquare: an integrated metadatabase of 16S rRNA gene amplicon for microbiome taxonomic classification. PMID:35561196
Uremic Toxin-Producing Bacteroides Species Prevail in the Gut Microbiota of Taiwanese CKD Patients: An Analysis Using the New Taiwan Microbiome Baseline. PMID:35558102
Egress and invasion machinery of malaria: an in-depth look into the structural and functional features of the flap dynamics of plasmepsin IX and X. PMID:35541758
Synergy of carbon and nitrogen removal of a co-culture of two aerobic denitrifying bacterial strains, Acinetobacter sp. GA and Pseudomonas sp. GP. PMID:35539912
Community Assembly and Stability in the Root Microbiota During Early Plant Development. PMID:35531294
An integrated metabolomics and 16S rRNA gene sequencing approach exploring the molecular pathways and potential targets behind the effects of Radix Scrophulariae. PMID:35529111
A putatively new family of alphaproteobacterial chloromethane degraders from a deciduous forest soil revealed by stable isotope probing and metagenomics. PMID:35527282
Genomics of Ancient Pathogens: First Advances and Prospects. PMID:35526849
Glycyrrhiza uralensis Fisch. Root-associated microbiota: the multifaceted hubs associated with environmental factors, growth status and accumulation of secondary metabolites. PMID:35526053
Novel symbionts and potential human pathogens excavated from argasid tick microbiomes that are shaped by dual or single symbiosis. PMID:35521555
Inactivation of antibiotic-resistant bacteria by chlorine dioxide in soil and shifts in community composition. PMID:35518509
Acetaminophen Levels Found in Recycled Wastewater Alter Soil Microbial Community Structure and Functional Diversity. PMID:35507048
Maternal consumption of a fermented diet protects offspring against intestinal inflammation by regulating the gut microbiota. PMID:35506256
Social Interaction is Unnecessary for Hindgut Microbiome Transmission in Honey Bees: The Effect of Diet and Social Exposure on Tissue-Specific Microbiome Assembly. PMID:35499645
Marine Sponge Endosymbionts: Structural and Functional Specificity of the Microbiome within Euryspongia arenaria Cells. PMID:35499324
Altered Gut Microbiota as an Auxiliary Diagnostic Indicator for Patients With Fracture-Related Infection. PMID:35495685
From Mouth to Brain: Distinct Supragingival Plaque Microbiota Composition in Cerebral Palsy Children With Caries. PMID:35480234
Succession of the Gut Microbiome in the Tibetan Population of Minjiang River Basin. PMID:35479628
The Comparison of Gut Bacteria Communities and the Functions Among the Sympatric Grasshopper Species From the Loess Plateau. PMID:35479627
Altered Salivary Microbiota Following Bifidobacterium animalis Subsp. Lactis BL-11 Supplementation Are Associated with Anthropometric Growth and Social Behavior Severity in Individuals with Prader-Willi Syndrome. PMID:35474569
Precision Probiotics in Agroecosystems: Multiple Strategies of Native Soil Microbiotas for Conquering the Competitor Ralstonia solanacearum. PMID:35469423
Effects of Fermented Feed on the Growth Performance, Intestinal Function, and Microbiota of Piglets Weaned at Different Age. PMID:35464364
Dietary Inclusion of Seabuckthorn (Hippophae rhamnoides) Mitigates Foodborne Enteritis in Zebrafish Through the Gut-Liver Immune Axis. PMID:35464096
Sulfur Cycling as a Viable Metabolism under Simulated Noachian/Hesperian Chemistries. PMID:35455014
The Effect of Systemic Antibiotics for Suppurative Skin and Soft Tissue Infections on the Skin Microbiome. PMID:35450081
16S rRNA Gene Sequencing Revealed Changes in Gut Microbiota Composition during Pregnancy and Lactation in Mice Model. PMID:35448667
Effects of Drought on the Growth of Lespedeza davurica through the Alteration of Soil Microbial Communities and Nutrient Availability. PMID:35448615
Effects of Host Plants on Bacterial Community Structure in Larvae Midgut of Spodoptera frugiperda. PMID:35447815
Microbiome Analysis via OTU and ASV-Based Pipelines-A Comparative Interpretation of Ecological Data in WWTP Systems. PMID:35447706
Gut microbiota of wild fish as reporters of compromised aquatic environments sleuthed through machine learning. PMID:35442774
Assessing the Effect of Smokeless Tobacco Consumption on Oral Microbiome in Healthy and Oral Cancer Patients. PMID:35433507
Observation of the Gut Microbiota Profile in BALB/c Mice Induced by Plasmodium yoelii 17XL Infection. PMID:35432291
Microbial Dispersal, Including Bison Dung Vectored Dispersal, Increases Soil Microbial Diversity in a Grassland Ecosystem. PMID:35432281
Skin Microbiota Variation Among Bat Species in China and Their Potential Defense Against Pathogens. PMID:35432245
Sputum Bacterial Metacommunities in Distinguishing Heterogeneity in Respiratory Health and Disease. PMID:35432240
Effects of Exogenous Hydrogen Sulfide on Diabetic Metabolic Disorders in db/db Mice Are Associated With Gut Bacterial and Fungal Microbiota. PMID:35425717
Enumeration of citrus endophytic bacterial communities based on illumine metagenomics technique. PMID:35417473
Effects of Schyzocotyle acheilognathi (Yamaguti, 1934) infection on the intestinal microbiota, growth and immune reactions of grass carp (Ctenopharyngodon idella). PMID:35413087
An engineered live biotherapeutic for the prevention of antibiotic-induced dysbiosis. PMID:35411114
Interspecies microbiome transplantation recapitulates microbial acquisition in mosquitoes. PMID:35410630
The Antiviral Effect of Isatis Root Polysaccharide against NADC30-like PRRSV by Transcriptome and Proteome Analysis. PMID:35409050
Relationships of the Microbial Communities with Rumen Epithelium Development of Nellore Cattle Finished in Feedlot Differing in Phenotypic Residual Feed Intake. PMID:35405810
Influences of gestational diabetes mellitus on the oral microbiota in offspring from birth to 1 month old. PMID:35387603
Exercise modifies the disease-relevant gut microbial shifts in post-traumatic osteoarthritis rats. PMID:35382556
Fecal microbiome differs between patients with systemic sclerosis with and without small intestinal bacterial overgrowth. PMID:35382497
Characterizing the oral and distal gut microbiota of the threatened southern sea otter (Enhydra lutris nereis) to enhance conservation practice. PMID:35382031
Study on the Bacterial Communities of the Biofilms on Titanium, Aluminum, and Copper Alloys at 5,772 m Undersea in Yap Trench. PMID:35369519
Microbial Community Composition in Explanted Cystic Fibrosis and Control Donor Lungs. PMID:35368453
Next-generation sequencing: insights to advance clinical investigations of the microbiome. PMID:35362479
Esophageal Microbiota and Nutritional Intakes in Patients With Achalasia Before and After Peroral Endoscopic Myotomy. PMID:35362450
Identification of the specific microbial community compositions in saliva associated with periodontitis during pregnancy. PMID:35352183
Practical opportunities for microbiome analyses and bioinformatics in poultry processing. PMID:35346493
Microbiome network traits in the rumen predict average daily gain in beef cattle under different backgrounding systems. PMID:35346381
Effects of Four Cropping Patterns of Lilium brownii on Rhizosphere Microbiome Structure and Replant Disease. PMID:35336706
Wintertime Simulations Induce Changes in the Structure, Diversity and Function of Antarctic Sea Ice-Associated Microbial Communities. PMID:35336197
Early Antibiotic Exposure Alters Intestinal Development and Increases Susceptibility to Necrotizing Enterocolitis: A Mechanistic Study. PMID:35336095
Morel Production Associated with Soil Nitrogen-Fixing and Nitrifying Microorganisms. PMID:35330300
The Protective Effects of Ginseng Polysaccharides and Their Effective Subfraction against Dextran Sodium Sulfate-Induced Colitis. PMID:35327312
Bacterial symbionts influence host susceptibility to fenitrothion and imidacloprid in the obligate hematophagous bed bug, Cimex hemipterus. PMID:35318403
Integrative interactomics applied to bovine fescue toxicosis. PMID:35318361
Insights into microbial diversity on plastisphere by multi-omics. PMID:35316402
Skin microbiota diversity among genetically unrelated individuals of Indian origin. PMID:35313523
Bacterial community structure and metabolic potential in microbialite-forming mats from South Australian saline lakes. PMID:35312212
Vaginal Atopobium is Associated with Spontaneous Abortion in the First Trimester: a Prospective Cohort Study in China. PMID:35311570
Increasing transparency and reproducibility in stroke-microbiota research: A toolbox for microbiota analysis. PMID:35310944
Aberrant newborn T cell and microbiota developmental trajectories predict respiratory compromise during infancy. PMID:35310935
Effects of Coated Sodium Butyrate and Polysaccharides From Cordyceps cicadae on Intestinal Tissue Morphology and Ileal Microbiome of Squabs. PMID:35310408
Shift in tree species changes the belowground biota of boreal forests. PMID:35307841
Spatial Pattern of Endophytic Fungi and the Symbiotic Germination of Tulasnella Fungi from Wild Cymbidium goeringii (Orchidaceae) in China. PMID:35305159
A global microbiome survey of vineyard soils highlights the microbial dimension of viticultural terroirs. PMID:35304890
Gut microbiota analysis of Blenniidae fishes including an algae-eating fish and clear boundary formation among isolated Vibrio strains. PMID:35301363
Pilot study of autologous fecal microbiota transplants in nursing home residents: Feasibility and safety. PMID:35299780
Limits to the three domains of life: lessons from community assembly along an Antarctic salinity gradient. PMID:35296937
Robustness of Mammalian Gut Microbiota to Humanization in Captivity. PMID:35291481
Protocol to assess the impact of early-life antibiotic exposure on murine longevity. PMID:35284839
Soil Properties Interacting With Microbial Metagenome in Decreasing CH4 Emission From Seasonally Flooded Marshland Following Different Stages of Afforestation. PMID:35283824
Microbiome Resilience and Health Implications for People in Half-Year Travel. PMID:35281043
Differences in the microbial profiles of early stage endometrial cancers between Black and White women. PMID:35277280
Embryonic Exposure to Tryptophan Yields Bullying Victimization via Reprogramming the Microbiota-Gut-Brain Axis in a Chicken Model. PMID:35277020
Different Alterations in Gut Microbiota between Bifidobacterium longum and Fecal Microbiota Transplantation Treatments in Propionic Acid Rat Model of Autism. PMID:35276971
Identification of sleep fragmentation-induced gut microbiota alteration and prediction of functional impact in Sprague Dawley rats harboring microbiome derived from multiple human donors. PMID:35273743
Resistomes and microbiome of meat trimmings and colon content from culled cows raised in conventional and organic production systems. PMID:35272712
Feeding Fiber-Bound Polyphenol Ingredients at Different Levels Modulates Colonic Postbiotics to Improve Gut Health in Dogs. PMID:35268196
Effects of Dietary Astragalus Polysaccharide Supplementation on the Th17/Treg Balance and the Gut Microbiota of Broiler Chickens Challenged With Necrotic Enteritis. PMID:35265068
Differential colitis susceptibility of Th1- and Th2-biased mice: A multi-omics approach. PMID:35263357
Sargasso Sea bacterioplankton community structure and drivers of variance as revealed by DNA metabarcoding analysis. PMID:35251777
Changes of Intestinal Microflora in Colorectal Cancer Patients after Surgical Resection and Chemotherapy. PMID:35251295
Performance, Rumen Microbial Community and Immune Status of Goat Kids Fed Leucaena leucocephala Post-weaning as Affected by Prenatal and Early Life Nutritional Interventions. PMID:35250899
The Role of Intestinal Microbiota in Regulating the Metabolism of Bile Acids Is Conserved Across Vertebrates. PMID:35242120
The Phylosymbiosis Pattern Between the Fig Wasps of the Same Genus and Their Associated Microbiota. PMID:35237241
Probiotic normalization of systemic inflammation in siblings of type 1 diabetes patients: an open-label pilot study. PMID:35228584
Integrated Traditional Chinese Medicine Improves Functional Outcome in Acute Ischemic Stroke: From Clinic to Mechanism Exploration With Gut Microbiota. PMID:35223549
In-Silico Detection of Oral Prokaryotic Species With Highly Similar 16S rRNA Sequence Segments Using Different Primer Pairs. PMID:35223533
Cervicovaginal Microbiota Predicts Neisseria gonorrhoeae Clinical Presentation. PMID:35222300
Transkingdom Analysis of the Female Reproductive Tract Reveals Bacteriophages form Communities. PMID:35216023
Gut Mucosal Microbiome Signatures of Colorectal Cancer Differ According to BMI Status. PMID:35211486
A Parallel Tracking of Salivary and Gut Microbiota Profiles Can Reveal Maturation and Interplay of Early Life Microbial Communities in Healthy Infants. PMID:35208921
Effect of Inoculation Level on the Impact of the PGPR Azospirillum lipoferum CRT1 on Selected Microbial Functional Groups in the Rhizosphere of Field Maize. PMID:35208780
Rhizosphere Diazotrophs and Other Bacteria Associated with Native and Encroaching Legumes in the Succulent Karoo Biome in South Africa. PMID:35208671
Bifidobacterium Is Enriched in Gut Microbiome of Kashmiri Women with Polycystic Ovary Syndrome. PMID:35205422
Identification of Microorganisms Dwelling on the 19th Century Lanna Mural Paintings from Northern Thailand Using Culture-Dependent and -Independent Approaches. PMID:35205094
Ranking the biases: The choice of OTUs vs. ASVs in 16S rRNA amplicon data analysis has stronger effects on diversity measures than rarefaction and OTU identity threshold. PMID:35202411
Altered gut microbiota composition with antibiotic treatment impairs functional recovery after traumatic peripheral nerve crush injury in mice: effects of probiotics with butyrate producing bacteria. PMID:35197129
Identification of bovine respiratory disease through the nasal microbiome. PMID:35193707
Intratumoral Microbiome of Human Primary Liver Cancer. PMID:35191218
A comparative study of bacterial diversity based on effects of three different shade shed types in the rhizosphere of Panax quiquefolium L. PMID:35186457
Taxonomical Evaluation of Plant Chloroplastic Markers by Bayesian Classifier. PMID:35185949
Effects of triclosan on bacterial community composition and Vibrio populations in natural seawater microcosms. PMID:35178461
Sequential fungal pretreatment of unsterilized Miscanthus: changes in composition, cellulose digestibility and microbial communities. PMID:35171342
Dietary Effects on Biological Parameters and Gut Microbiota of Harmonia axyridis. PMID:35154044
Field Site-Specific Effects of an Azospirillum Seed Inoculant on Key Microbial Functional Groups in the Rhizosphere. PMID:35154023
Associations of physical activity with gut microbiota in pre-adolescent children. PMID:35152621
The airway microbiota of non-small cell lung cancer patients and its relationship to tumor stage and EGFR gene mutation. PMID:35142041
First report of gut bacterial dataset of a tribal Bhutia family from West Bengal, India. PMID:35128010
Chronic liver disease enables gut Enterococcus faecalis colonization to promote liver carcinogenesis. PMID:35121877
Bacterial Community Structure of Panchagavya, a Fermented Liquid Bio-manure, as Revealed by High-Throughput Sequencing of 16S rRNA Gene Amplicons. PMID:35112908
Bacterial Diversity of Root Nodule and Rhizosphere Soil Samples of Green Soybean (Edamame) in Japan. PMID:35112903
Association Between Vaginal Gardnerella and Tubal Pregnancy in Women With Symptomatic Early Pregnancies in China: A Nested Case-Control Study. PMID:35111691
Clinical response and changes in the fecal microbiota and metabolite levels after fecal microbiota transplantation in patients with inflammatory bowel disease and recurrent Clostridioides difficile infection. PMID:35111551
Bacterial distribution on the ocular surface of patients with primary Sjögren's syndrome. PMID:35110614
OptiFit: an Improved Method for Fitting Amplicon Sequences to Existing OTUs. PMID:35107341
Considerations and best practices in animal science 16S ribosomal RNA gene sequencing microbiome studies. PMID:35106579
Effects of hot water spray and sub-zero saline chilling on bacterial decontamination of broiler carcasses. PMID:35104730
Fresh Rumen Liquid Inoculant Enhances the Rumen Microbial Community Establishment in Pre-weaned Dairy Calves. PMID:35095788
Effects of Compound Probiotics on Cecal Microbiome and Metabolome of Shaoxing Duck. PMID:35087506
Adult schistosomes have an epithelial bacterial population distinct from the surrounding mammalian host blood. PMID:35085360
Gut microbe-targeted choline trimethylamine lyase inhibition improves obesity via rewiring of host circadian rhythms. PMID:35072627
The Protective Effects of a Modified Xiaohua Funing Decoction against Acute Liver Failure in Mice Induced by D-Gal and LPS. PMID:35069764
Interaction of Gut Microbiota and Brain Function in Patients With Chronic Insomnia: A Regional Homogeneity Study. PMID:35069107
Gut Metagenomic Profiling of Gossypol Induced Oxycarenus laetus (Hemiptera: Lygaeidae) Reveals Gossypol Tolerating Bacterial Species. PMID:35068604
Fate of sloughed biomass in integrated fixed-film systems. PMID:35061828
Effects of antibiotic treatment on microbiota, viral transmission and viral pathogenesis of MoMuLV ts1 infected BALB/c mice. PMID:35061714
What Does 16S rRNA Gene-Targeted Next Generation Sequencing Contribute to the Study of Infective Endocarditis in Heart-Valve Tissue? PMID:35055982
Characterization of the Gastrointestinal and Reproductive Tract Microbiota in Fertile and Infertile Pakistani Couples. PMID:35053038
Productive Performance and Cecum Microbiota Analysis of Broiler Chickens Supplemented with β-Mannanases and Bacteriophages-A Pilot Study. PMID:35049792
Shared and Specific Lung Microbiota with Metabolic Profiles in Bronchoalveolar Lavage Fluid Between Infectious and Inflammatory Respiratory Diseases. PMID:35046693
Evaluation of Bacterial Diversity and Evolutionary Dynamics of Gut Bifidobacterium longum Isolates Obtained from Older Individuals in Hubei Province, China. PMID:35044201
Contrasting effects of genotype and root size on the fungal and bacterial communities associated with apple rootstocks. PMID:35043188
Microorganisms in Whole Botanical Fermented Foods Survive Processing and Simulated Digestion to Affect Gut Microbiota Composition. PMID:35035384
Impact of Helicobacter pylori infection on fluid duodenal microbial community structure and microbial metabolic pathways. PMID:35033024
The immunotoxicity, but not anti-tumor efficacy, of anti-CD40 and anti-CD137 immunotherapies is dependent on the gut microbiota. PMID:35028606
molBV reveals immune landscape of bacterial vaginosis and predicts human papillomavirus infection natural history. PMID:35017496
Developmental Change of Yolk Microbiota and Its Role on Early Colonization of Intestinal Microbiota in Chicken Embryo. PMID:35011123
The Relationship between Gut Microbiome and Cognition in Older Australians. PMID:35010939
Mediterranean Diet Adherence in People With Parkinson's Disease Reduces Constipation Symptoms and Changes Fecal Microbiota After a 5-Week Single-Arm Pilot Study. PMID:35002935
Distinct soil bacterial patterns along narrow and broad elevational gradients in the grassland of Mt. Tianshan, China. PMID:34997011
Mucosal microbiome associates with progression to gastric cancer. PMID:34987633
The changes of microbial diversity and flavor compounds during the fermentation of millet Huangjiu, a traditional Chinese beverage. PMID:34986204
Urogenital Microbiota:Potentially Important Determinant of PD-L1 Expression in Male Patients with Non-muscle Invasive Bladder Cancer. PMID:34983384
Determine independent gut microbiota-diseases association by eliminating the effects of human lifestyle factors. PMID:34979898
The effect of probiotic supplementation on systemic inflammation in dialysis patients. PMID:34974660
Impact of Two Antibiotic Therapies on Clinical Outcome and Gut Microbiota Profile in Liver Transplant Paediatric Candidates Colonized by Carbapenem-Resistant Klebsiella pneumoniae CR-KP. PMID:34970503
Moraxella-dominated pediatric nasopharyngeal microbiota associate with upper respiratory infection and sinusitis. PMID:34962959
A systems genomics approach uncovers molecular associates of RSV severity. PMID:34962914
Effect of feed restriction on the intestinal microbial community structure of growing ducks. PMID:34958398
Can the Salivary Microbiome Predict Cardiovascular Diseases? Lessons Learned From the Qatari Population. PMID:34956135
Structural and functional changes in soil bacterial communities by drifting spray application of a commercial red seaweed extract as revealed by metagenomics. PMID:34951686
Dietary Quercetin Supplementation Attenuates Diarrhea and Intestinal Damage by Regulating Gut Microbiota in Weanling Piglets. PMID:34950418
Determination of the Nutritional Value of Diet Containing Bacillus subtilis Hydrolyzed Feather Meal in Adult Dogs. PMID:34944328
Soil Rehabilitation Promotes Resilient Microbiome with Enriched Keystone Taxa than Agricultural Infestation in Barren Soils on the Loess Plateau. PMID:34943176
Evaluation of Microbiome Alterations Following Consumption of BIOHM, a Novel Probiotic. PMID:34940122
Large-scale characterisation of the pregnancy vaginal microbiome and sialidase activity in a low-risk Chinese population. PMID:34930922
Assessing the impact of storage time on the stability of stool microbiota richness, diversity, and composition. PMID:34930464
Decoding gut microbiota by imaging analysis of fecal samples. PMID:34927025
Effect of the administration of probiotics on the fecal microbiota of adult individuals. PMID:34925778
The Fungal Communities and Flavor Profiles in Different Types of High-Temperature Daqu as Revealed by High-Throughput Sequencing and Electronic Senses. PMID:34925290
Alone Yet Not Alone: Frankia Lives Under the Same Roof With Other Bacteria in Actinorhizal Nodules. PMID:34925263
Effect of Geography and Captivity on Scat Bacterial Communities in the Imperiled Channel Island Fox. PMID:34925262
Soil Microbial Resource Limitations and Community Assembly Along a Camellia oleifera Plantation Chronosequence. PMID:34925257
Alterations of fecal antibiotic resistome in COVID-19 patients after empirical antibiotic exposure. PMID:34915282
Effects of Dietary Mannan Oligosaccharides on Non-Specific Immunity, Intestinal Health, and Antibiotic Resistance Genes in Pacific White Shrimp Litopenaeus vannamei. PMID:34899725
Sinomenine Hydrochloride Ameliorates Fish Foodborne Enteritis via α7nAchR-Mediated Anti-Inflammatory Effect Whilst Altering Microbiota Composition. PMID:34887862
Contrasting Community Assembly Forces Drive Microbial Structural and Potential Functional Responses to Precipitation in an Incipient Soil System. PMID:34887842
Impact of sleep on the microbiome of oral biofilms. PMID:34882696
The Bacterial Community in Questing Ticks From Khao Yai National Park in Thailand. PMID:34881320
The Gut Microbiota of an Individual Varies With Intercontinental Four-Month Stay Between Italy and Nigeria: A Pilot Study. PMID:34881191
Understanding host-microbiota interactions in the commercial piglet around weaning. PMID:34873196
Fecal Streptococcus Alteration Is Associated with Gastric Cancer Occurrence and Liver Metastasis. PMID:34872346
Identifying Two Novel Clusters in Calcium Oxalate Stones With Urinary Tract Infection Using 16S rDNA Sequencing. PMID:34869053
Hepatoprotective effects of Cassiae Semen on mice with non-alcoholic fatty liver disease based on gut microbiota. PMID:34862475
Defining and quantifying the core microbiome: Challenges and prospects. PMID:34862327
Dietary intake of yacon roots (Smallanthus sonchifolius) affects gut microbiota and fecal mucin and prevents intestinal inflammation in mice. PMID:34857989
Poultry gut health - microbiome functions, environmental impacts, microbiome engineering and advancements in characterization technologies. PMID:34857055
Global similarity, and some key differences, in the metagenomes of Swedish varroa-surviving and varroa-susceptible honeybees. PMID:34853367
Analysis of changes in microbiome compositions related to the prognosis of colorectal cancer patients based on tissue-derived 16S rRNA sequences. PMID:34844611
Identifying active rumen epithelial associated bacteria and archaea in beef cattle divergent in feed efficiency using total RNA-seq. PMID:34841354
Psychophysiological Effects of Lactobacillus plantarum PS128 in Patients with Major Depressive Disorder: A Preliminary 8-Week Open Trial. PMID:34835987
How Microbial Food Web Interactions Shape the Arctic Ocean Bacterial Community Revealed by Size Fractionation Experiments. PMID:34835503
Subgingival Microbiota and Cytokines Profile Changes in Patients with Periodontitis: A Pilot Study Comparing Healthy and Diseased Sites in the Same Oral Cavities. PMID:34835489
A Low to Medium-Shear Extruded Kibble with Greater Resistant Starch Increased Fecal Oligosaccharides, Butyric Acid, and Other Saccharolytic Fermentation By-Products in Dogs. PMID:34835419
Gut Microbiota as Early Predictor of Infectious Complications before Cardiac Surgery: A Prospective Pilot Study. PMID:34834465
Altered Fecal Microbiota Signatures in Patients With Anxiety and Depression in the Gastrointestinal Cancer Screening: A Case-Control Study. PMID:34819887
Selective Bacterial Community Enrichment between the Pitcher Plants Sarracenia minor and Sarracenia flava. PMID:34817222
Analysis of Community Composition of Bacterioplankton in Changle Seawater in China by Illumina Sequencing Combined with Bacteria Culture. PMID:34816606
Impact of Prebiotic β-glucan Treatment at Juvenile Age on the Gut Microbiota Composition and the Eventual Type 1 Diabetes Onset in Non-obese Diabetic Mice. PMID:34805251
Effects of symbiotic population impairment on microbiome composition and longevity of Bactrocera dorsalis. PMID:34804572
Seasonal diets supersede host species in shaping the distal gut microbiota of Yaks and Tibetan sheep. PMID:34799677
Comparison of the Gut Microbiota in Patients with Benign and Malignant Breast Tumors: A Pilot Study. PMID:34795472
Salinity Drives Functional and Taxonomic Diversities in Global Water Metagenomes. PMID:34790175
Enhancing diversity analysis by repeatedly rarefying next generation sequencing data describing microbial communities. PMID:34785722
Observation of the Gut Microbiota Profile in C57BL/6 Mice Induced by Plasmodium berghei ANKA Infection. PMID:34778098
Bacterial microbiota in upper respiratory tract of COVID-19 and influenza patients. PMID:34775842
The gut microbiome of extremely preterm infants randomized to the early progression of enteral feeding. PMID:34775476
Computational Studies of the Intestinal Host-Microbiota Interactome. PMID:34765258
Attributes of intestinal microbiota composition and their correlation with clinical primary non-response to anti-TNF-α agents in inflammatory bowel disease patients. PMID:34761733
Rumen-protected glucose supplementation in transition dairy cows shifts fermentation patterns and enhances mucosal immunity. PMID:34754960
RESCRIPt: Reproducible sequence taxonomy reference database management. PMID:34748542
A Comparison of Production Performance, Egg Quality, and Cecal Microbiota in Laying Hens Receiving Graded Levels of Vitamin B12. PMID:34746275
Dynamic Microbial Shifts and Signatures of Long-Term Remission in Allergic Rhinitis After an Herbal Formula Treatment. PMID:34745150
Dynamic Changes in Soil Microbial Communities with Glucose Enrichment in Sediment Microbial Fuel Cells. PMID:34744205
Characterization of the endometrial, cervicovaginal and anorectal microbiota in post-menopausal women with endometrioid and serous endometrial cancers. PMID:34739493
Metabolic and Neural Mechanisms Underlying the Associations Between Gut Bacteroides and Cognition: A Large-Scale Functional Network Connectivity Study. PMID:34733135
Sex Variations in the Oral Microbiomes of Youths with Severe Periodontitis. PMID:34722781
The endophytome (plant-associated microbiome): methodological approaches, biological aspects, and biotech applications. PMID:34708327
Vaginal microbiota affects urinary tract infection risk in women with systemic lupus erythematosus: a pilot cross-sectional study from Thailand. PMID:34706864
Microbial Community Composition during a Bloom of Purple Bacteria in Intertidal Sediments in Vigo (Northwest Spain). PMID:34704815
Gut microbiota response to antibiotics is personalized and depends on baseline microbiota. PMID:34702350
Quantifying the Importance of Abiotic and Biotic Factors Governing the Succession of Gut Microbiota Over Shrimp Ontogeny. PMID:34691004
Bacterial Inhibition on Beauveria bassiana Contributes to Microbiota Stability in Delia antiqua. PMID:34690955
Leveraging host-genetics and gut microbiota to determine immunocompetence in pigs. PMID:34689834
Prebiotic Galactooligosaccharide Supplementation in Adults with Ulcerative Colitis: Exploring the Impact on Peripheral Blood Gene Expression, Gut Microbiota, and Clinical Symptoms. PMID:34684597
Changes in the Nasal Microbiota of Pigs Following Single or Co-Infection with Porcine Reproductive and Respiratory Syndrome and Swine Influenza A Viruses. PMID:34684174
Complementary Food Ingredients Alter Infant Gut Microbiome Composition and Metabolism In Vitro. PMID:34683410
Particulate Matter Exposure and Allergic Rhinitis: The Role of Plasmatic Extracellular Vesicles and Bacterial Nasal Microbiome. PMID:34682436
The Bacterial Diversity of Spontaneously Fermented Dairy Products Collected in Northeast Asia. PMID:34681370
Anti-Hyperlipidemia and Gut Microbiota Community Regulation Effects of Selenium-Rich Cordyceps militaris Polysaccharides on the High-Fat Diet-Fed Mice Model. PMID:34681302
Evaporative silicification in floating microbial mats: patterns of oxygen production and preservation potential in silica-undersaturated streams, El Tatio, Chile. PMID:34676677
Genetic Elucidation of Quorum Sensing and Cobamide Biosynthesis in Divergent Bacterial-Fungal Associations Across the Soil-Mangrove Root Interface. PMID:34675891
Bifidobacterium species associated with breastfeeding produce aromatic lactic acids in the infant gut. PMID:34675385
Longitudinal Multi-Omics Study of a Mother-Infant Dyad from Breastfeeding to Weaning: An Individualized Approach to Understand the Interactions Among Diet, Fecal Metabolome and Microbiota Composition. PMID:34671642
Improved detection of disease-associated gut microbes using 16S sequence-based biomarkers. PMID:34666677
Bacterial structure and dynamics in mango (Mangifera indica) orchards after long term organic and conventional treatments under subtropical ecosystem. PMID:34654819
Selection strategy of dextran sulfate sodium-induced acute or chronic colitis mouse models based on gut microbial profile. PMID:34654370
Tumor-Associated Microbiota in Proximal and Distal Colorectal Cancer and Their Relationships With Clinical Outcomes. PMID:34650531
Bacteroides vulgatus and Bacteroides dorei predict immune-related adverse events in immune checkpoint blockade treatment of metastatic melanoma. PMID:34641962
Differences of Gut Microbiota in the Freshwater Blackworm (Lumbriculus variegatus: Oligochaeta) in Two Different Habitat Conditions. PMID:34639598
Distinct Responses of Rare and Abundant Microbial Taxa to In Situ Chemical Stabilization of Cadmium-Contaminated Soil. PMID:34636665
Insights into soil bacterial and physicochemical properties of annual ryegrass-maize rotation (ARMR) system in southern China. PMID:34635706
Data on cecal and fecal microbiota and predicted metagenomes profiles of female mice receiving whole flaxseed or its oil and secoisolariciresinol diglucoside components. PMID:34632012
Dietary Energy Levels Affect Carbohydrate Metabolism-Related Bacteria and Improve Meat Quality in the Longissimus Thoracis Muscle of Yak (Bos grunniens). PMID:34631849
Effects of a high-γ-polyglutamic acid-containing natto diet on liver lipids and cecal microbiota of adult female mice. PMID:34631329
The diversity and composition of the human gut lactic acid bacteria and bifidobacterial microbiota vary depending on age. PMID:34625821
Compositional variation of the human fecal microbiome in relation to azo-reducing activity: a pilot study. PMID:34625106
Florfenicol Enhances Colonization of a Salmonella enterica Serovar Enteritidis floR Mutant with Major Alterations to the Intestinal Microbiota and Metabolome in Neonatal Chickens. PMID:34613752
Lung microbiome of stable and exacerbated COPD patients in Tshwane, South Africa. PMID:34611216
Distinct bacterial community of a solid-state fermented Chinese traditional food huase sufu revealed by high-throughput sequencing. PMID:34603822
Deep Investigating the Changes of Gut Microbiome and Its Correlation With the Shifts of Host Serum Metabolome Around Parturition in Sows. PMID:34603257
Shifts in Soil Structure, Biological, and Functional Diversity Under Long-Term Carbon Deprivation. PMID:34594317
Gut bacterial taxonomic abundances vary with cognition, personality, and mood in the Wisconsin Longitudinal Study. PMID:34589897
Mucosa-associated specific bacterial species disrupt the intestinal epithelial barrier in the autism phenome. PMID:34589774
Subterranean Microbiome Affiliations of Plantain (Musa spp.) Under Diverse Agroecologies of Western and Central Africa. PMID:34585290
Modifications in the Intestinal Functionality, Morphology and Microbiome Following Intra-Amniotic Administration (Gallus gallus) of Grape (Vitis vinifera) Stilbenes (Resveratrol and Pterostilbene). PMID:34579124
Interrelationship between the Microbial Communities of the Root Canals and Periodontal Pockets in Combined Endodontic-Periodontal Diseases. PMID:34576820
Cudrania tricuspidata Combined with Lacticaseibacillus rhamnosus Modulate Gut Microbiota and Alleviate Obesity-Associated Metabolic Parameters in Obese Mice. PMID:34576802
Sympatric Yaks and Plateau Pikas Promote Microbial Diversity and Similarity by the Mutual Utilization of Gut Microbiota. PMID:34576785
Impact of Maternal Intrapartum Antibiotics, and Caesarean Section with and without Labour on Bifidobacterium and Other Infant Gut Microbiota. PMID:34576741
Analysis of Stored Wheat Grain-Associated Microbiota Reveals Biocontrol Activity among Microorganisms against Mycotoxigenic Fungi. PMID:34575819
Impact of Plant-Based Meat Alternatives on the Gut Microbiota of Consumers: A Real-World Study. PMID:34574149
Metatranscriptomic Analysis of Human Lung Metagenomes from Patients with Lung Cancer. PMID:34573440
Bacterial community structure of early-stage biofilms is dictated by temporal succession rather than substrate types in the southern coastal seawater of India. PMID:34570809
Agricultural management and cultivation period alter soil enzymatic activity and bacterial diversity in litchi (Litchi chinensis Sonn.) orchards. PMID:34568997
Western Diet Changes Gut Microbiota and Ameliorates Liver Injury in a Mouse Model with Human-Like Bile Acid Composition. PMID:34558859
Presence of Adult Companion Goats Favors the Rumen Microbial and Functional Development in Artificially Reared Kids. PMID:34557542
Neonatal Piglets Are Protected from Clostridioides difficile Infection by Age-Dependent Increase in Intestinal Microbial Diversity. PMID:34550001
Conditioned medium from stem cells derived from human exfoliated deciduous teeth ameliorates NASH via the Gut-Liver axis. PMID:34548598
Competition-based screening helps to secure the evolutionary stability of a defensive microbiome. PMID:34526023
Microdiversity characterizes prevalent phylogenetic clades in the glacier-fed stream microbiome. PMID:34522009
Species-Level Resolution of Female Bladder Microbiota from 16S rRNA Amplicon Sequencing. PMID:34519534
Gut Metabolites Are More Predictive of Disease and Cohoused States than Gut Bacterial Features in a Polycystic Ovary Syndrome-Like Mouse Model. PMID:34519532
Mucosal Microbiota and Metabolome in the Ileum of Hu Sheep Offered a Low-Grain, Pelleted or Non-pelleted High-Grain Diet. PMID:34512596
Is soil management system really important? comparison of microbial community diversity and structure in soils managed under organic and conventional regimes with some view on soil properties. PMID:34499697
Gut microbiota alterations in response to sleep length among African-origin adults. PMID:34495955
Comparative genomic analysis reveals metabolic flexibility of Woesearchaeota. PMID:34489402
Folic Acid Absorption Characteristics and Effect on Cecal Microbiota of Laying Hens. PMID:34485442
Metagenomic Investigation Uncovers Presence of Probiotic-Type Microbiome in Kalparasa® (Fresh Unfermented Coconut Inflorescence Sap). PMID:34484136
Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes. PMID:34479875
Responses of soil bacterial and fungal communities to the long-term monoculture of grapevine. PMID:34477939
Influence of Climate on Soil and Wine Bacterial Diversity on a Vineyard in a Non-traditional Wine Region in Argentina. PMID:34475867
Synbiotics Containing Nanoprebiotics: A Novel Therapeutic Strategy to Restore Gut Dysbiosis. PMID:34475865
Cydrasil 3, a curated 16S rRNA gene reference package and web app for cyanobacterial phylogenetic placement. PMID:34475414
Thermal discharge-induced seawater warming alters richness, community composition and interactions of bacterioplankton assemblages in a coastal ecosystem. PMID:34462511
Active microbial ecosystem in glacier basal ice fuelled by iron and silicate comminution-derived hydrogen. PMID:34459543
Insights into epidemiologic assessments of the microbiome and challenges in identifying microbiome relationships with adverse pregnancy outcomes. PMID:34458070
On the use of sequence-quality information in OTU clustering. PMID:34458017
Genotypic Variation of Endophytic Nitrogen-Fixing Activity and Bacterial Flora in Rice Stem Based on Sugar Content. PMID:34447404
Safety Assessment of Microbicide 2P23 on the Rectal and Vaginal Microbiota and Its Antiviral Activity on HIV Infection. PMID:34447373
The Nexus between Fire and Soil Bacterial Diversity in the African Miombo Woodlands of Niassa Special Reserve, Mozambique. PMID:34442641
Protective Effects of Probiotics on Cognitive and Motor Functions, Anxiety Level, Visceral Sensitivity, Oxidative Stress and Microbiota in Mice with Antibiotic-Induced Dysbiosis. PMID:34440509
Using Functional Annotations to Study Pairwise Interactions in Urinary Tract Infection Communities. PMID:34440394
The Impact of Host Genotype, Intestinal Sites and Probiotics Supplementation on the Gut Microbiota Composition and Diversity in Sheep. PMID:34440001
Identification of Biomolecules Involved in the Adaptation to the Environment of Cold-Loving Microorganisms and Metabolic Pathways for Their Production. PMID:34439820
Environment-Dependent Variation in Gut Microbiota of an Oviparous Lizard (Calotes versicolor). PMID:34438918
Seasonal Variation in the Faecal Microbiota of Mature Adult Horses Maintained on Pasture in New Zealand. PMID:34438757
Cutaneous Effects of In Utero and Lactational Exposure of C57BL/6J Mice to 2,3,7,8-Tetrachlorodibenzo-p-dioxin. PMID:34437510
Gut Microbiome and Metabolome Profiles Associated with High-Fat Diet in Mice. PMID:34436423
A Comparative Taxonomic Profile of Microbial Polyethylene and Hydrocarbon-Degrading Communities in Diverse Environments. PMID:34435063
Unveiling the Gut Microbiota and Resistome of Wild Cotton Mice, Peromyscus gossypinus, from Heavy Metal- and Radionuclide-Contaminated Sites in the Southeastern United States. PMID:34431703
Interactions between soil compositions and the wheat root microbiome under drought stress: From an in silico to in planta perspective. PMID:34429844
Ingestion of Lactobacillus rhamnosus modulates chronic stress-induced feather pecking in chickens. PMID:34429482
Deterministic transition of enterotypes shapes the infant gut microbiome at an early age. PMID:34429130
Gut microbes participate in food preference alterations during obesity. PMID:34424831
Biochar Application Mitigates the Effect of Heat Stress on Rice (Oryza sativa L.) by Regulating the Root-Zone Environment. PMID:34421961
Niche partitioning by photosynthetic plankton as a driver of CO2-fixation across the oligotrophic South Pacific Subtropical Ocean. PMID:34413475
Chronic Manganese Exposure and the Enteric Nervous System: An in Vitro and Mouse in Vivo Study. PMID:34410835
Exposure to Parasitic Protists and Helminths Changes the Intestinal Community Structure of Bacterial Communities in a Cohort of Mother-Child Binomials from a Semirural Setting in Mexico. PMID:34406855
Context-sensitivity of isosteric substitutions of non-Watson-Crick basepairs in recurrent RNA 3D motifs. PMID:34403481
Contrasting gut microbiota in captive Eurasian otters (Lutra lutra) by age. PMID:34398307
ensembleTax: an R package for determinations of ensemble taxonomic assignments of phylogenetically-informative marker gene sequences. PMID:34395092
Prenatal Depression, Breastfeeding, and Infant Gut Microbiota. PMID:34394021
Kazak faecal microbiota transplantation induces short-chain fatty acids that promote glucagon-like peptide-1 secretion by regulating gut microbiota in db/db mice. PMID:34392792
Gut microbiome is affected by gut region but robust to host physiological changes in captive active-season ground squirrels. PMID:34389044
Microbial Composition in the Duodenum and Ileum of Yellow Broilers With High and Low Feed Efficiency. PMID:34385985
Ribovore: ribosomal RNA sequence analysis for GenBank submissions and database curation. PMID:34384346
Insight into the bacterial communities of the subterranean aphid Anoecia corni. PMID:34379678
Beneficial Cyanosphere Heterotrophs Accelerate Establishment of Cyanobacterial Biocrust. PMID:34379492
CONSULT: accurate contamination removal using locality-sensitive hashing. PMID:34377979
Beyond samples: A metric revealing more connections of gut microbiota between individuals. PMID:34377361
Decrease in acetyl-CoA pathway utilizing butyrate-producing bacteria is a key pathogenic feature of alcohol-induced functional gut microbial dysbiosis and development of liver disease in mice. PMID:34369304
Prokaryotic Communities in the Thalassohaline Tuz Lake, Deep Zone, and Kayacik, Kaldirim and Yavsan Salterns (Turkey) Assessed by 16S rRNA Amplicon Sequencing. PMID:34361960
Subfractional Spectrum of Serum Lipoproteins and Gut Microbiota Composition in Healthy Individuals. PMID:34361897
Accessing Dietary Effects on the Rumen Microbiome: Different Sequencing Methods Tell Different Stories. PMID:34357930
Analysis of Microbiota and Mycobiota in Fungal Ball Rhinosinusitis: Specific Interaction between Aspergillus fumigatus and Haemophilus influenza? PMID:34356929
Multiomic Approach to Analyze Infant Gut Microbiota: Experimental and Analytical Method Optimization. PMID:34356622
Beneficial effect of dietary geranylgeraniol on glucose homeostasis and bone microstructure in obese mice is associated with suppression of proinflammation and modification of gut microbiome. PMID:34352722
Microbial communities of poultry house dust, excreta and litter are partially representative of microbiota of chicken caecum and ileum. PMID:34351989
Can We Estimate Functionality of Soil Microbial Communities from Structure-Derived Predictions? A Reality Test in Agricultural Soils. PMID:34346741
Gut Microbiome Structure and Association with Host Factors in a Korean Population. PMID:34342532
Salivary microbiome differences in prepubertal children with and without adrenal androgen excess. PMID:34341500
Host habitat is the major determinant of the gut microbiome of fish. PMID:34332628
Proteomics, Lipidomics, Metabolomics, and 16S DNA Sequencing of Dental Plaque From Patients With Diabetes and Periodontal Disease. PMID:34332123
Temporal and Spatial Changes in Phyllosphere Microbiome of Acacia Trees Growing in Arid Environments. PMID:34322096
Helminth Microbiota Profiling Using Bacterial 16S rRNA Gene Amplicon Sequencing: From Sampling to Sequence Data Mining. PMID:34313994
Field evaluation of the gut microbiome composition of pre-school and school-aged children in Tha Song Yang, Thailand, following oral MDA for STH infections. PMID:34310596
The Enhancement of Intestinal Immunity in Offspring Piglets by Maternal Probiotic or Synbiotic Supplementation Is Associated With the Alteration of Gut Microbiota. PMID:34307437
Social environment and genetics underlie body site-specific microbiomes of Yellowstone National Park gray wolves (Canis lupus). PMID:34306636
Associations between bacterial vaginosis, candida vaginitis, trichomonas vaginalis, and vaginal pathogenic community in Chinese women. PMID:34306475
Integrated Metagenomic Assessment of Multiple Pre-harvest Control Points on Lettuce Resistomes at Field-Scale. PMID:34305845
Dynamics of Microbial Communities across the Life Stages of Nilaparvata lugens (Stål). PMID:34302509
Shift of bacterial communities in heavy metal-contaminated agricultural land during a remediation process. PMID:34297781
Bacterial and Fungal Gut Community Dynamics Over the First 5 Years of Life in Predominantly Rural Communities in Ghana. PMID:34295315
Prolonged drought imparts lasting compositional changes to the rice root microbiome. PMID:34294907
Clostridium butyricum enhances colonization resistance against Clostridioides difficile by metabolic and immune modulation. PMID:34294848
Identification of Bacillus anthracis, Brucella spp., and Coxiella burnetii DNA signatures from bushmeat. PMID:34290271
Assessment of seawater bacterial infection in rabbit tibia by Illumina MiSeq sequencing and bacterial culture. PMID:34289854
Maternal cecal microbiota transfer rescues early-life antibiotic-induced enhancement of type 1 diabetes in mice. PMID:34289377
Dental Plaque Microbial Resistomes of Periodontal Health and Disease and Their Changes after Scaling and Root Planing Therapy. PMID:34287005
Extraction and 16S rRNA Sequence Analysis of Microbiomes Associated with Rice Roots. PMID:34285994
Differential Analysis of Longitudinal Methicillin-Resistant Staphylococcus aureus Colonization in Relation to Microbial Shifts in the Nasal Microbiome of Neonatal Piglets. PMID:34282937
Comprehensive Cultivation of the Swine Gut Microbiome Reveals High Bacterial Diversity and Guides Bacterial Isolation in Pigs. PMID:34282935
Supplementation of a lacto-fermented rapeseed-seaweed blend promotes gut microbial- and gut immune-modulation in weaner piglets. PMID:34281627
Adipose Tissue Inflammation Is Directly Linked to Obesity-Induced Insulin Resistance, while Gut Dysbiosis and Mitochondrial Dysfunction Are Not Required. PMID:34278304
Oral Limonite Supplement Ameliorates Glucose Intolerance in Diabetic and Obese Mice. PMID:34276223
Simple mapping-based quantification of a mock microbial community using total RNA-seq data. PMID:34270567
Caecal microbiota could effectively increase chicken growth performance by regulating fat metabolism. PMID:34264533
Maternal supplementation with phytogenic additives influenced the faecal microbiota and reproductive potential in sows. PMID:34264424
Acetate differentially regulates IgA reactivity to commensal bacteria. PMID:34262176
Characterizing Microbiomes via Sequencing of Marker Loci: Techniques To Improve Throughput, Account for Cross-Contamination, and Reduce Cost. PMID:34254828
Dysbiotic gut microbiota in pancreatic cancer patients form correlation networks with the oral microbiota and prognostic factors. PMID:34249452
Outbreaks of Root Rot Disease in Different Aged American Ginseng Plants Are Associated With Field Microbial Dynamics. PMID:34248889
Bacitracin Methylene Disalicylate Improves Intestinal Health by Modulating Its Development and Microbiota in Weaned Rabbits. PMID:34248860
Benchmark of 16S rRNA gene amplicon sequencing using Japanese gut microbiome data from the V1-V2 and V3-V4 primer sets. PMID:34246242
A new pipeline for structural characterization and classification of RNA-Seq microbiome data. PMID:34243809
Correlations Between Intestinal Microbial Community and Hematological Profile in Native Tibetans and Han Immigrants. PMID:34234749
Matrix Effects on the Delivery Efficacy of Bifidobacterium animalis subsp. lactis BB-12 on Fecal Microbiota, Gut Transit Time, and Short-Chain Fatty Acids in Healthy Young Adults. PMID:34232082
Investigating the Role of Root Exudates in Recruiting Streptomyces Bacteria to the Arabidopsis thaliana Microbiome. PMID:34222338
Structure and Function of Oral Microbial Community in Periodontitis Based on Integrated Data. PMID:34222038
Diversity and Distribution of Uncultured and Cultured Gaiellales and Rubrobacterales in South China Sea Sediments. PMID:34220745
Using Structural Equation Modeling to Understand Interactions Between Bacterial and Archaeal Populations and Volatile Fatty Acid Proportions in the Rumen. PMID:34220728
Extended Ecological Restoration of Bacterial Communities in the Godavari River During the COVID-19 Lockdown Period: a Spatiotemporal Meta-analysis. PMID:34219185
Decreased secondary faecal bile acids in children with ulcerative colitis and Clostridioides difficile infection. PMID:34218431
Mucosa-associated gut microbiota reflects clinical course of ulcerative colitis. PMID:34215773
The effects of ingestion of hydrogen-dissolved alkaline electrolyzed water on stool consistency and gut microbiota: a double-blind randomized trial. PMID:34213495
Bioaugmentation of biofloc system with enzymatic bacterial strains for high health and production performance of Penaeus indicus. PMID:34211034
Mediterranean Diet to Prevent the Development of Colon Diseases: A Meta-Analysis of Gut Microbiota Studies. PMID:34209683
Nanopore Technology and Its Applications in Gene Sequencing. PMID:34208844
Evaluation of the Cholesterol-Lowering Mechanism of Enterococcus faecium Strain 132 and Lactobacillus paracasei Strain 201 in Hypercholesterolemia Rats. PMID:34207558
Acceleration of Small Intestine Development and Remodeling of the Microbiome Following Hyaluronan 35 kDa Treatment in Neonatal Mice. PMID:34204790
Metagenomics and Other Omics Approaches to Bacterial Communities and Antimicrobial Resistance Assessment in Aquacultures. PMID:34203511
AB-Kefir Reduced Body Weight and Ameliorated Inflammation in Adipose Tissue of Obese Mice Fed a High-Fat Diet, but Not a High-Sucrose Diet. PMID:34202894
Tick Ecdysteroid Hormone, Global Microbiota/Rickettsia Signaling in the Ovary versus Carcass during Vitellogenesis in Part-Fed (Virgin) American Dog Ticks, Dermacentor variabilis. PMID:34201013
A Grain-Based SARA Challenge Affects the Composition of Epimural and Mucosa-Associated Bacterial Communities throughout the Digestive Tract of Dairy Cows. PMID:34199660
Gut Dysbiosis and IL-21 Response in Patients with Severe COVID-19. PMID:34199203
Comparative Analyses of the Gut Microbiome of Two Fox Species, the Red Fox (Vulpes Vulpes) and Corsac Fox (Vulpes Corsac), that Occupy Different Ecological Niches. PMID:34189610
Intermittent Hypoxia and Hypercapnia Alter Diurnal Rhythms of Luminal Gut Microbiome and Metabolome. PMID:34184915
Phage vB_PaeS-PAJD-1 Rescues Murine Mastitis Infected With Multidrug-Resistant Pseudomonas aeruginosa. PMID:34178726
Culture-enriched community profiling improves resolution of the vertebrate gut microbiota. PMID:34174174
Can Smoking Cause Differences in Urine Microbiome in Male Patients With Bladder Cancer? A Retrospective Study. PMID:34168995
Developmental intestinal microbiome alterations in canine fading puppy syndrome: a prospective observational study. PMID:34162880
An ecophysiological explanation for manganese enrichment in rock varnish. PMID:34161271
Impact of a bacterial consortium on the soil bacterial community structure and maize (Zea mays L.) cultivation. PMID:34158574
Diverse Viruses in Deep-Sea Hydrothermal Vent Fluids Have Restricted Dispersal across Ocean Basins. PMID:34156293
The impact of propagule pressure on whole community invasions in biomethane-producing communities. PMID:34151242
Predictive functional analysis reveals inferred features unique to cervicovaginal microbiota of African women with bacterial vaginosis and high-risk human papillomavirus infection. PMID:34143825
Representation learning applications in biological sequence analysis. PMID:34141139
Evaluation of bacterial diversity of traditional cheese in Tarbagatay Prefecture, China, and its correlation with cheese quality. PMID:34136180
Gut Microbiota-Related Effects of Tanhuo Decoction in Acute Ischemic Stroke. PMID:34136066
Effect of COVID-19 precautions on the gut microbiota and nosocomial infections. PMID:34132630
Reduced microbial stability in the active layer is associated with carbon loss under alpine permafrost degradation. PMID:34131077
Effect of Dietary Inulin Supplementation on the Gut Microbiota Composition and Derived Metabolites of Individuals Undergoing Hemodialysis: A Pilot Study. PMID:34120835
Effect of sequentially fed high protein, hydrolyzed protein, and high fiber diets on the fecal microbiota of healthy dogs: a cross-over study. PMID:34116725
Legume Consumption and Gut Microbiome in Elderly Chinese Men and Women. PMID:34114016
The Impact of Intensive Fish Farming on Pond Sediment Microbiome and Antibiotic Resistance Gene Composition. PMID:34113676
A probiotic has differential effects on allergic airway inflammation in A/J and C57BL/6 mice and is correlated with the gut microbiome. PMID:34112246
Markers of metabolic health and gut microbiome diversity: findings from two population-based cohort studies. PMID:34110438
Consuming Different Structural Parts of Bamboo Induce Gut Microbiome Changes in Captive Giant Pandas. PMID:34109451
Projection of Gut Microbiome Pre- and Post-Bariatric Surgery To Predict Surgery Outcome. PMID:34100636
Modifying gut integrity and microbiome in children with severe acute malnutrition using legume-based feeds (MIMBLE): A pilot trial. PMID:34095882
The Vaginal Microbial Signatures of Preterm Birth Delivery in Indian Women. PMID:34094994
Cecal microbiome profile of Hawaiian feral chickens and pasture-raised broiler (commercial) chickens determined using 16S rRNA amplicon sequencing. PMID:34091350
Choice of 16S ribosomal RNA primers affects the microbiome analysis in chicken ceca. PMID:34088939
Low shifts in salinity determined assembly processes and network stability of microeukaryotic plankton communities in a subtropical urban reservoir. PMID:34082826
Integrative Analysis of Colonic Biopsies from Inflammatory Bowel Disease Patients Identifies an Interaction Between Microbial Bile Acid-inducible Gene Abundance and Human Angiopoietin-like 4 Gene Expression. PMID:34077506
Comparative analysis of the gut microbiota of mice fed a diet supplemented with raw and cooked beef loin powder. PMID:34075086
Different Non-Structural Carbohydrates/Crude Proteins (NCS/CP) Ratios in Diet Shape the Gastrointestinal Microbiota of Water Buffalo. PMID:34073108
Evaluation of the Potential of Sewage Sludge Mycobiome to Degrade High Diclofenac and Bisphenol-A Concentrations. PMID:34071049
Microbial Composition of SCOBY Starter Cultures Used by Commercial Kombucha Brewers in North America. PMID:34068887
Faecal Microbiome Transplantation as a Solution to Chronic Enteropathies in Dogs: A Case Study of Beneficial Microbial Evolution. PMID:34067662
Processed Animal Proteins from Insect and Poultry By-Products in a Fish Meal-Free Diet for Rainbow Trout: Impact on Intestinal Microbiota and Inflammatory Markers. PMID:34064267
Effects of Starch Level and a Mixture of Sunflower and Fish Oils on Nutrient Intake and Digestibility, Rumen Fermentation, and Ruminal Methane Emissions in Dairy Cows. PMID:34063184
Nonalcoholic Steatohepatitis and HCC in a Hyperphagic Mouse Accelerated by Western Diet. PMID:34062281
Obesity-Related Gut Microbiota Aggravates Alveolar Bone Destruction in Experimental Periodontitis through Elevation of Uric Acid. PMID:34061595
The profile of the soil microbiota in the Cerrado is influenced by land use. PMID:34061229
Composition and Associations of the Infant Gut Fungal Microbiota with Environmental Factors and Childhood Allergic Outcomes. PMID:34060330
Microscopic Colitis Patients Possess a Perturbed and Inflammatory Gut Microbiota. PMID:34059992
Characterization of microbiota diversity of engorged ticks collected from dogs in China. PMID:34056878
Cataloguing the bacterial diversity in the active ectomycorrhizal zone of Astraeus from a dry deciduous forest of Shorea. PMID:34054322
Kefir metabolites in a fly model for Alzheimer's disease. PMID:34045626
Exposure to maternal feces in lactation influences piglet enteric microbiota, growth, and survival preweaning. PMID:34036347
Novel strain-level resolution of Crohn's disease mucosa-associated microbiota via an ex vivo combination of microbe culture and metagenomic sequencing. PMID:34035441
Differential microbial assemblages associated with shikonin-producing Borage species in two distinct soil types. PMID:34031500
Bacterial diversity and predicted enzymatic function in a multipurpose surface water system - from wastewater effluent discharges to drinking water production. PMID:34022963
Tobacco Smoking and the Fecal Microbiome in a Large, Multi-ethnic Cohort. PMID:34020999
Factors contributing to ice nucleation and sequential freezing of leaves in wheat. PMID:34014374
Variation of the Prokaryotic and Eukaryotic Communities After Distinct Methods of Thermal Pretreatment of the Inoculum in Hydrogen-Production Reactors from Sugarcane Vinasse. PMID:34013423
Glycan-based shaping of the microbiota during primate evolution. PMID:34009123
Microbiota populations in supragingival plaque, subgingival plaque, and saliva habitats of adult dogs. PMID:34001282
A cross-sectional analysis from the Mykinso Cohort Study: establishing reference ranges for Japanese gut microbial indices. PMID:33996369
Effect of a bioconverted product of Lotus corniculatus seed on the axillary microbiome and body odor. PMID:33980951
Bacteriome depiction and the trophic status of the largest Northern highland lake from Andes system: Lago de Tota, Boyacá, Colombia. PMID:33978771
Gut microbial ecology of the Critically Endangered Fijian crested iguana (Brachylophus vitiensis): Effects of captivity status and host reintroduction on endogenous microbiomes. PMID:33976843
Individuals at risk for rheumatoid arthritis harbor differential intestinal bacteriophage communities with distinct metabolic potential. PMID:33957082
Integrated 16S rRNA Gene Sequencing and LC-MS Analysis Revealed the Interplay Between Gut Microbiota and Plasma Metabolites in Rats With Ischemic Stroke. PMID:33954858
Beneficial Effect of Alkaloids From Sophora alopecuroides L. on CUMS-Induced Depression Model Mice via Modulating Gut Microbiota. PMID:33954123
Dominant egg surface bacteria of Holotrichia oblita (Coleoptera: Scarabaeidae) inhibit the multiplication of Bacillus thuringiensis and Beauveria bassiana. PMID:33947948
Bacterial Communities in Concrete Reflect Its Composite Nature and Change with Weathering. PMID:33947799
Gut microbiota contributes to the development of endometrial glands in gilts during the ovary-dependent period. PMID:33947457
Bacterial communities in larger islands have reduced temporal turnover. PMID:33941889
Infant gut microbiota modulation by human milk disaccharides in humanized microbiome mice. PMID:33938391
Active Microbiome Structure and Functional Analyses of Freshwater Benthic Biofilm Samples Influenced by RNA Extraction Methods. PMID:33935982
Autism-Associated Variant in the SLC6A3 Gene Alters the Oral Microbiome and Metabolism in a Murine Model. PMID:33935841
The sugar composition of the fibre in selected plant foods modulates weaning infants' gut microbiome composition and fermentation metabolites in vitro. PMID:33927231
OTUs and ASVs Produce Comparable Taxonomic and Diversity from Shrimp Microbiota 16S Profiles Using Tailored Abundance Filters. PMID:33924545
Bacterial Microbiota of Field-Collected Helicoverpa zea (Lepidoptera: Noctuidae) from Transgenic Bt and Non-Bt Cotton. PMID:33923893
Fecal Microbiota Perspective for Evaluation of Prebiotic Potential of Bamboo Hemicellulose Hydrolysate in Mice: A Preliminary Study. PMID:33919296
Do Rural Second Homes Shape Commensal Microbiota of Urban Dwellers? A Pilot Study among Urban Elderly in Finland. PMID:33918486
Characterisation of Early Microbial Colonisers within the Spiral Colon of Pre- and Post-Natal Piglets. PMID:33918395
Nasal Microbiota and Infectious Complications After Elective Surgical Procedures. PMID:33914049
Effects of Aleurone Supplementation on Glucose-Insulin Metabolism and Gut Microbiome in Untrained Healthy Horses. PMID:33912605
Cross-Talk Between Butyric Acid and Gut Microbiota in Ulcerative Colitis Following Fecal Microbiota Transplantation. PMID:33912150
Anaerobic Microbial Metabolism of Dichloroacetate. PMID:33906923
A multi-omics approach to lignocellulolytic enzyme discovery reveals a new ligninase activity from Parascedosporium putredinis NO1. PMID:33903229
Microbial diversity of co-occurring heterotrophs in cultures of marine picocyanobacteria. PMID:33902739
A rather dry subject; investigating the study of arid-associated microbial communities. PMID:33902728
Tax4Fun2: prediction of habitat-specific functional profiles and functional redundancy based on 16S rRNA gene sequences. PMID:33902725
The impact of sequencing depth on the inferred taxonomic composition and AMR gene content of metagenomic samples. PMID:33902704
G2S: A New Deep Learning Tool for Predicting Stool Microbiome Structure From Oral Microbiome Data. PMID:33897763
Infant Feeding Alters the Longitudinal Impact of Birth Mode on the Development of the Gut Microbiota in the First Year of Life. PMID:33897650
Domestication Shapes the Community Structure and Functional Metagenomic Content of the Yak Fecal Microbiota. PMID:33897627
Forecasting the dissemination of antibiotic resistance genes across bacterial genomes. PMID:33893312
Soil microbiome predictability increases with spatial and taxonomic scale. PMID:33888877
Effects of phytonutrient-supplemented diets on the intestinal microbiota of Cyprinus carpio. PMID:33886562
HPV infection and bacterial microbiota in the semen from healthy men. PMID:33882835
Mucosa-associated gut microbiome in Japanese patients with functional constipation. PMID:33879972
Bacterial-fungal interactions in the neonatal gut influence asthma outcomes later in life. PMID:33876729
Temporal overexpression of IL-22 and Reg3γ differentially impacts the severity of experimental autoimmune encephalomyelitis. PMID:33876425
The hierarchy of root branching order determines bacterial composition, microbial carrying capacity and microbial filtering. PMID:33875783
Sexual dimorphism in the progression of type 2 diabetic kidney disease in T2DN rats. PMID:33870721
Defining the temporal evolution of gut dysbiosis and inflammatory responses leading to hepatocellular carcinoma in Mdr2 -/- mouse model. PMID:33858327
The microbial diversity following antibiotic treatment of Clostridioides difficile infection. PMID:33849457
The larval environment strongly influences the bacterial communities of Aedes triseriatus and Aedes japonicus (Diptera: Culicidae). PMID:33846445
Comparison of Methods for Picking the Operational Taxonomic Units From Amplicon Sequences. PMID:33841367
Comparative Study of the Rhizosphere and Root Endosphere Microbiomes of Cholistan Desert Plants. PMID:33841349
Gut microbiota profiles and characterization of cultivable fungal isolates in IBS patients. PMID:33839797
Predominant Microbial Colonizers in the Root Endosphere and Rhizosphere of Turfgrass Systems: Pseudomonas veronii, Janthinobacterium lividum, and Pseudogymnoascus spp. PMID:33833744
EzMAP: Easy Microbiome Analysis Platform. PMID:33827413
Prokaryotic taxonomy and nomenclature in the age of big sequence data. PMID:33824426
Dietary Fiber Ameliorates Lipopolysaccharide-Induced Intestinal Barrier Function Damage in Piglets by Modulation of Intestinal Microbiome. PMID:33824201
The Gut Microbiome in Autism: Study-Site Effects and Longitudinal Analysis of Behavior Change. PMID:33824197
Children with Autism and Their Typically Developing Siblings Differ in Amplicon Sequence Variants and Predicted Functions of Stool-Associated Microbes. PMID:33824194
Integrative microbiomics in bronchiectasis exacerbations. PMID:33820995
Changes in the fecal microbiome of the Yangtze finless porpoise during a short-term therapeutic treatment. PMID:33817218
Nanopore sequencing and its application to the study of microbial communities. PMID:33815688
Prokaryotic community diversity during bioremediation of crude oil contaminated oilfield soil: effects of hydrocarbon concentration and salinity. PMID:33813729
Effectiveness of decontamination protocols when analyzing ancient DNA preserved in dental calculus. PMID:33811235
Effect of Supplementing Seaweed Extracts to Pigs until d35 Post-Weaning on Performance and Aspects of Intestinal Health. PMID:33810463
Momordica cochinchinensis Aril Ameliorates Diet-Induced Metabolic Dysfunction and Non-Alcoholic Fatty Liver by Modulating Gut Microbiota. PMID:33808007
Overwintering Honey Bee Colonies: Effect of Worker Age and Climate on the Hindgut Microbiota. PMID:33807581
Metagenomic Analysis of the Respiratory Microbiome of a Broiler Flock from Hatching to Processing. PMID:33807233
Akkermansia, a Possible Microbial Marker for Poor Glycemic Control in Qataris Children Consuming Arabic Diet-A Pilot Study on Pediatric T1DM in Qatar. PMID:33806427
Gut Digestive Function and Microbiome after Correction of Experimental Dysbiosis in Rats by Indigenous Bifidobacteria. PMID:33806341
Transient Effect of Infant Formula Supplementation on the Intestinal Microbiota. PMID:33804415
The Western Dietary Pattern Combined with Vancomycin-Mediated Changes to the Gut Microbiome Exacerbates Colitis Severity and Colon Tumorigenesis. PMID:33803094
Allium Extract Implements Weaned Piglet's Productive Parameters by Modulating Distal Gut Microbiota. PMID:33800152
Transverse aortic constriction induces gut barrier alterations, microbiota remodeling and systemic inflammation. PMID:33795775
Combined effects of composting and antibiotic administration on cattle manure-borne antibiotic resistance genes. PMID:33795006
Longitudinal study of the scalp microbiome suggests coconut oil to enrich healthy scalp commensals. PMID:33790324
Third generation cephalosporins and piperacillin/tazobactam have distinct impacts on the microbiota of critically ill patients. PMID:33790304
Dental chews positively shift the oral microbiota of adult dogs. PMID:33780530
Age-Based Variations in the Gut Microbiome of the Shennongjia (Hubei) Golden Snub-Nosed Monkey (Rhinopithecus roxellana hubeiensis). PMID:33778078
Polychlorinated biphenyls altered gut microbiome in CAR and PXR knockout mice exhibiting toxicant-associated steatohepatitis. PMID:33777700
A murine model to study the gut bacteria parameters during complex antibiotics like cefotaxime and ceftriaxone treatment. PMID:33777338
Evaluation of Established Methods for DNA Extraction and Primer Pairs Targeting 16S rRNA Gene for Bacterial Microbiota Profiling of Olive Xylem Sap. PMID:33777075
Microbial Characteristics of Locally Advanced Rectal Cancer Patients After Neoadjuvant Chemoradiation Therapy According to Pathologic Response. PMID:33776484
The gut microbial composition in polycystic ovary syndrome with insulin resistance: findings from a normal-weight population. PMID:33773586
Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson's disease individuals. PMID:33771222
The Impacts of the Occupants on the Bacterial Communities of Classrooms. PMID:33768385
Comparative proteomic profiling of newly acquired, virulent and attenuated Neoparamoeba perurans proteins associated with amoebic gill disease. PMID:33767232
Ultrafine particles altered gut microbial population and metabolic profiles in a sex-specific manner in an obese mouse model. PMID:33767227
Early Life Intervention Using Probiotic Clostridium butyricum Improves Intestinal Development, Immune Response, and Gut Microbiota in Large Yellow Croaker (Larimichthys crocea) Larvae. PMID:33763082
Characterization and Functional Test of Canine Probiotics. PMID:33763044
Evaluation of 16S rRNA primer sets for characterisation of microbiota in paediatric patients with autism spectrum disorder. PMID:33762692
Effects of Lactobacillus salivarius isolated from feces of fast-growing pigs on intestinal microbiota and morphology of suckling piglets. PMID:33762614
Characterization of the bacterial microbiome of Rhipicephalus (Boophilus) microplus collected from Pecari tajacu "Sajino" Madre de Dios, Peru. PMID:33758359
16S rRNA sequencing of samples from universal stool bank donors. PMID:33757553
Effects of domestication on the gut microbiota parallel those of human industrialization. PMID:33755015
Monitoring the variation in the gut microbiota of captive woolly monkeys related to changes in diet during a reintroduction process. PMID:33753830
Developmental exposure to silver nanoparticles leads to long term gut dysbiosis and neurobehavioral alterations. PMID:33753813
Herbivory changes soil microbial communities and greenhouse gas fluxes in a high-latitude wetland. PMID:33751165
Predictive Metagenomic Analysis of Autoimmune Disease Identifies Robust Autoimmunity and Disease Specific Microbial Signatures. PMID:33746917
Heat-killed Lactobacillus brevis KB290 attenuates visceral fat accumulation induced by high-fat diet in mice. PMID:33742756
Placentas delivered by pre-pregnant obese women have reduced abundance and diversity in the microbiome. PMID:33742690
Bacterial Swarmers Enriched During Intestinal Stress Ameliorate Damage. PMID:33741315
Large-scale functional network connectivity mediate the associations of gut microbiota with sleep quality and executive functions. PMID:33739571
Evaluating domestication and ploidy effects on the assembly of the wheat bacterial microbiome. PMID:33735198
Global analysis of the apple fruit microbiome: are all apples the same? PMID:33734550
Integrative analysis of the microbiome and metabolome in understanding the causes of sugarcane bitterness. PMID:33727648
Gut Microbiota Signatures in Gestational Anemia. PMID:33718259
Hypothesis testing for phylogenetic composition: a minimum-cost flow perspective. PMID:33716568
Predicting spatial patterns of soil bacteria under current and future environmental conditions. PMID:33712699
Deficiency of Dietary Fiber Modulates Gut Microbiota Composition, Neutrophil Recruitment and Worsens Experimental Colitis. PMID:33708211
Dysbiosis of gut microbiota and its correlation with dysregulation of cytokines in psoriasis patients. PMID:33685393
Tumor-Associated Microbiota in Esophageal Squamous Cell Carcinoma. PMID:33681225
An altered gut microbiota in duck-origin parvovirus infection on cherry valley ducklings is associated with mucosal barrier dysfunction. PMID:33677399
DNA Metabarcoding for the Characterization of Terrestrial Microbiota-Pitfalls and Solutions. PMID:33673098
Gut Microbial Composition Differs Extensively among Indian Native Chicken Breeds Originated in Different Geographical Locations and a Commercial Broiler Line, but Breed-Specific, as Well as Across-Breed Core Microbiomes, Are Found. PMID:33672925
Host-Microbiome Interactions Mediated by Phenolic Metabolites in Chronically Critically Ill Patients. PMID:33672777
Strongyloides stercoralis Infestation in a Child: How a Nematode Can Affect Gut Microbiota. PMID:33669932
Gut Microbiomes of Freshwater Mussels (Unionidae) Are Taxonomically and Phylogenetically Variable across Years but Remain Functionally Stable. PMID:33669471
Intestinal Dysbiosis in Young Cystic Fibrosis Rabbits. PMID:33669429
Community composition of cecal microbiota in commercial yellow broilers with high and low feed efficiencies. PMID:33667869
Bile acid-receptor TGR5 deficiency worsens liver injury in alcohol-fed mice by inducing intestinal microbiota dysbiosis. PMID:33665587
The comprehensive changes in soil properties are continuous cropping obstacles associated with American ginseng (Panax quinquefolius) cultivation. PMID:33658624
Trans-ethnic gut microbial signatures of prediabetic subjects from India and Denmark. PMID:33658065
Trans-ethnic gut microbiota signatures of type 2 diabetes in Denmark and India. PMID:33658058
Effect of copper sulfate on the external microbiota of adult common snook (Centropomus undecimalis). PMID:33653402
The Lung Microbiome in Young Children with Cystic Fibrosis: A Prospective Cohort Study. PMID:33652802
Probiotic Bacillus subtilis 29,784 improved weight gain and enhanced gut health status of broilers under necrotic enteritis condition. PMID:33647722
Compatible Mycorrhizal Types Contribute to a Better Design for Mixed Eucalyptus Plantations. PMID:33643349
Berberine Promotes Induction of Immunological Tolerance to an Allograft via Downregulating Memory CD8+ T-Cells Through Altering the Gut Microbiota. PMID:33643325
Microbial Community Dynamics of Soybean (Glycine max) Is Affected by Cropping Sequence. PMID:33643263
Bacterial dysbiosis predicts the diagnosis of Crohn's disease in Saudi children. PMID:33642351
Bacterial Diversity in Pickled Cowpea (Vigna unguiculata [Linn.] Walp) as Determined by Illumina MiSeq Sequencing and Culture-Dependent Methods. PMID:33638668
Interaction dynamics and virus-host range for estuarine actinophages captured by epicPCR. PMID:33633401
Characterization and comparison of the bacterial community between complete intensive and extensive feeding patterns in pigs. PMID:33630191
Primer, Pipelines, Parameters: Issues in 16S rRNA Gene Sequencing. PMID:33627512
Gut microbiota alterations associated with antibody-mediated rejection after kidney transplantation. PMID:33625548
Alterations in the gut microbiome and metabolic profile in rats acclimated to high environmental temperature. PMID:33620148
Climate change alters temporal dynamics of alpine soil microbial functioning and biogeochemical cycling via earlier snowmelt. PMID:33619353
Microbiomics of irrigation with xylitol or Lactococcus lactis in chronic rhinosinusitis. PMID:33614931
Identification of novel bacterial biomarkers to detect bird scavenging by invasive rats. PMID:33614005
Plant-Dependent Soil Bacterial Responses Following Amendment With a Multispecies Microbial Biostimulant Compared to Rock Mineral and Chemical Fertilizers. PMID:33613577
Characterization of the Oral Microbiome of Medicated Type-2 Diabetes Patients. PMID:33613481
Gastrointestinal Helminth Infection Improves Insulin Sensitivity, Decreases Systemic Inflammation, and Alters the Composition of Gut Microbiota in Distinct Mouse Models of Type 2 Diabetes. PMID:33613446
A gene co-association network regulating gut microbial communities in a Duroc pig population. PMID:33612109
Spermidine-induced recovery of human dermal structure and barrier function by skin microbiome. PMID:33608630
Antidepressants fluoxetine and amitriptyline induce alterations in intestinal microbiota and gut microbiome function in rats exposed to chronic unpredictable mild stress. PMID:33602895
Disruptions in oral and nasal microbiota in biomass and tobacco smoke associated chronic obstructive pulmonary disease. PMID:33598807
The Butyrate-Producing Bacterium Clostridium butyricum Suppresses Clostridioides difficile Infection via Neutrophil- and Antimicrobial Cytokine-Dependent but GPR43/109a-Independent Mechanisms. PMID:33597149
Hierarchical Microbial Functions Prediction by Graph Aggregated Embedding. PMID:33584804
Localization of bacterial communities within gut compartments across Cephalotes turtle ants. PMID:33579688
An application of compositional data analysis to multiomic time-series data. PMID:33575625
Dysbacteriosis of the Intestinal Flora Is an Important Reason for the Death of Adult House Flies Caused by Beauveria bassiana. PMID:33574812
Allium-Based Phytobiotic Enhances Egg Production in Laying Hens through Microbial Composition Changes in Ileum and Cecum. PMID:33572138
Repeatability and reproducibility assessment in a large-scale population-based microbiota study: case study on human milk microbiota. PMID:33568231
Characteristics of gut microbiota in pigs with different breeds, growth periods and genders. PMID:33566446
Gut Microbiota Profile in Children with IgE-Mediated Cow's Milk Allergy and Cow's Milk Sensitization and Probiotic Intestinal Persistence Evaluation. PMID:33562104
The Gut Microbiome and Metabolomics Profiles of Restricting and Binge-Purging Type Anorexia Nervosa. PMID:33557302
Effect of dietary inclusion of graded levels of distillers dried grains with solubles on the performance, blood profile and rumen microbiota of Najdi lambs. PMID:33553711
Gut microbiota development during infancy: Impact of introducing allergenic foods. PMID:33551026
Antibiotic-associated dysbiosis affects the ability of the gut microbiota to control intestinal inflammation upon fecal microbiota transplantation in experimental colitis models. PMID:33549144
Soil depth matters: shift in composition and inter-kingdom co-occurrence patterns of microorganisms in forest soils. PMID:33547899
Boolean implication analysis unveils candidate universal relationships in microbiome data. PMID:33546590
Distinctive Microbial Signatures and Gut-Brain Crosstalk in Pediatric Patients with Coeliac Disease and Type 1 Diabetes Mellitus. PMID:33546364
Dietary Rice Bran-Modified Human Gut Microbial Consortia Confers Protection against Colon Carcinogenesis Following Fecal Transfaunation. PMID:33546192
Evaluation of curcumin and copper acetate against Salmonella Typhimurium infection, intestinal permeability, and cecal microbiota composition in broiler chickens. PMID:33541441
rANOMALY: AmplicoN wOrkflow for Microbial community AnaLYsis. PMID:33537122
A Sarcina bacterium linked to lethal disease in sanctuary chimpanzees in Sierra Leone. PMID:33536429
Early life environmental exposures have a minor impact on the gut ecosystem following a natural birth. PMID:33530826
Effects of Tilletia foetida on Microbial Communities in the Rhizosphere Soil of Wheat Seeds Coated with Different Concentrations of Jianzhuang. PMID:33527233
The Microbial Flora in an Experimental Polymicrobial Abdominal Sepsis Model Probed by 16S rRNA Sequencing. PMID:33521166
Characterisation of gut microbiota of obesity and type 2 diabetes in a rodent model. PMID:33520571
High-throughput sequencing-based analysis of the intestinal microbiota of broiler chickens fed with compound small peptides of Chinese medicine. PMID:33518313
Amynthas corticis genome reveals molecular mechanisms behind global distribution. PMID:33514865
Microbiome and Graves' Orbitopathy. PMID:33511088
Diversity of microbes colonizing forages of varying lignocellulose properties in the sheep rumen. PMID:33510967
Substrate Pre-loading Influences Initial Colonization of GAC Biofilter Biofilms. PMID:33510720
Phytophthora Root Rot Modifies the Composition of the Avocado Rhizosphere Microbiome and Increases the Abundance of Opportunistic Fungal Pathogens. PMID:33510714
Bacterial meta-analysis of chicken cecal microbiota. PMID:33505795
Predominance of Atopobium vaginae at Midtrimester: a Potential Indicator of Preterm Birth Risk in a Nigerian Cohort. PMID:33504666
Neonatal antibiotic exposure impairs child growth during the first six years of life by perturbing intestinal microbial colonization. PMID:33500411
Bugs and drugs: a systems biology approach to characterising the effect of moxidectin on the horse's faecal microbiome. PMID:33499996
Inoculation with rumen fluid in early life accelerates the rumen microbial development and favours the weaning process in goats. PMID:33499992
Influences of claywater and greenwater on the skin microbiome of cultured larval sablefish (Anoplopoma fimbria). PMID:33499990
Variation in gut bacterial composition is associated with Haemonchus contortus parasite infection of sheep. PMID:33499986
Diet-induced changes in bacterial communities in the jejunum and their associations with bile acids in Angus beef cattle. PMID:33499973
Microbial environment shapes immune function and cloacal microbiota dynamics in zebra finches Taeniopygia guttata. PMID:33499970
Effect of Cyberlindnera jadinii yeast as a protein source on intestinal microbiota and butyrate levels in post-weaning piglets. PMID:33499966
Microbiome-host co-oscillation patterns in remodeling of colonic homeostasis during adaptation to a high-grain diet in a sheep model. PMID:33499965
Temporal stability of the rumen microbiota in beef cattle, and response to diet and supplements. PMID:33499961
Development of the equine hindgut microbiome in semi-feral and domestic conventionally-managed foals. PMID:33499959
Microbial symbiosis and coevolution of an entire clade of ancient vertebrates: the gut microbiota of sea turtles and its relationship to their phylogenetic history. PMID:33499954
The gut microbiome of horses: current research on equine enteral microbiota and future perspectives. PMID:33499951
Effect of the macroalgae Asparagopsis taxiformis on methane production and rumen microbiome assemblage. PMID:33499933
The use of live yeast to increase intake and performance of cattle receiving low-quality tropical forages. PMID:33493259
An acetate-yielding diet imprints an immune and anti-microbial programme against enteric infection. PMID:33489123
Wine Terroir and the Soil Bacteria: An Amplicon Sequencing-Based Assessment of the Barossa Valley and Its Sub-Regions. PMID:33488543
Comparison and interpretation of characteristics of Rhizosphere microbiomes of three blueberry varieties. PMID:33482726
Whole microbial community viability is not quantitatively reflected by propidium monoazide sequencing approach. PMID:33478576
Long-term diet quality is associated with gut microbiome diversity and composition among urban Chinese adults. PMID:33471054
Linking Gut Microbiome and Lipid Metabolism: Moving beyond Associations. PMID:33467644
Fecal microbiome and metabolome differ in healthy and food-allergic twins. PMID:33463536
Signatures within esophageal microbiota with progression of esophageal squamous cell carcinoma. PMID:33446998
Small-Scale Variability in Bacterial Community Structure in Different Soil Types. PMID:33443587
Methotrexate impacts conserved pathways in diverse human gut bacteria leading to decreased host immune activation. PMID:33440172
Menopausal status and observed differences in the gut microbiome in women with and without HIV infection. PMID:33438892
Low-dosage ozonation in gas-phase biofilter promotes community diversity and robustness. PMID:33436067
Bifidobacterium bifidum strains synergize with immune checkpoint inhibitors to reduce tumour burden in mice. PMID:33432149
Impaired host response and the presence of Acinetobacter baumannii in the serum microbiome of type-II diabetic patients. PMID:33426512
Metagenomic 16S rDNA amplicon data of microbial diversity of guts in Vietnamese humans with type 2 diabetes and nondiabetic adults. PMID:33426245
Vitamin A Deficiency in the Early-Life Periods Alters a Diversity of the Colonic Mucosal Microbiota in Rats. PMID:33425970
Dietary Lipid:Protein Ratio and n-3 Long-Chain Polyunsaturated Fatty Acids Alters the Gut Microbiome of Atlantic Salmon Under Hypoxic and Normoxic Conditions. PMID:33424792
Oyster Calcifying Fluid Harbors Persistent and Dynamic Autochthonous Bacterial Populations That May Aid in Shell Formation. PMID:33424068
Effects of king grass and sugarcane top in the absence or presence of exogenous enzymes on the growth performance and rumen microbiota diversity of goats. PMID:33417104
Characterization of the microbiota and chemical properties of pork loins during dry aging. PMID:33415844
The Effects of a Ketogenic Medium-Chain Triglyceride Diet on the Feces in Dogs With Idiopathic Epilepsy. PMID:33415132
Dysbiosis of urine microbiota in obstructive urinary retention patients revealed by next-generation sequencing. PMID:33407528
Vertical distribution of prokaryotes communities and predicted metabolic pathways in New Zealand wetlands, and potential for environmental DNA indicators of wetland condition. PMID:33406114
Assessment of two DNA extraction kits for profiling poultry respiratory microbiota from multiple sample types. PMID:33406075
Host-Associated Quantitative Abundance Profiling Reveals the Microbial Load Variation of Root Microbiome. PMID:33404537
Experimental crossover study on the effects of withholding feed for 24 h on the equine faecal bacterial microbiota in healthy mares. PMID:33402190
Transkingdom interactions between Lactobacilli and hepatic mitochondria attenuate western diet-induced diabetes. PMID:33397942
Effect of Senecio scandens ethanol extract on gut microbiota composition in mice. PMID:33394080
Response of gut microbiota to feed-borne bacteria depends on fish growth rate: a snapshot survey of farmed juvenile Takifugu obscurus. PMID:33393737
The effects of taxonomy, diet, and ecology on the microbiota of riverine macroinvertebrates. PMID:33391698
Comparative Analysis of the Gut Microbial Communities of the Eurasian Kestrel (Falco tinnunculus) at Different Developmental Stages. PMID:33391209
Vancomycin-Induced Changes in Host Immunity and Behavior: Comparative Genomic and Metagenomic Analysis in C57BL/6 and BALB/c Mice. PMID:33386517
Effects of a Synbiotic Formula on Functional Bowel Disorders and Gut Microbiota Profile during Long-Term Home Enteral Nutrition (LTHEN): A Pilot Study. PMID:33383954
Gut Microbiome Composition Remains Stable in Individuals with Diabetes-Related Early to Late Stage Chronic Kidney Disease. PMID:33383810
The cancer microbiome atlas: a pan-cancer comparative analysis to distinguish tissue-resident microbiota from contaminants. PMID:33382980
The Gut Microbiome and Alcoholic Liver Disease: Ethanol Consumption Drives Consistent and Reproducible Alteration in Gut Microbiota in Mice. PMID:33374112
Graded dietary resistant starch concentrations on apparent total tract macronutrient digestibility and fecal fermentative end products and microbial populations of healthy adult dogs. PMID:33373446
Environment and host species identity shape gut microbiota diversity in sympatric herbivorous mammals. PMID:33369229
Microbiota succession during aerobic stability of maize silage inoculated with Lentilactobacillus buchneri NCIMB 40788 and Lentilactobacillus hilgardii CNCM-I-4785. PMID:33369186
Six-Week Exercise Training With Dietary Restriction Improves Central Hemodynamics Associated With Altered Gut Microbiota in Adolescents With Obesity. PMID:33365012
Synthetic Sequencing Standards: A Guide to Database Choice for Rumen Microbiota Amplicon Sequencing Analysis. PMID:33363527
Response of Microbial Community to Induced Failure of Anaerobic Digesters Through Overloading With Propionic Acid Followed by Process Recovery. PMID:33363133
Effect of dietary oil from Camelina sativa on the growth performance, fillet fatty acid profile and gut microbiome of gilthead Sea bream (Sparus aurata). PMID:33354421
Multi-omics data integration considerations and study design for biological systems and disease. PMID:33347526
The Composition and Predictive Function of the Fecal Microbiota Differ Between Young and Adult Donkeys. PMID:33343537
Diet Rich in Simple Sugars Promotes Pro-Inflammatory Response via Gut Microbiota Alteration and TLR4 Signaling. PMID:33339337
Effects of Bacterial Supplementation on Black Soldier Fly Growth and Development at Benchtop and Industrial Scale. PMID:33324369
Identification of the gut microbiota biomarkers associated with heat cycle and failure to enter oestrus in gilts. PMID:33305898
The potential role of vitamin D supplementation as a gut microbiota modifier in healthy individuals. PMID:33303854
Composition and geographic variation of the bacterial microbiota associated with the coelomic fluid of the sea urchin Paracentrotus lividus. PMID:33293569
Gut microbiota composition and metabolomic profiles of wild and captive Chinese monals (Lophophorus lhuysii). PMID:33292307
Stratification of athletes' gut microbiota: the multifaceted hubs associated with dietary factors, physical characteristics and performance. PMID:33289609
Interpretable Machine Learning Framework Reveals Robust Gut Microbiome Features Associated With Type 2 Diabetes. PMID:33288652
Respiratory tissue-associated commensal bacteria offer therapeutic potential against pneumococcal colonization. PMID:33287959
Endotoxemia and circulating bacteriome in severe COVID-19 patients. PMID:33284413
Exploring the Influence of Signal Molecules on Marine Biofilms Development. PMID:33281767
Pomegranate Metabolites Impact Tryptophan Metabolism in Humans and Mice. PMID:33274309
Complete Genome Sequences of Four Natural Pseudomonas Isolates That Catabolize a Wide Range of Aromatic Compounds Relevant to Lignin Valorization. PMID:33272987
CoMA - an intuitive and user-friendly pipeline for amplicon-sequencing data analysis. PMID:33264369
Data-Driven Modeling for Species-Level Taxonomic Assignment From 16S rRNA: Application to Human Microbiomes. PMID:33262743
Feeding selenium-biofortified alfalfa hay during the preconditioning period improves growth, carcass weight, and nasal microbial diversity of beef calves. PMID:33259499
Contrasting community assembly processes structure lotic bacteria metacommunities along the river continuum. PMID:33258525
An unusual microbiome characterises a spatially-aggressive crustose alga rapidly overgrowing shallow Caribbean reefs. PMID:33257715
Effect of diet and intestinal AhR expression on fecal microbiome and metabolomic profiles. PMID:33256731
The Duration of Increased Grain Feeding Affects the Microbiota throughout the Digestive Tract of Yearling Holstein Steers. PMID:33255574
Biochar and compost effects on soil microbial communities and nitrogen induced respiration in turfgrass soils. PMID:33253199
Selective Bacterial Colonization of the Murine Larynx in a Gnotobiotic Model. PMID:33250883
Mild heat stress changes the microbiota diversity in the respiratory tract and the cecum of layer-type pullets. PMID:33248618
Association between gut microbiota, bone metabolism, and fracture risk in postmenopausal Japanese women. PMID:33241467
Cerumen microbial community shifts between healthy and otitis affected dogs. PMID:33237912
Shifts in methanogenic archaea communities and methane dynamics along a subtropical estuarine land use gradient. PMID:33232349
Effect of sterilization on the canine vaginal microbiota: a pilot study. PMID:33228646
Young «oil site» of the Uzon Caldera as a habitat for unique microbial life. PMID:33228530
Network Analysis of Gut Microbiome and Metabolome to Discover Microbiota-Linked Biomarkers in Patients Affected by Non-Small Cell Lung Cancer. PMID:33227982
Optimizing the quality of clinical studies on oral microbiome: A practical guide for planning, performing, and reporting. PMID:33226702
Skin and stinger bacterial communities in two critically endangered rays from the South Atlantic in natural and aquarium settings. PMID:33226191
Characterization of gut microbiota associated with clinical parameters in intrahepatic cholestasis of pregnancy. PMID:33225888
Dynamic of Composition and Diversity of Gut Microbiota in Triatoma rubrofasciata in Different Developmental Stages and Environmental Conditions. PMID:33224899
Viral Lysis Alters the Optical Properties and Biological Availability of Dissolved Organic Matter Derived from Prochlorococcus Picocyanobacteria. PMID:33218998
Gut microbiome signature of Viliuisk encephalomyelitis in Yakuts includes an increase in microbes linked to lean body mass and eating behaviour. PMID:33218345
Next-Generation Sequencing as a Tool to Detect Vaginal Microbiota Disturbances during Pregnancy. PMID:33217908
Saccharomyces cerevisiae Fermentation Product Did Not Attenuate Clinical Signs, but Psyllium Husk Has Protective Effects in a Murine Dextran Sulfate Sodium-Induced Colitis Model. PMID:33215055
Bacterial compositions of indigenous Lanna (Northern Thai) fermented foods and their potential functional properties. PMID:33206720
Seed-Derived Microbial Colonization of Wild Emmer and Domesticated Bread Wheat (Triticum dicoccoides and T. aestivum) Seedlings Shows Pronounced Differences in Overall Diversity and Composition. PMID:33203759
The haybiome: Characterising the viable bacterial community profile of four different hays for horses following different pre-feeding regimens. PMID:33201929
Effect of Inorganic N Top Dressing and Trichoderma harzianum Seed-Inoculation on Crop Yield and the Shaping of Root Microbial Communities of Wheat Plants Cultivated Under High Basal N Fertilization. PMID:33193517
Soil-Derived Inocula Enhance Methane Production and Counteract Common Process Failures During Anaerobic Digestion. PMID:33193175
Interpretations of Environmental Microbial Community Studies Are Biased by the Selected 16S rRNA (Gene) Amplicon Sequencing Pipeline. PMID:33193131
Diversity, function and assembly of mangrove root-associated microbial communities at a continuous fine-scale. PMID:33184266
Navigating the Human Gut Microbiome: Pathway to Success from Lessons Learned. PMID:33181127
Phytogenic products, used as alternatives to antibiotic growth promoters, modify the intestinal microbiota derived from a range of production systems: an in vitro model. PMID:33180171
Curing piglets from diarrhea and preparation of a healthy microbiome with Bacillus treatment for industrial animal breeding. PMID:33173074
Diet Influences the Oral Microbiota of Infants during the First Six Months of Life. PMID:33167488
Influence of sanguinarine-based phytobiotic supplementation on post necrotic enteritis challenge recovery. PMID:33163676
Testing the Two-Step Model of Plant Root Microbiome Acquisition Under Multiple Plant Species and Soil Sources. PMID:33162946
Fecal Microbial Signatures Are Associated With Engraftment Failure Following Umbilical Cord Blood Transplantation in Pediatric Crohn's Disease Patients With IL10RA Deficiency. PMID:33162889
Soluble Immune Checkpoints, Gut Metabolites and Performance Status as Parameters of Response to Nivolumab Treatment in NSCLC Patients. PMID:33158018
Monitoring the Diversity and Metabolic Shift of Gut Microbes during Green Tea Feeding in an In Vitro Human Colonic Model. PMID:33153091
Vegetation drives the structure of active microbial communities on an acidogenic mine tailings deposit. PMID:33150067
Response of Salivary Microbiota to Caries Preventive Treatment in Aboriginal and Torres Strait Islander Children. PMID:33149844
Desacetyl-α-MSH and α-MSH have sex specific interactions with diet to influence mouse gut morphology, metabolites and microbiota. PMID:33144604
The Diversity, Composition, and Putative Functions of Gill-Associated Bacteria of Bathymodiolin Mussel and Vesicomyid Clam from Haima Cold Seep, South China Sea. PMID:33143295
Dietary resistant starch preserved through mild extrusion of grain alters fecal microbiome metabolism of dietary macronutrients while increasing immunoglobulin A in the cat. PMID:33141838
A comprehensive human minimal gut metagenome extends the host's metabolic potential. PMID:33141656
Gut Microbiota, Blood Metabolites, and Spleen Immunity in Broiler Chickens Fed Berry Pomaces and Phenolic-Enriched Extractives. PMID:33134328
Gut Microbiological Disorders Reduce Semen Utilization Rate in Duroc Boars. PMID:33133051
Intercropping With Turmeric or Ginger Reduce the Continuous Cropping Obstacles That Affect Pogostemon cablin (Patchouli). PMID:33133047
BIOCOM-PIPE: a new user-friendly metabarcoding pipeline for the characterization of microbial diversity from 16S, 18S and 23S rRNA gene amplicons. PMID:33129268
Effect of Warming on Growth, Grazing, and Community Composition of Free-Living Bacterioplankton in Subtropical Coastal Waters During Winter and Summer. PMID:33123098
The Status of Soil Microbiome as Affected by the Application of Phosphorus Biofertilizer: Fertilizer Enriched with Beneficial Bacterial Strains. PMID:33121206
Streptococcus thermophiles DMST-H2 Promotes Recovery in Mice with Antibiotic-Associated Diarrhea. PMID:33114373
Gut microbiota profiles of treatment-naïve adult acute myeloid leukemia patients with neutropenic fever during intensive chemotherapy. PMID:33112882
Genome-based classification of Acidihalobacter prosperus F5 (=DSM 105917=JCM 32255) as Acidihalobacter yilgarnensis sp. nov. PMID:33112221
Culex pipiens and Culex restuans egg rafts harbor diverse bacterial communities compared to their midgut tissues. PMID:33109276
Microbial signature in IgE-mediated food allergies. PMID:33109272
Microbiota profile and efficacy of probiotic supplementation on laxation in adults affected by Prader-Willi Syndrome: A randomized, double-blind, crossover trial. PMID:33103385
Gut Microbiome Changes Associated With HIV Infection and Sexual Orientation. PMID:33102244
Candida Administration Worsens Cecal Ligation and Puncture-Induced Sepsis in Obese Mice Through Gut Dysbiosis Enhanced Systemic Inflammation, Impact of Pathogen-Associated Molecules From Gut Translocation and Saturated Fatty Acid. PMID:33101279
Microbiome and environment explain the absence of correlations between consumers and their diet in Bornean microsnails. PMID:33098661
Soil inoculation of Trichoderma asperellum M45a regulates rhizosphere microbes and triggers watermelon resistance to Fusarium wilt. PMID:33095335
A Novel Corn-Expressed Phytase Improves Daily Weight Gain, Protein Efficiency Ratio and Nutrients Digestibility and Alters Fecal Microbiota in Pigs Fed with Very Low Protein Diets. PMID:33092137
The Microbiota Profile in Inflamed and Non-Inflamed Ileal Pouch-Anal Anastomosis. PMID:33092101
Comparison Between the Gut Microbiota in Different Gastrointestinal Segments of Large-Tailed Han and Small-Tailed Han Sheep Breeds with High-Throughput Sequencing. PMID:33087993
Taxonomic profiling and functional characterization of the healthy human oral bacterial microbiome from the north Indian urban sub-population. PMID:33084948
Diversity of gut microbiomes in marine fishes is shaped by host-related factors. PMID:33084100
Fecal microbiota in client-owned obese dogs changes after weight loss with a high-fiber-high-protein diet. PMID:33083100
Gut microbiota patterns associated with somatostatin in patients undergoing pancreaticoduodenectomy: a prospective study. PMID:33083016
Nutritional profile of rodent diets impacts experimental reproducibility in microbiome preclinical research. PMID:33082369
Early Life Exposure to Environmental Contaminants (BDE-47, TBBPA, and BPS) Produced Persistent Alterations in Fecal Microbiome in Adult Male Mice. PMID:33078840
HLA-A alleles including HLA-A29 affect the composition of the gut microbiome: a potential clue to the pathogenesis of birdshot retinochoroidopathy. PMID:33077849
Gut Microbiota-Metabolome Changes in Children With Diarrhea by Diarrheagenic E. coli. PMID:33072619
Microbiota Introduced to Germ-Free Rats Restores Vascular Contractility and Blood Pressure. PMID:33070663
Bioaminergic Responses in an In Vitro System Studying Human Gut Microbiota-Kiwifruit Interactions. PMID:33066564
Advantages and Limitations of 16S rRNA Next-Generation Sequencing for Pathogen Identification in the Diagnostic Microbiology Laboratory: Perspectives from a Middle-Income Country. PMID:33066371
Evaluation of 16S rRNA Hypervariable Regions for Bioweapon Species Detection by Massively Parallel Sequencing. PMID:33061983
Health and disease markers correlate with gut microbiome composition across thousands of people. PMID:33060586
The gut microbiome defines social group membership in honey bee colonies. PMID:33055169
Microbial succession from a subsequent secondary death event following mass mortality. PMID:33050884
Degradation of Veterinary Antibiotics in Swine Manure via Anaerobic Digestion. PMID:33050352
The aging mouse microbiome has obesogenic characteristics. PMID:33046129
Comparative Analysis of Soil Microbiome Profiles in the Companion Planting of White Clover and Orchard Grass Using 16S rRNA Gene Sequencing Data. PMID:33042174
Hypolipidemic effect of Alisma orientale (Sam.) Juzep on gut microecology and liver transcriptome in diabetic rats. PMID:33035272
Bacterial community analysis on the different mucosal immune inductive sites of gastrointestinal tract in Bactrian camels. PMID:33031424
Ciliate Diversity From Aquatic Environments in the Brazilian Atlantic Forest as Revealed by High-Throughput DNA Sequencing. PMID:33025060
A glance at the gut microbiota of five experimental animal species through fecal samples. PMID:33024229
Effects of sodium citrate on the structure and microbial community composition of an early-stage multispecies biofilm model. PMID:33024198
The effects of exopolysaccharides and exopolysaccharide-producing Lactobacillus on the intestinal microbiome of zebrafish (Danio rerio). PMID:33023493
Co-infection of Malassezia sympodialis With Bacterial Pathobionts Pseudomonas aeruginosa or Staphylococcus aureus Leads to Distinct Sinonasal Inflammatory Responses in a Murine Acute Sinusitis Model. PMID:33014894
α-Defensins Promote Bacteroides Colonization on Mucosal Reservoir to Prevent Antibiotic-Induced Dysbiosis. PMID:33013873
Delayed Establishment of Gut Microbiota in Infants Delivered by Cesarean Section. PMID:33013766
Throat Microbial Community Structure and Functional Changes in Postsurgery Laryngeal Carcinoma Patients. PMID:33008819
Changes in the Gut Microbiota are Associated with Hypertension, Hyperlipidemia, and Type 2 Diabetes Mellitus in Japanese Subjects. PMID:33007825
A total crapshoot? Evaluating bioinformatic decisions in animal diet metabarcoding analyses. PMID:33005342
Regeneration of unconventional natural gas by methanogens co-existing with sulfate-reducing prokaryotes in deep shale wells in China. PMID:32994524
Diet Quality, Food Groups and Nutrients Associated with the Gut Microbiota in a Nonwestern Population. PMID:32992776
Changes in dietary fiber intake in mice reveal associations between colonic mucin O-glycosylation and specific gut bacteria. PMID:32991816
Sleeve gastrectomy prevents hypertension associated with unique shifts in the gut microbiome. PMID:32989546
Dynamic distribution of gut microbiota during embryonic development in chicken. PMID:32988546
Metagenomic Functional Profiling Reveals Differences in Bacterial Composition and Function During Bioaugmentation of Aged Petroleum-Contaminated Soil. PMID:32983067
Comparison of gut microbiota in exclusively breast-fed and formula-fed babies: a study of 91 term infants. PMID:32978424
Effects of Psychotropics on the Microbiome in Patients With Depression and Anxiety: Considerations in a Naturalistic Clinical Setting. PMID:32975292
In ovo Administration of Defined Lactic Acid Bacteria Previously Isolated From Adult Hens Induced Variations in the Cecae Microbiota Structure and Enterobacteriaceae Colonization on a Virulent Escherichia coli Horizontal Infection Model in Broiler Chickens. PMID:32974395
Gut Dysbiosis in Chagas Disease. A Possible Link to the Pathogenesis. PMID:32974213
A preliminary examination of the bacterial, archaeal, and fungal rhizosphere microbiome in healthy and Phellinus noxius-infected trees. PMID:32969600
Modulation of gut mucosal microbiota as a mechanism of probiotics-based adjunctive therapy for ulcerative colitis. PMID:32969200
A symbiotic nutrient exchange within the cyanosphere microbiome of the biocrust cyanobacterium, Microcoleus vaginatus. PMID:32968213
Prospective associations of the infant gut microbiome and microbial function with social behaviors related to autism at age 3 years. PMID:32968156
Generation of Comprehensive Ecosystem-Specific Reference Databases with Species-Level Resolution by High-Throughput Full-Length 16S rRNA Gene Sequencing and Automated Taxonomy Assignment (AutoTax). PMID:32963001
A Multi-Omics Approach Reveals New Signatures in Obese Allergic Asthmatic Children. PMID:32961859
DATMA: Distributed AuTomatic Metagenomic Assembly and annotation framework. PMID:32953263
High-resolution taxonomic examination of the oral microbiome after oil pulling with standardized sunflower seed oil and healthy participants: a pilot study. PMID:32949257
Biological observations in microbiota analysis are robust to the choice of 16S rRNA gene sequencing processing algorithm: case study on human milk microbiota. PMID:32948144
A Single Faecal Microbiota Transplantation Altered the Microbiota of Weaned Pigs. PMID:32942689
Host phylogeny and life history stage shape the gut microbiome in dwarf (Kogia sima) and pygmy (Kogia breviceps) sperm whales. PMID:32938948
Exploring changes in the human gut microbiota and microbial-derived metabolites in response to diets enriched in simple, refined, or unrefined carbohydrate-containing foods: a post hoc analysis of a randomized clinical trial. PMID:32936872
Gut Microbiota and Metabolome Alterations Associated with Parkinson's Disease. PMID:32934117
Compositional and Functional Adaptations of Intestinal Microbiota and Related Metabolites in CKD Patients Receiving Dietary Protein Restriction. PMID:32932711
Temporal Dysbiosis of Infant Nasal Microbiota Relative to Respiratory Syncytial Virus Infection. PMID:32926147
Maternal gut microbes shape the early-life assembly of gut microbiota in passerine chicks via nests. PMID:32917256
An Overview of Bioinformatics Tools for DNA Meta-Barcoding Analysis of Microbial Communities of Bioaerosols: Digest for Microbiologists. PMID:32911871
Genomic Sequencing Reveals the Diversity of Seminal Bacteria and Relationships to Reproductive Potential in Boar Sperm. PMID:32903829
The Gut Microbiota of Pheasant Lineages Reflects Their Host Genetic Variation. PMID:32903781
Enhancing mucosal immunity by transient microbiota depletion. PMID:32901029
Integration of molecular profiles in a longitudinal wellness profiling cohort. PMID:32900998
Dietary Intervention Reverses Fatty Liver and Altered Gut Microbiota during Early-Life Undernutrition. PMID:32900869
Temporal changes in the fecal bacterial community in Holstein dairy calves from birth through the transition to a solid diet. PMID:32898158
Comparative Analysis of Bacterial Diversity and Community Structure in the Rhizosphere and Root Endosphere of Two Halophytes, Salicornia europaea and Glaux maritima, Collected from Two Brackish Lakes in Japan. PMID:32893195
Type I IFNs and CD8 T cells increase intestinal barrier permeability after chronic viral infection. PMID:32880630
Differential Profiles of Gut Microbiota and Metabolites Associated with Host Shift of Plutella xylostella. PMID:32872681
Challenges in Human Skin Microbial Profiling for Forensic Science: A Review. PMID:32872386
Enterotypes of the Gut Microbial Community and Their Response to Plant Secondary Compounds in Plateau Pikas. PMID:32872148
Potential Associations Among Alteration of Salivary miRNAs, Saliva Microbiome Structure, and Cognitive Impairments in Autistic Children. PMID:32867322
Peripherally-sourced myeloid antigen presenting cells increase with advanced aging. PMID:32861719
Processing Has Differential Effects on Microbiota-Accessible Carbohydrates in Whole Grains during In Vitro Fermentation. PMID:32859598
Ultrafast and accurate 16S rRNA microbial community analysis using Kraken 2. PMID:32859275
Neuroprotective effects of p62(SQSTM1)-engineered lactic acid bacteria in Alzheimer's disease: a pre-clinical study. PMID:32855357
Abnormal Food Timing Promotes Alcohol-Associated Dysbiosis and Colon Carcinogenesis Pathways. PMID:32850307
Distinct Temporal Succession of Bacterial Communities in Early Marine Biofilms in a Portuguese Atlantic Port. PMID:32849482
Comparative Microbiomics of Tephritid Frugivorous Pests (Diptera: Tephritidae) From the Field: A Tale of High Variability Across and Within Species. PMID:32849469
Ruminal Fermentation Pattern, Bacterial Community Composition, and Nutrient Digestibility of Nellore Cattle Submitted to Either Nutritional Restriction or Intake of Concentrate Feedstuffs Prior to Adaptation Period. PMID:32849453
Topsoil Bacterial Community Changes and Nutrient Dynamics Under Cereal Based Climate-Smart Agri-Food Systems. PMID:32849419
Mining the Microbiome of Key Species from African Savanna Woodlands: Potential for Soil Health Improvement and Plant Growth Promotion. PMID:32846974
Gut microbiota of obese and diabetic Thai subjects and interplay with dietary habits and blood profiles. PMID:32832269
High-Throughput, Sequence-Based Analysis of the Microbiota of Greek Kefir Grains from Two Geographic Regions. PMID:32831566
Use of Newly Designed Primers for Quantification of Complete Ammonia-Oxidizing (Comammox) Bacterial Clades and Strict Nitrite Oxidizers in the Genus Nitrospira. PMID:32826214
A First Insight into the Structural and Functional Comparison of Environmental Microbiota in Freshwater Turtle Chinemys reevesii at Different Growth Stages under Pond and Greenhouse Cultivation. PMID:32825672
Microbial Ecology of European Foul Brood Disease in the Honey Bee (Apis mellifera): Towards a Microbiome Understanding of Disease Susceptibility. PMID:32825355
Effects of Exogenous Dietary Advanced Glycation End Products on the Cross-Talk Mechanisms Linking Microbiota to Metabolic Inflammation. PMID:32824970
Altered gut microbiota associated with symptom severity in schizophrenia. PMID:32821537
The Fungal Microbiome Is an Important Component of Vineyard Ecosystems and Correlates with Regional Distinctiveness of Wine. PMID:32817452
Root Microbiome Modulates Plant Growth Promotion Induced by Low Doses of Glyphosate. PMID:32817451
Passenger-surface microbiome interactions in the subway of Mexico City. PMID:32813719
Association of Bacteroides acidifaciens relative abundance with high-fibre diet-associated radiosensitisation. PMID:32811478
Impacts of Habitual Diets Intake on Gut Microbial Counts in Healthy Japanese Adults. PMID:32806561
Skin microbiota in health and disease: From sequencing to biology. PMID:32804417
Poultry feeds carry diverse microbial communities that influence chicken intestinal microbiota colonisation and maturation. PMID:32803529
Comparative gut microbiome analysis of the Prakriti and Sasang systems reveals functional level similarities in constitutionally similar classes. PMID:32802721
Melatonin Alleviates Neuroinflammation and Metabolic Disorder in DSS-Induced Depression Rats. PMID:32802257
Systemically-delivered biodegradable PLGA alters gut microbiota and induces transcriptomic reprogramming in the liver in an obesity mouse model. PMID:32796856
Alterations of Gut Microbiome in Tibetan Patients With Coronary Heart Disease. PMID:32793515
Fecal Microbiota Signatures in Celiac Disease Patients With Poly-Autoimmunity. PMID:32793511
Compositional and Functional Characteristics of Swine Slurry Microbes through 16S rRNA Metagenomic Sequencing Approach. PMID:32784779
Dysbiosis of salivary microbiome and cytokines influence oral squamous cell carcinoma through inflammation. PMID:32783067
Effects of short-term manure nitrogen input on soil microbial community structure and diversity in a double-cropping paddy field of southern China. PMID:32782287
Patient propagules: Do soil archives preserve the legacy of fungal and prokaryotic communities? PMID:32780777
Monitoring of biofouling communities in a Portuguese port using a combined morphological and metabarcoding approach. PMID:32778680
SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis. PMID:32778056
Effect of commercially purified deoxynivalenol and zearalenone mycotoxins on microbial diversity of pig cecum contents. PMID:32777887
Treatment with the traditional Chinese medicine BuYang HuanWu Tang induces alterations that normalize the microbiome in ASD patients. PMID:32775128
Microbial Community Dynamics During the Non-filamentous Fungi Growth-Based Fermentation Process of Miang, a Traditional Fermented Tea of North Thailand and Their Product Characterizations. PMID:32765442
Host Genetic and Gut Microbial Signatures in Familial Inflammatory Bowel Disease. PMID:32764209
Raw milk and fecal microbiota of commercial Alpine dairy cows varies with herd, fat content and diet. PMID:32760129
Effects of a chemical additive on the fermentation, microbial communities, and aerobic stability of corn silage with or without air stress during storage. PMID:32756961
The Influences of Bioinformatics Tools and Reference Databases in Analyzing the Human Oral Microbial Community. PMID:32756341
A Shift Pattern of Bacterial Communities Across the Life Stages of the Citrus Red Mite, Panonychus citri. PMID:32754145
Effects of Elevated pCO2 on the Survival and Growth of Portunus trituberculatus. PMID:32754046
Alternations of gut microbiota composition in neonates conceived by assisted reproductive technology and its relation to infant growth. PMID:32752913
A Cross-Sectional Study of the Gut Microbiota Composition in Moscow Long-Livers. PMID:32751673
Comparison of microbiota in the cloaca, colon, and magnum of layer chicken. PMID:32750076
The meconium microbiota shares more features with the amniotic fluid microbiota than the maternal fecal and vaginal microbiota. PMID:32744162
Comparative immunophenotyping of Saccharomyces cerevisiae and Candida spp. strains from Crohn's disease patients and their interactions with the gut microbiome. PMID:32743520
Pulmonary arterial hypertension-associated changes in gut pathology and microbiota. PMID:32743008
Identification of Potential Biomarkers of Chronic Kidney Disease in Individuals with Diabetes: Protocol for a Cross-sectional Observational Study. PMID:32734931
Effects of laying breeder hens dietary β-carotene, curcumin, allicin, and sodium butyrate supplementation on the jejunal microbiota and immune response of their offspring chicks. PMID:32731966
Metagenomic analysis of gut microbiota in non-treated plaque psoriasis patients stratified by disease severity: development of a new Psoriasis-Microbiome Index. PMID:32728075
The Challenges of Using Oropharyngeal Samples To Measure Pneumococcal Carriage in Adults. PMID:32727860
Usefulness of Machine Learning-Based Gut Microbiome Analysis for Identifying Patients with Irritable Bowels Syndrome. PMID:32727141
Soil microbial communities associated with giant sequoia: How does the world's largest tree affect some of the world's smallest organisms? PMID:32724535
Erythrocyte n-6 Polyunsaturated Fatty Acids, Gut Microbiota, and Incident Type 2 Diabetes: A Prospective Cohort Study. PMID:32723842
Effect of Choline Forms and Gut Microbiota Composition on Trimethylamine-N-Oxide Response in Healthy Men. PMID:32722424
Dynamics of Structural and Functional Changes in Gut Microbiota during Treatment with a Microalgal β-Glucan, Paramylon and the Impact on Gut Inflammation. PMID:32717991
Impacts of Mycoplasma loads and lung lesions on immune and hematological statuses of pigs in an eight-breed cross heterogeneous population. PMID:32717077
Biliary Microbiota and Bile Acid Composition in Cholelithiasis. PMID:32714973
Mucosal-associated invariant T cells promote inflammation and intestinal dysbiosis leading to metabolic dysfunction during obesity. PMID:32709874
Anti-Diabetic Effects of Allulose in Diet-Induced Obese Mice via Regulation of mRNA Expression and Alteration of the Microbiome Composition. PMID:32708827
Limited Response of Indigenous Microbes to Water and Nutrient Pulses in High-Elevation Atacama Soils: Implications for the Cold-Dry Limits of Life on Earth. PMID:32708721
Metagenomic approaches in microbial ecology: an update on whole-genome and marker gene sequencing analyses. PMID:32706331
Consumption of identically formulated foods extruded under low and high shear force reveals that microbiome redox ratios accompany canine immunoglobulin A production. PMID:32705743
The impact of epidermal growth factor supernatant on pig performance and ileal microbiota. PMID:32704702
Integrating population genetic structure, microbiome, and pathogens presence data in Dermacentor variabilis. PMID:32704442
Comparative Study on the Performance of Anaerobic and Aerobic Biotrickling Filter for Removal of Chloroform. PMID:32704228
Microbial diversity drives carbon use efficiency in a model soil. PMID:32703952
CDSnake: Snakemake pipeline for retrieval of annotated OTUs from paired-end reads using CD-HIT utilities. PMID:32703166
Enhanced biodiversity of gut flora and feed efficiency in pond cultured tilapia under reduced frequency feeding strategies. PMID:32702020
Understanding leptospirosis eco-epidemiology by environmental DNA metabarcoding of irrigation water from two agro-ecological regions of Sri Lanka. PMID:32701971
Size resolved characteristics of urban and suburban bacterial bioaerosols in Japan as assessed by 16S rRNA amplicon sequencing. PMID:32699373
The closed eye harbours a unique microbiome in dry eye disease. PMID:32694705
Assessing the impact on intestinal microbiome and clinical outcomes of antibiotherapy optimisation strategies in haematopoietic stem cell transplant recipients: study protocol for the prospective multicentre OptimBioma study. PMID:32690735
Metagenomic data on bacterial diversity profiling of high-microbial-abundance tropical marine sponges Aaptos aaptos and Xestospongia muta from waters off terengganu, South China Sea. PMID:32685631
The gut microbiota of brood parasite and host nestlings reared within the same environment: disentangling genetic and environmental effects. PMID:32681160
Evaluation of fecal DNA extraction protocols for human gut microbiome studies. PMID:32680572
Characterization of gut contractility and microbiota in patients with severe chronic constipation. PMID:32678865
Transcriptomic Profiling Identifies Novel Hepatic and Intestinal Genes Following Chronic Plus Binge Ethanol Feeding in Mice. PMID:32671585
Denosumab Regulates Gut Microbiota Composition and Cytokines in Dinitrobenzene Sulfonic Acid (DNBS)-Experimental Colitis. PMID:32670246
Frog Skin Microbiota Vary With Host Species and Environment but Not Chytrid Infection. PMID:32670233
Classification of 16S rRNA reads is improved using a niche-specific database constructed by near-full length sequencing. PMID:32658916
Effects of Housing Types on Cecal Microbiota of Two Different Strains of Laying Hens During the Late Production Phase. PMID:32656252
Microbial community analysis in the gills of abalones suggested possible dominance of epsilonproteobacterium in Haliotis gigantea. PMID:32655989
Distinct Microbiota Dysbiosis in Patients with Non-Erosive Reflux Disease and Esophageal Adenocarcinoma. PMID:32650561
Changes in the gut microbiota mediate the differential regulatory effects of two glucose oxidases produced by Aspergillus niger and Penicillium amagasakiense on the meat quality and growth performance of broilers. PMID:32647570
Lifestyle preferences drive the structure and diversity of bacterial and archaeal communities in a small riverine reservoir. PMID:32647153
Dietary sphinganine is selectively assimilated by members of the mammalian gut microbiome. PMID:32646940
Type VI secretion systems of plant-pathogenic Burkholderia glumae BGR1 play a functionally distinct role in interspecies interactions and virulence. PMID:32643866
Endosymbiotic Rickettsiella causes cytoplasmic incompatibility in a spider host. PMID:32635864
Taxonomic classification method for metagenomics based on core protein families with Core-Kaiju. PMID:32633756
Dysbiosis individualizes the fitness effect of antibiotic resistance in the mammalian gut. PMID:32632259
How being synanthropic affects the gut bacteriome and mycobiome: comparison of two mouse species with contrasting ecologies. PMID:32631223
Association of microbiota in the stomach of Sinanodonta woodiana and its cultured soil. PMID:32626639
What Could Explain δ13C Signatures in Biocrust Cyanobacteria of Drylands? PMID:32621211
The identification of sulfide oxidation as a potential metabolism driving primary production on late Noachian Mars. PMID:32616785
Recent infection by Wolbachia alters microbial communities in wild Laodelphax striatellus populations. PMID:32616041
Effects of diet, habitat, and phylogeny on the fecal microbiome of wild African savanna (Loxodonta africana) and forest elephants (L. cyclotis). PMID:32607180
Interspecific comparison of the fecal microbiota structure in three Arctic migratory bird species. PMID:32607176
Validating the Use of Bovine Buccal Sampling as a Proxy for the Rumen Microbiota by Using a Time Course and Random Forest Classification Approach. PMID:32591382
Community structure of actively growing bacteria in a coastal fish-farming area. PMID:32589651
Effect of Washing, Waxing and Low-Temperature Storage on the Postharvest Microbiome of Apple. PMID:32585961
Characterization of a Novel Functional Trimeric Catechol 1,2-Dioxygenase From a Pseudomonas stutzeri Isolated From the Gulf of Mexico. PMID:32582076
Bile Acid Sequestrant, Sevelamer Ameliorates Hepatic Fibrosis with Reduced Overload of Endogenous Lipopolysaccharide in Experimental Nonalcoholic Steatohepatitis. PMID:32575352
Effects of Drinking Water Temperature and Flow Rate during Cold Season on Growth Performance, Nutrient Digestibility and Cecum Microflora of Weaned Piglets. PMID:32570726
Clinical Features and Gut Microbiome of Asymptomatic Entamoeba histolytica Infection. PMID:32564059
Effect of Gut Microbiota and PNPLA3 rs738409 Variant on Nonalcoholic Fatty Liver Disease (NAFLD) in Obese Youth. PMID:32561908
Mollusk microbiota shift during Angiostrongylus cantonensis infection in the freshwater snail Biomphalaria glabrata and the terrestrial slug Phillocaulis soleiformis. PMID:32556501
Bacillus subtilis PB6 based probiotic supplementation plays a role in the recovery after the necrotic enteritis challenge. PMID:32555739
Soil bacterial communities in three rice-based cropping systems differing in productivity. PMID:32555234
Sodium butyrate inhibits high cholesterol-induced neuronal amyloidogenesis by modulating NRF2 stabilization-mediated ROS levels: involvement of NOX2 and SOD1. PMID:32555166
The selective PPAR-delta agonist seladelpar reduces ethanol-induced liver disease by restoring gut barrier function and bile acid homeostasis in mice. PMID:32553670
Rhizospheric Organic Acids as Biostimulants: Monitoring Feedbacks on Soil Microorganisms and Biochemical Properties. PMID:32547578
Evolution of Bacterial Communities, Physicochemical Changes and Sensorial Attributes of Natural Whole and Cracked Picual Table Olives During Spontaneous and Inoculated Fermentation. PMID:32547528
Alterations in the Gut Microbiome in the Progression of Cirrhosis to Hepatocellular Carcinoma. PMID:32546668
The microbiome of diabetic foot ulcers: a comparison of swab and tissue biopsy wound sampling techniques using 16S rRNA gene sequencing. PMID:32546123
Microbiota Composition of Breast Milk from Women of Different Ethnicity from the Manawatu-Wanganui Region of New Zealand. PMID:32545413
A longitudinal study of the development of the saliva microbiome in infants 2 days to 5 years compared to the microbiome in adolescents. PMID:32541791
Dietary Soluble and Insoluble Fiber With or Without Enzymes Altered the Intestinal Microbiota in Weaned Pigs Challenged With Enterotoxigenic E. coli F18. PMID:32536908
Effect of life stage and pesticide exposure on the gut microbiota of Aedes albopictus and Culex pipiens L. PMID:32528116
Integrating Gut Bacterial Diversity and Captive Husbandry to Optimize Vulture Conservation. PMID:32523573
Rapeseed-based diet modulates the imputed functions of gut microbiome in growing-finishing pigs. PMID:32523033
Fecal microbiota transplantation for patients on antibiotic treatment with C. difficile infection history (GRAFT): Study protocol for a phase II, randomized, double-blind, placebo-controlled trial to prevent recurrent C. difficile infections. PMID:32518854
Characterization of the bacterial microbiota composition and evolution at different intestinal tract in wild pigs (Sus scrofa ussuricus). PMID:32518722
Evaluation of the bacterial ocular surface microbiome in ophthalmologically normal dogs prior to and following treatment with topical neomycin-polymyxin-bacitracin. PMID:32516320
Multi-omics analysis on an agroecosystem reveals the significant role of organic nitrogen to increase agricultural crop yield. PMID:32513689
Serum and fecal profiles of aromatic microbial metabolites reflect gut microbiota disruption in critically ill patients: a prospective observational pilot study. PMID:32513224
Biotic and Environmental Drivers of Plant Microbiomes Across a Permafrost Thaw Gradient. PMID:32499761
Organic acid blend supplementation increases butyrate and acetate production in Salmonella enterica serovar Typhimurium challenged broilers. PMID:32497096
Impact of Short-Term Isoflavone Intervention in Polycystic Ovary Syndrome (PCOS) Patients on Microbiota Composition and Metagenomics. PMID:32492805
The Effects of Different Concentrate-to-Forage Ratio Diets on Rumen Bacterial Microbiota and the Structures of Holstein Cows During the Feeding Cycle. PMID:32486436
Probiotic Cocktail Identified by Microbial Network Analysis Inhibits Growth, Virulence Gene Expression, and Host Cell Colonization of Vancomycin-Resistant Enterococci. PMID:32486106
PICRUSt2 for prediction of metagenome functions. PMID:32483366
Soil Microbes Trade-Off Biogeochemical Cycling for Stress Tolerance Traits in Response to Year-Round Climate Change. PMID:32477275
A common microbial signature is present in the lower airways of interstitial lung diseases including sarcoidosis. PMID:32476923
Station and train surface microbiomes of Mexico City's metro (subway/underground). PMID:32472074
Longitudinal analysis reveals transition barriers between dominant ecological states in the gut microbiome. PMID:32471946
The human tumor microbiome is composed of tumor type-specific intracellular bacteria. PMID:32467386
Dissimilarity of Airway and Lung Tissue Microbiota in Smokers undergoing Surgery for Lung Cancer. PMID:32466482
Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians. PMID:32450885
Diurnal Timing Dependent Alterations in Gut Microbial Composition Are Synchronously Linked to Salt-Sensitive Hypertension and Renal Damage. PMID:32450738
Viral control of biomass and diversity of bacterioplankton in the deep sea. PMID:32444696
Combination of Bacillus licheniformis and Salinomycin: Effect on the Growth Performance and GIT Microbial Populations of Broiler Chickens. PMID:32443689
Modelling Free-Living and Particle-Associated Bacterial Assemblages across the Deep and Hypoxic Lower St. Lawrence Estuary. PMID:32434843
No correlation between microbiota composition and blood parameters in nesting flatback turtles (Natator depressus). PMID:32433567
Priming for welfare: gut microbiota is associated with equitation conditions and behavior in horse athletes. PMID:32433513
Age-related compositional changes and correlations of gut microbiome, serum metabolome, and immune factor in rats. PMID:32418021
Dietary zinc source impacts intestinal morphology and oxidative stress in young broilers. PMID:32416829
Digital Proxy of a Bio-Reactor (DIYBOT) combines sensor data and data analytics to improve greywater treatment and wastewater management systems. PMID:32415099
Predictive Metagenomic Profiling, Urine Metabolomics, and Human Marker Gene Expression as an Integrated Approach to Study Alopecia Areata. PMID:32411613
Responses of rhizosphere soil bacteria to 2-year tillage rotation treatments during fallow period in semiarid southeastern Loess Plateau. PMID:32411509
Microbial Community and FermentationDynamics of Corn Silage Prepared withHeat-Resistant Lactic Acid Bacteria in a HotEnvironment. PMID:32408707
The probiotic L. casei LC-XCAL™ improves metabolic health in a diet-induced obesity mouse model without altering the microbiome. PMID:32403964
The composition and richness of the gut microbiota differentiate the top Polish endurance athletes from sedentary controls. PMID:32401138
PCR-RFLP Detection and Genogroup Identification of Piscirickettsia salmonis in Field Samples. PMID:32397152
Exceptional but vulnerable microbial diversity in coral reef animal surface microbiomes. PMID:32396801
Effect of stocking density and effective fiber on the ruminal bacterial communities in lactating Holstein cows. PMID:32391208
High-Throughput Sequencing and Metabolomics Reveal Differences in Bacterial Diversity and Metabolites Between Red and White Sufu. PMID:32390991
Long-term stability of microbiome diversity and composition in fecal samples stored in eNAT medium. PMID:32390344
Metagenomic 16S rDNA amplicon data on bacterial diversity profiling and its predicted metabolic functions of varillales in Allpahuayo-Mishana National Reserve. PMID:32382622
Study on the experimental performance by electrolysis-integrated ecological floating bed for nitrogen and phosphorus removal in eutrophic water. PMID:32376920
Characterizing changes in soil microbiome abundance and diversity due to different cover crop techniques. PMID:32369501
Bayesian modeling reveals host genetics associated with rumen microbiota jointly influence methane emission in dairy cows. PMID:32366970
Co-occurrence of antibiotic, biocide, and heavy metal resistance genes in bacteria from metal and radionuclide contaminated soils at the Savannah River Site. PMID:32363769
Microbiome and biological blood marker changes in hens at different laying stages in conventional and cage free housings. PMID:32359571
A Fog-Irrigated Soil Substrate System Unifies and Optimizes Cyanobacterial Biocrust Inoculum Production. PMID:32358005
Assessment of microbiota present on a Portuguese historical stone convent using high-throughput sequencing approaches. PMID:32352657
Low Nitrogen Fertilization Alter Rhizosphere Microorganism Community and Improve Sweetpotato Yield in a Nitrogen-Deficient Rocky Soil. PMID:32351491
Faecal Microbiota Analysis of Piglets During Lactation. PMID:32349423
Evolution of the Gut Microbiome in Early Childhood: A Cross-Sectional Study of Chinese Children. PMID:32346375
Mating changes the genital microbiome in both sexes of the common bedbug Cimex lectularius across populations. PMID:32345169
Microbiotyping the Sinonasal Microbiome. PMID:32322561
Composition, Predicted Functions and Co-occurrence Networks of Rhizobacterial Communities Impacting Flowering Desert Events in the Atacama Desert, Chile. PMID:32322245
Staphylococcus aureus nasal carriage and microbiome composition among medical students from Colombia: a cross-sectional study. PMID:32318265
Effect of Inoculum Pretreatment on the Composition of Microbial Communities in Anaerobic Digesters Producing Volatile Fatty Acids. PMID:32316448
Insights into the Microbiological Safety of Wooden Cutting Boards Used for Meat Processing in Hong Kong's Wet Markets: A Focus on Food-Contact Surfaces, Cross-Contamination and the Efficacy of Traditional Hygiene Practices. PMID:32316436
Distinct associations of sputum and oral microbiota with atopic, immunologic, and clinical features in mild asthma. PMID:32298699
Harvesting Mango Fruit with a Short Stem-End Altered Endophytic Microbiome and Reduce Stem-End Rot. PMID:32295088
Comparative Study of Salivary, Duodenal, and Fecal Microbiota Composition Across Adult Celiac Disease. PMID:32294965
Transport to the Slaughterhouse Affects the Salmonella Shedding and Modifies the Fecal Microbiota of Finishing Pigs. PMID:32294951
The impact of short-term acute heat stress on the rumen microbiome of Hanwoo steers. PMID:32292928
Microbial Dysbiosis During Simian Immunodeficiency Virus Infection is Partially Reverted with Combination Anti-retroviral Therapy. PMID:32286417
Sequential biodegradation of 1,2,4-trichlorobenzene at oxic-anoxic groundwater interfaces in model laboratory columns. PMID:32283437
A Protocol for the Multi-Omic Integration of Cervical Microbiota and Urine Metabolomics to Understand Human Papillomavirus (HPV)-Driven Dysbiosis. PMID:32276347
Plant microbiome analysis after Metarhizium amendment reveals increases in abundance of plant growth-promoting organisms and maintenance of disease-suppressive soil. PMID:32275687
Diversity Profiling of Grapevine Microbial Endosphere and Antagonistic Potential of Endophytic Pseudomonas Against Grapevine Trunk Diseases. PMID:32273871
Effect of cattle breed and basal diet on digestibility, rumen bacterial communities, and eating and rumination activity. PMID:32271920
Metabolic versatility of freshwater sedimentary archaea feeding on different organic carbon sources. PMID:32267873
Microbiome-Metabolome Signature of Acute Kidney Injury. PMID:32260384
Evolution of Predicted Acid Resistance Mechanisms in the Extremely Acidophilic Leptospirillum Genus. PMID:32260256
The preceding root system drives the composition and function of the rhizosphere microbiome. PMID:32252812
Cross-omics analysis revealed gut microbiome-related metabolic pathways underlying atherosclerosis development after antibiotics treatment. PMID:32251665
Effects of Alternative Administration Programs of a Synbiotic Supplement on Broiler Performance, Foot Pad Dermatitis, Caecal Microbiota, and Blood Metabolites. PMID:32245036
Salivary Microbiota Shifts under Sustained Consumption of Oolong Tea in Healthy Adults. PMID:32244337
A restriction enzyme reduced representation sequencing approach for low-cost, high-throughput metagenome profiling. PMID:32243481
Structure and function of the Arctic and Antarctic marine microbiota as revealed by metagenomics. PMID:32241287
Structure of the Mucosal and Stool Microbiome in Lynch Syndrome. PMID:32240601
Improvement of Cecal Commensal Microbiome Following the Insect Additive into Chicken Diet. PMID:32235462
The Gut Microbial Diversity of Newly Diagnosed Diabetics but Not of Prediabetics Is Significantly Different from That of Healthy Nondiabetics. PMID:32234773
Effect of Supplemental Protease on Growth Performance and Excreta Microbiome of Broiler Chicks. PMID:32230755
Selective enrichment of heterotrophic nitrifiers Alcaligenaceae and Alcanivorax spp. from industrial wastewaters. PMID:32226913
Persistent Diarrhea in Patients With Crohn's Disease After Mucosal Healing Is Associated With Lower Diversity of the Intestinal Microbiome and Increased Dysbiosis. PMID:32220613
Characterisation of the gut microbial community of rhesus macaques in high-altitude environments. PMID:32216756
Impact of the electron donor on in situ microbial nitrate reduction in Opalinus Clay: results from the Mont Terri rock laboratory (Switzerland). PMID:32214982
Cervicovaginal microbiome and natural history of HPV in a longitudinal study. PMID:32214382
Implication of the gut microbiome composition of type 2 diabetic patients from northern China. PMID:32214153
Microbiota and metabolome responses in the cecum and serum of broiler chickens fed with plant essential oils or virginiamycin. PMID:32214106
Dietary fiber and chicken microbiome interaction: Where will it lead to? PMID:32211522
Microbiological and Nutritional Analysis of Lettuce Crops Grown on the International Space Station. PMID:32210992
US nativity and dietary acculturation impact the gut microbiome in a diverse US population. PMID:32210364
The Microbial Community of Tetrodotoxin-Bearing and Non-Tetrodotoxin-Bearing Ribbon Worms (Nemertea) from the Sea of Japan. PMID:32210160
The microbiome and resistome of chimpanzees, gorillas, and humans across host lifestyle and geography. PMID:32203121
Taxon-specific microbial growth and mortality patterns reveal distinct temporal population responses to rewetting in a California grassland soil. PMID:32203117
Probiotic-directed modulation of gut microbiota is basal microbiome dependent. PMID:32200683
Yeasts and Bacterial Consortia from Kefir Grains Are Effective Biocontrol Agents of Postharvest Diseases of Fruits. PMID:32197504
Dynamic interactions within the host-associated microbiota cause tumor formation in the basal metazoan Hydra. PMID:32191776
A bird's-eye view of phylosymbiosis: weak signatures of phylosymbiosis among all 15 species of cranes. PMID:32183630
Antibiotic Resistance Genes in Antibiotic-Free Chicken Farms. PMID:32183177
Characterization of antibiotic resistance and host-microbiome interactions in the human upper respiratory tract during influenza infection. PMID:32178738
Leucine-Rich Immune Factor APL1 Is Associated With Specific Modulation of Enteric Microbiome Taxa in the Asian Malaria Mosquito Anopheles stephensi. PMID:32174902
Gut Microbiota Contributes to Spontaneous Colitis in E3 Ligase Itch-Deficient Mice. PMID:32169841
A framework for assessing 16S rRNA marker-gene survey data analysis methods using mixtures. PMID:32169095
Effects of a Diet Supplemented with Exogenous Catalase from Penicillium notatum on Intestinal Development and Microbiota in Weaned Piglets. PMID:32168962
Vulnerability and resistance in the spatial heterogeneity of soil microbial communities under resource additions. PMID:32165545
Changes in the gut microbiota of mice orally exposed to methylimidazolium ionic liquids. PMID:32163446
Effects of enrofloxacin treatment on the bacterial microbiota of milk from goats with persistent mastitis. PMID:32157153
Impact of plants on the diversity and activity of methylotrophs in soil. PMID:32156318
Microecological Koch's postulates reveal that intestinal microbiota dysbiosis contributes to shrimp white feces syndrome. PMID:32156316
A survey of invasive plants on grassland soil microbial communities and ecosystem services. PMID:32152302
Nutrient-toxic element mixtures and the early postnatal gut microbiome in a United States longitudinal birth cohort. PMID:32142916
Dietary garcinol supplementation improves diarrhea and intestinal barrier function associated with its modulation of gut microbiota in weaned piglets. PMID:32140225
Oral Microbiota Profile Associates with Sugar Intake and Taste Preference Genes. PMID:32138214
Dysregulated Gut Homeostasis Observed Prior to the Accumulation of the Brain Amyloid-β in Tg2576 Mice. PMID:32138161
Gut microbiome shifts with urbanization and potentially facilitates a zoonotic pathogen in a wading bird. PMID:32134945
Construction & assessment of a unified curated reference database for improving the taxonomic classification of bacteria using 16S rRNA sequence data. PMID:32134020
Sowing Methods Influence Soil Bacterial Diversity and Community Composition in a Winter Wheat-Summer Maize Rotation System on the Loess Plateau. PMID:32132987
Transient invaders can induce shifts between alternative stable states of microbial communities. PMID:32128414
Host population genetics and biogeography structure the microbiome of the sponge Cliona delitrix. PMID:32128133
Role of the intestinal microbiome in low-density polyethylene degradation by caterpillar larvae of the greater wax moth, Galleria mellonella. PMID:32126962
Invasive vegetation affects amphibian skin microbiota and body condition. PMID:32117625
Fifteen-Year Application of Manure and Chemical Fertilizers Differently Impacts Soil ARGs and Microbial Community Structure. PMID:32117108
Modulation of Gut Microbial Community and Metabolism by Dietary Glycyl-Glutamine Supplementation May Favor Weaning Transition in Piglets. PMID:32117085
Alpha-Glucosidase Inhibitors Alter Gut Microbiota and Ameliorate Collagen-Induced Arthritis. PMID:32116681
Profiling the urinary microbiome in men with calcium-based kidney stones. PMID:32111156
Instruction of microbiome taxonomic profiling based on 16S rRNA sequencing. PMID:32108315
Fecal Viral Community Responses to High-Fat Diet in Mice. PMID:32102942
Age-Related Variation of Bacterial and Fungal Communities in Different Body Habitats across the Young, Elderly, and Centenarians in Sardinia. PMID:32102941
16S rRNA sequence data of Bombyx mori gut bacteriome after spermidine supplementation. PMID:32093782
Bioprospecting potential of microbial communities in solid waste landfills for novel enzymes through metagenomic approach. PMID:32088773
Study of the Relationship between Microbiome and Colorectal Cancer Susceptibility Using 16SrRNA Sequencing. PMID:32083132
A preliminary study on the potential of Nanopore MinION and Illumina MiSeq 16S rRNA gene sequencing to characterize building-dust microbiomes. PMID:32081924
Rhizosphere Bacterial Community Structure and Predicted Functional Analysis in the Water-Level Fluctuation Zone of the Danjiangkou Reservoir in China During the Dry Period. PMID:32079120
Early-life intestinal microbiome in Trachemys scripta elegans analyzed using 16S rRNA sequencing. PMID:32071814
Co-occurrence patterns of bacteria within microbiome of Moscow subway. PMID:32071708
Nicotiana tabacum seed endophytic communities share a common core structure and genotype-specific signatures in diverging cultivars. PMID:32071705
Respiratory Viral Infection Alters the Gut Microbiota by Inducing Inappetence. PMID:32071269
Comparative Analysis of Root Microbiomes of Rice Cultivars with High and Low Methane Emissions Reveals Differences in Abundance of Methanogenic Archaea and Putative Upstream Fermenters. PMID:32071162
IPCO: Inference of Pathways from Co-variance analysis. PMID:32070271
Influence of sodium chlorate, ferulic acid, and essential oils on Escherichia coli and porcine fecal microbiota. PMID:32064520
Synergistic Effect of Multiple Saccharifying Enzymes on Alcoholic Fermentation for Chinese Baijiu Production. PMID:32060021
Sex differences in T cell immune responses, gut permeability and outcome after ischemic stroke in aged mice. PMID:32058038
Comparative genomics: Dominant coral-bacterium Endozoicomonas acroporae metabolizes dimethylsulfoniopropionate (DMSP). PMID:32055028
The Microbiome of the Meibum and Ocular Surface in Healthy Subjects. PMID:32053729
Microbial resolution of whole genome shotgun and 16S amplicon metagenomic sequencing using publicly available NEON data. PMID:32053657
Identification of an anaerobic bacterial consortium that degrades roxarsone. PMID:32053294
GC bias affects genomic and metagenomic reconstructions, underrepresenting GC-poor organisms. PMID:32052832
Arsenic disturbs the gut microbiome of individuals in a disadvantaged community in Nepal. PMID:32051876
Toxic tall fescue grazing increases susceptibility of the Angus steer fecal microbiota and plasma/urine metabolome to environmental effects. PMID:32051515
Gut Microbiota is the Key to the Antidepressant Effect of Chaihu-Shu-Gan-San. PMID:32050718
Immune protection is dependent on the gut microbiome in a lethal mouse gammaherpesviral infection. PMID:32047224
Cloacal bacterial communities of tree swallows (Tachycineta bicolor): Similarity within a population, but not between pair-bonded social partners. PMID:32045456
Strength of species interactions determines biodiversity and stability in microbial communities. PMID:32042124
Wild blueberry proanthocyanidins shape distinct gut microbiota profile and influence glucose homeostasis and intestinal phenotypes in high-fat high-sucrose fed mice. PMID:32041991
Nicotianamine-chelated iron positively affects iron status, intestinal morphology and microbial populations in vivo (Gallus gallus). PMID:32041969
The Role of Protein and Free Amino Acids on Intake, Metabolism, and Gut Microbiome: A Comparison Between Breast-Fed and Formula-Fed Rhesus Monkey Infants. PMID:32039120
Investigation of the impact of gut microbiotas on fertility of stored sperm by types of hens. PMID:32036968
Microbiota composition modulates inflammation and neointimal hyperplasia after arterial angioplasty. PMID:32035769
Patterns of Oral Microbiota Diversity in Adults and Children: A Crowdsourced Population Study. PMID:32034250
Succession and Colonization Dynamics of Endolithic Phototrophs within Intertidal Carbonates. PMID:32033409
Rhizosphere Microbiome of Arid Land Medicinal Plants and Extra Cellular Enzymes Contribute to Their Abundance. PMID:32033333
Effects of encapsulated cinnamaldehyde and citral on the performance and cecal microbiota of broilers vaccinated or not vaccinated against coccidiosis. PMID:32029170
Applicability of an Unmedicated Feeding Program Aimed to Reduce the Use of Antimicrobials in Nursery Piglets: Impact on Performance and Fecal Microbiota. PMID:32028658
Airborne microbial biodiversity and seasonality in Northern and Southern Sweden. PMID:32025374
Oral and Gut Microbial Diversity and Immune Regulation in Patients with HIV on Antiretroviral Therapy. PMID:32024712
Unique k-mers as Strain-Specific Barcodes for Phylogenetic Analysis and Natural Microbiome Profiling. PMID:32023871
Bacterioplankton community variation in Bohai Bay (China) is explained by joint effects of environmental and spatial factors. PMID:32022464
Rain induces temporary shifts in epiphytic bacterial communities of cucumber and tomato fruit. PMID:32020033
Culture dependent and independent analyses suggest a low level of sharing of endospore-forming species between mothers and their children. PMID:32020012
Changes in microbiome and metabolomic profiles of fecal samples stored with stabilizing solution at room temperature: a pilot study. PMID:32019987
Gut Microbiota as Diagnostic Tools for Mirroring Disease Progression and Circulating Nephrotoxin Levels in Chronic Kidney Disease: Discovery and Validation Study. PMID:32015679
Gut metabolomics profiling of non-small cell lung cancer (NSCLC) patients under immunotherapy treatment. PMID:32014010
Associations of gut microbiota, dietary intake, and serum short-chain fatty acids with fecal short-chain fatty acids. PMID:32010539
Integrating Computational Methods to Investigate the Macroecology of Microbiomes. PMID:32010196
Differences in Gut Microbial and Serum Biochemical Indices Between Sows With Different Productive Capacities During Perinatal Period. PMID:32010103
Endogenous FGF21-signaling controls paradoxical obesity resistance of UCP1-deficient mice. PMID:32005798
Carbon Amendments Influence Composition and Functional Capacities of Indigenous Soil Microbiomes. PMID:31993439
Mud volcanoes and the presence of PAHs. PMID:31988316
Mapping the bacterial ecology on the phyllosphere of dry and post soaked grass hay for horses. PMID:31986161
Skin Cutibacterium acnes Mediates Fermentation to Suppress the Calcium Phosphate-Induced Itching: A Butyric Acid Derivative with Potential for Uremic Pruritus. PMID:31979095
Effect of Lactobacillus acidophilus D2/CSL (CECT 4529) supplementation in drinking water on chicken crop and caeca microbiome. PMID:31978143
Comparison of bacterial communities in gliadin-degraded sourdough (Khamir) sample and non-degraded sample. PMID:31975740
Reduced environmental bacterial load during early development and gut colonisation has detrimental health consequences in Japanese quail. PMID:31970305
Discovery of Afifi, the shallowest and southernmost brine pool reported in the Red Sea. PMID:31969577
Advanced biofilm analysis in streams receiving organic deicer runoff. PMID:31968006
Bifidobacterium longum-fermented rice bran and rice bran supplementation affects the gut microbiome and metabolome. PMID:31965839
Planktonic and Sessile Artificial Colonic Microbiota Harbor Distinct Composition and Reestablish Differently upon Frozen and Freeze-Dried Long-Term Storage. PMID:31964766
Carbon Use Efficiency and Its Temperature Sensitivity Covary in Soil Bacteria. PMID:31964725
Inclusion of Soluble Fiber in the Gestation Diet Changes the Gut Microbiota, Affects Plasma Propionate and Odd-Chain Fatty Acids Levels, and Improves Insulin Sensitivity in Sows. PMID:31963640
Doing More with Less: A Comparison of 16S Hypervariable Regions in Search of Defining the Shrimp Microbiota. PMID:31963525
Seasonal epiphytic microbial dynamics on grapevine leaves under biocontrol and copper fungicide treatments. PMID:31959791
Gut butyrate-producing organisms correlate to Placenta Specific 8 protein: Importance to colorectal cancer progression. PMID:31956438
Phylosymbiosis across Deeply Diverging Lineages of Omnivorous Cockroaches (Order Blattodea). PMID:31953337
Flooding Irrigation Weakens the Molecular Ecological Network Complexity of Soil Microbes During the Process of Dryland-to-Paddy Conversion. PMID:31952328
Cervicovaginal Microbiome and Urine Metabolome Paired Analysis Reveals Niche Partitioning of the Microbiota in Patients with Human Papilloma Virus Infections. PMID:31952112
High-throughput Sequencing-based Analysis of Microbial Diversity in Rice Wine Koji from Different Areas. PMID:31950235
Biodegradability of woody film produced by solvent volatilisation of Japanese Beech solution. PMID:31949200
Heavy Metals as a Factor Increasing the Functional Genetic Potential of Bacterial Community for Polycyclic Aromatic Hydrocarbon Biodegradation. PMID:31941126
The effect of diet on the gastrointestinal microbiome of juvenile rehabilitating green turtles (Chelonia mydas). PMID:31940380
Biogeographic study of human gut-associated crAssphage suggests impacts from industrialization and recent expansion. PMID:31940321
Consistent Metagenome-Derived Metrics Verify and Delineate Bacterial Species Boundaries. PMID:31937678
OGG1 deficiency alters the intestinal microbiome and increases intestinal inflammation in a mouse model. PMID:31935236
A Renal Clinician's Guide to the Gut Microbiota. PMID:31928802
Exposure to Amoxicillin in Early Life Is Associated With Changes in Gut Microbiota and Reduction in Blood Pressure: Findings From a Study on Rat Dams and Offspring. PMID:31928175
The Microbiota in Hematologic Malignancies. PMID:31927673
Metagenomics as a Public Health Risk Assessment Tool in a Study of Natural Creek Sediments Influenced by Agricultural and Livestock Runoff: Potential and Limitations. PMID:31924621
Geographic Patterns of Bacterioplankton among Lakes of the Middle and Lower Reaches of the Yangtze River Basin, China. PMID:31924617
Expanding our view of Bartonella and its hosts: Bartonella in nest ectoparasites and their migratory avian hosts. PMID:31924262
Temporal and region-specific effects of sleep fragmentation on gut microbiota and intestinal morphology in Sprague Dawley rats. PMID:31924109
Soil Microbial Networks Shift Across a High-Elevation Successional Gradient. PMID:31921064
Microbial Communities in Human Milk Relate to Measures of Maternal Weight. PMID:31921063
Impact of Sample Preservation and Manipulation on Insect Gut Microbiome Profiling. A Test Case With Fruit Flies (Diptera, Tephritidae). PMID:31921020
The Compositionally Distinct Cyanobacterial Biocrusts From Brazilian Savanna and Their Environmental Drivers of Community Diversity. PMID:31921007
The Diversity of Associated Microorganisms in Different Organs and Rhizospheric Soil of Arctium lappa L. PMID:31915985
Inulin from Jerusalem artichoke tubers alleviates hyperglycaemia in high-fat-diet-induced diabetes mice through the intestinal microflora improvement. PMID:31915077
Microbial Reconstitution Reverses Early Female Puberty Induced by Maternal High-fat Diet During Lactation. PMID:31912132
Comparative Analyses of Vertebrate Gut Microbiomes Reveal Convergence between Birds and Bats. PMID:31911491
Prenatal Transfer of Gut Bacteria in Rock Pigeon. PMID:31905837
Probiotic Supplementation in a Clostridium difficile-Infected Gastrointestinal Model Is Associated with Restoring Metabolic Function of Microbiota. PMID:31905795
Root microbiota assembly and adaptive differentiation among European Arabidopsis populations. PMID:31900452
The composition of the bacterial community in the foam produced by Mahanarva fimbriolata is distinct from those at gut and soil. PMID:31898244
Bacterial Community Sequences of Submerged Aquatic Vegetation in the Potomac River. PMID:31896632
Evaluation of the Bacterial Diversity of Inner Mongolian Acidic Gruel Using Illumina MiSeq and PCR-DGGE. PMID:31894373
Characterization of the core microbiome in tobacco leaves during aging. PMID:31893578
In vitro growth of gut microbiota with selenium nanoparticles. PMID:31890921
Exogenous and endogenous microbiomes of wild-caught Phormia regina (Diptera: Calliphoridae) flies from a suburban farm by 16S rRNA gene sequencing. PMID:31889104
Metagenomic 16S rDNA amplicon data of microbial diversity and its predicted metabolic functions in the Southern Ocean (Antarctic). PMID:31886343
Blueberry Attenuates Liver Fibrosis, Protects Intestinal Epithelial Barrier, and Maintains Gut Microbiota Homeostasis. PMID:31886154
Microbiota changes in a pediatric acute lymphocytic leukemia mouse model. PMID:31884727
A generic workflow for Single Locus Sequence Typing (SLST) design and subspecies characterization of microbiota. PMID:31882601
The Diversity of the Endobiotic Bacterial Communities in the Four Jellyfish Species. PMID:31880891
Effectiveness of fecal microbiota transplantation for severe diarrhea after drug-induced hypersensitivity syndrome. PMID:31876732
Effect of mushroom polysaccharides from Pleurotus eryngii on obesity and gut microbiota in mice fed a high-fat diet. PMID:31865422
Acute changes in the colonic microbiota are associated with large intestinal forms of surgical colic. PMID:31864369
Synergistic effects of APOE and sex on the gut microbiome of young EFAD transgenic mice. PMID:31861986
Early Parenteral Administration of Ceftiofur has Gender-Specific Short- and Long-Term Effects on the Fecal Microbiota and Growth in Pigs from the Suckling to Growing Phase. PMID:31861796
Simultaneous detection and comprehensive analysis of HPV and microbiome status of a cervical liquid-based cytology sample using Nanopore MinION sequencing. PMID:31852945
Allergic inflammation alters the lung microbiome and hinders synergistic co-infection with H1N1 influenza virus and Streptococcus pneumoniae in C57BL/6 mice. PMID:31852944
Fecal Components Modulate Human Astrovirus Infectivity in Cells and Reconstituted Intestinal Tissues. PMID:31852804
The diversity and abundance of fungi and bacteria on the healthy and dandruff affected human scalp. PMID:31851674
Effect of Diet on the Enteric Microbiome of the Wood-Eating Catfish Panaque nigrolineatus. PMID:31849863
Tissue-Specific Microbiomes of the Red Sea Giant Clam Tridacna maxima Highlight Differential Abundance of Endozoicomonadaceae. PMID:31849854
Reproductive Senescence and Ischemic Stroke Remodel the Gut Microbiome and Modulate the Effects of Estrogen Treatment in Female Rats. PMID:31845185
Effects of compound probiotics on the weight, immunity performance and fecal microbiota of forest musk deer. PMID:31844127
Comparative study on the effects of different feeding habits and diets on intestinal microbiota in Acipenser baeri Brandt and Huso huso. PMID:31842748
Impact of Tilapia hepcidin 2-3 dietary supplementation on the gut microbiota profile and immunomodulation in the grouper (Epinephelus lanceolatus). PMID:31836758
Obesity and disease severity magnify disturbed microbiome-immune interactions in asthma patients. PMID:31836714
Cervical Microbiome and Response to a Human Papillomavirus Therapeutic Vaccine for Treating High-Grade Cervical Squamous Intraepithelial Lesion. PMID:31833799
Connection the Rhizomicrobiome and Plant MAPK Gene Expression Response to Pathogenic Fusarium oxysporum in Wild and Cultivated Soybean. PMID:31832042
Functional Genomics of a Symbiotic Community: Shared Traits in the Olive Fruit Fly Gut Microbiota. PMID:31830246
Comparative analysis of the vaginal microbiome of pregnant women with either Trichomonas vaginalis or Chlamydia trachomatis. PMID:31830061
Gut Microbiomes of the Eastern Oyster (Crassostrea virginica) and the Blue Mussel (Mytilus edulis): Temporal Variation and the Influence of Marine Aggregate-Associated Microbial Communities. PMID:31826972
The impact of storage conditions on human stool 16S rRNA microbiome composition and diversity. PMID:31824766
The effect of diet on the structure of gut bacterial community of sympatric pair of whitefishes (Coregonus lavaretus): one story more. PMID:31824755
Effect of Fermented Corn-Soybean Meal on Serum Immunity, the Expression of Genes Related to Gut Immunity, Gut Microbiota, and Bacterial Metabolites in Grower-Finisher Pigs. PMID:31824447
Selection of microbial biomarkers with genetic algorithm and principal component analysis. PMID:31823717
Gut Dysbiosis with Minimal Enteritis Induced by High Temperature and Humidity. PMID:31822775
Long-term impact of oral surgery with or without amoxicillin on the oral microbiome-A prospective cohort study. PMID:31822712
Oregano powder reduces Streptococcus and increases SCFA concentration in a mixed bacterial culture assay. PMID:31821320
Inclusion of the direct-fed microbial Clostridium butyricum in diets for weanling pigs increases growth performance and tends to increase villus height and crypt depth, but does not change intestinal microbial abundance. PMID:31820779
Systematic processing of ribosomal RNA gene amplicon sequencing data. PMID:31816087
Spatial structure of the microbiome in the gut of Pomacea canaliculata. PMID:31805864
Water-soluble phosphorus contributes significantly to shaping the community structure of rhizospheric bacteria in rocky desertification areas. PMID:31804618
Association between Gut Microbiome Composition and Rotavirus Vaccine Response among Nicaraguan Infants. PMID:31802728
The Effect of Increasing Inclusion Levels of a Fucoidan-Rich Extract Derived from Ascophyllum nodosum on Growth Performance and Aspects of Intestinal Health of Pigs Post-Weaning. PMID:31801301
Microbial Diversity in Bushmeat Samples Recovered from the Serengeti Ecosystem in Tanzania. PMID:31792246
PhySpeTree: an automated pipeline for reconstructing phylogenetic species trees. PMID:31791235
Amplicon sequencing and imputed metagenomic analysis of waste soil and sediment microbiome reveals unique bacterial communities and their functional attributes. PMID:31784843
The intestinal microbiota of lake anchovy varies according to sex, body size, and local habitat in Taihu Lake, China. PMID:31782623
Gut Microbiota and Cardiometabolic Risk Factors in Hemodialysis Patients: A Pilot Study. PMID:31777415
A Plant Growth-Promoting Microbial Soil Amendment Dynamically Alters the Strawberry Root Bacterial Microbiome. PMID:31776356
Diarrhea as a Potential Cause and Consequence of Reduced Gut Microbial Diversity Among Undernourished Children in Peru. PMID:31773127
Gut Microbiota Features Associated With Campylobacter Burden and Postnatal Linear Growth Deficits in a Peruvian Birth Cohort. PMID:31773126
Obesity during pregnancy results in maternal intestinal inflammation, placental hypoxia, and alters fetal glucose metabolism at mid-gestation. PMID:31772245
Silicon application and related changes in soil bacterial community dynamics reduced ginseng black spot incidence in Panax ginseng in a short-term study. PMID:31771526
Gut-derived Enterococcus faecium from ulcerative colitis patients promotes colitis in a genetically susceptible mouse host. PMID:31767028
Dietary Saccharomyces cerevisiae boulardii CNCM I-1079 Positively Affects Performance and Intestinal Ecosystem in Broilers during a Campylobacter jejuni Infection. PMID:31766507
Dynamic Succession of Microbiota during Ensiling of Whole Plant Corn Following Inoculation with Lactobacillus buchneri and Lactobacillus hilgardii Alone or in Combination. PMID:31766494
Host dietary specialization and neutral assembly shape gut bacterial communities of wild dragonflies. PMID:31763071
Alterations of the Viable Ileal Microbiota of the Gut Mucosa-Lymph Node Axis in Pigs Fed Phytase and Lactic Acid-Treated Cereals. PMID:31757823
Analysis of high-throughput sequencing for cecal microbiota diversity and function in hens under different rearing systems. PMID:31750036
Blocking Activin Receptor Ligands Is Not Sufficient to Rescue Cancer-Associated Gut Microbiota-A Role for Gut Microbial Flagellin in Colorectal Cancer and Cachexia? PMID:31731747
Efficacy of medium-chain fatty acid salts distilled from coconut oil against two enteric pathogen challenges in weanling piglets. PMID:31728192
Segregation of age-related skin microbiome characteristics by functionality. PMID:31727980
The effects of soil phosphorus content on plant microbiota are driven by the plant phosphate starvation response. PMID:31721759
Repeated mild traumatic brain injury affects microbial diversity in rat jejunum. PMID:31719229
Microbiome and imputed metagenome study of crude and refined petroleum-oil-contaminated soils: Potential for hydrocarbon degradation and plant-growth promotion. PMID:31719223
Fructus Ligustri Lucidi preserves bone quality through the regulation of gut microbiota diversity, oxidative stress, TMAO and Sirt6 levels in aging mice. PMID:31715585
A Bioinformatics Guide to Plant Microbiome Analysis. PMID:31708944
Reintroducing mothur: 10 Years Later. PMID:31704678
Honey bee microbiome associated with different hive and sample types over a honey production season. PMID:31703071
Microbiome of vineyard soils is shaped by geography and management. PMID:31699155
Human Milk Microbiome and Maternal Postnatal Psychosocial Distress. PMID:31695687
Evaluation of 16S rRNA gene sequencing for species and strain-level microbiome analysis. PMID:31695033
Habitat filters mediate successional trajectories in bacterial communities associated with the striped shore crab. PMID:31690999
Preliminary Study on the Effect of Bacillus amyloliquefaciens TL on Cecal Bacterial Community Structure of Broiler Chickens. PMID:31687392
Covariation of diet and gut microbiome in African megafauna. PMID:31685619
Microbial community structure analysis in Acer palmatum bark and isolation of novel bacteria IAD-21 of the candidate division FBP. PMID:31681511
Cross-Regional View of Functional and Taxonomic Microbiota Composition in Obesity and Post-obesity Treatment Shows Country Specific Microbial Contribution. PMID:31681211
Lactic Acid Treatment of Cereals and Dietary Phytase Modified Fecal Microbiome Composition Without Affecting Expression of Virulence Factor Genes in Growing Pigs. PMID:31681210
Microbiomes in Soils Exposed to Naturally High Concentrations of CO2 (Bossoleto Mofette Tuscany, Italy). PMID:31681186
Infant airway microbiota and topical immune perturbations in the origins of childhood asthma. PMID:31676759
Fueling ab initio folding with marine metagenomics enables structure and function predictions of new protein families. PMID:31676016
Long-term impact of tylosin on fecal microbiota and fecal bile acids of healthy dogs. PMID:31674054
Gut microbiome composition in the Hispanic Community Health Study/Study of Latinos is shaped by geographic relocation, environmental factors, and obesity. PMID:31672155
Dietary Habits of 2- to 9-Year-Old American Children Are Associated with Gut Microbiome Composition. PMID:31668602
Oregano: A potential prophylactic treatment for the intestinal microbiota. PMID:31667426
Regional biogeography of microbiota composition in the Chagas disease vector Rhodnius pallescens. PMID:31665056
Dietary intervention using (1,3)/(1,6)-β-glucan, a fungus-derived soluble prebiotic ameliorates high-fat diet-induced metabolic distress and alters beneficially the gut microbiota in mice model. PMID:31664519
Exploring possible associations of the intestine bacterial microbiome with the pre-weaned weight gaining performance of piglets in intensive pig production. PMID:31664137
Formation and Preservation of Microbial Palisade Fabric in Silica Deposits from El Tatio, Chile. PMID:31663774
Fecal microbiota and metabolites are distinct in a pilot study of pediatric Crohn's disease patients with higher levels of perceived stress. PMID:31654986
Survey of bacteria associated with western corn rootworm life stages reveals no difference between insects reared in different soils. PMID:31653954
Intestinal microbiome composition and its relation to joint pain and inflammation. PMID:31653850
An Association of Gut Microbiota with Different Phenotypes in Chinese Patients with Rheumatoid Arthritis. PMID:31652955
Similar Shift Patterns in Gut Bacterial and Fungal Communities Across the Life Stages of Bactrocera minax Larvae From Two Field Populations. PMID:31649629
Composition and Drivers of Gut Microbial Communities in Arctic-Breeding Shorebirds. PMID:31649627
The upper respiratory tract microbiome of hospitalised patients with community-acquired pneumonia of unknown aetiology: a pilot study. PMID:31641582
Comprehensive Understanding of the Bacterial Populations and Metabolites Profile of Fermented Feed by 16S rRNA Gene Sequencing and Liquid Chromatography-Mass Spectrometry. PMID:31640120
Community members in activated sludge as determined by molecular probe technology. PMID:31639592
The effects of tetracycline concentrations on tetracycline resistance genes and their bacterial hosts in the gut passages of earthworms (Eisenia fetida) feeding on domestic sludge. PMID:31637618
Herbal Formula-3 ameliorates OVA-induced food allergy in mice may via modulating the gut microbiota. PMID:31632550
Microalgae and Phototrophic Purple Bacteria for Nutrient Recovery From Agri-Industrial Effluents: Influences on Plant Growth, Rhizosphere Bacteria, and Putative Carbon- and Nitrogen-Cycling Genes. PMID:31632425
Seasonal Changes in Gut Microbiota Diversity and Composition in the Greater Horseshoe Bat. PMID:31632369
Thiocyanate Degradation by a Highly Enriched Culture of the Neutrophilic Halophile Thiohalobacter sp. Strain FOKN1 from Activated Sludge and Genomic Insights into Thiocyanate Metabolism. PMID:31631078
Changes in motor behavior, neuropathology, and gut microbiota of a Batten disease mouse model following administration of acidified drinking water. PMID:31628420
Of microbes and mange: consistent changes in the skin microbiome of three canid species infected with Sarcoptes scabiei mites. PMID:31619277
Colonic Microbiota and Metabolites Response to Different Dietary Protein Sources in a Piglet Model. PMID:31616670
Adapterama II: universal amplicon sequencing on Illumina platforms (TaggiMatrix). PMID:31616589
"EviMass": A Literature Evidence-Based Miner for Human Microbial Associations. PMID:31616466
Chemical and biological dispersants differently affect the bacterial communities of uncontaminated and oil-contaminated marine water. PMID:31612432
Influence of Dietary Supplementation of Probiotic Pediococcus acidilactici MA18/5M During the Transition From Freshwater to Seawater on Intestinal Health and Microbiota of Atlantic Salmon (Salmo salar L.). PMID:31611864
Conservation of Endophyte Bacterial Community Structure Across Two Panicum Grass Species. PMID:31611851
Comparison of the effects of four commercially available prescription diet regimens on the fecal microbiome in healthy dogs. PMID:31611485
Variation in Actinobacterial Community Composition and Potential Function in Different Soil Ecosystems Belonging to the Arid Heihe River Basin of Northwest China. PMID:31608036
The Bacterial Microbiome Associated With Arid Biocrusts and the Biogeochemical Influence of Biocrusts Upon the Underlying Soil. PMID:31608023
Evaluation of the bacterial ocular surface microbiome in clinically normal cats before and after treatment with topical erythromycin. PMID:31603921
Fungal and bacterial community dynamics in substrates during the cultivation of morels (Morchella rufobrunnea) indoors. PMID:31603508
Pomegranate Juice and Extract Consumption Increases the Resistance to UVB-induced Erythema and Changes the Skin Microbiome in Healthy Women: a Randomized Controlled Trial. PMID:31601842
The characterization of lung microbiome in lung cancer patients with different clinicopathology. PMID:31598405
Fluoride contributes to the shaping of microbial community in high fluoride groundwater in Qiji County, Yuncheng City, China. PMID:31597951
Relating the gut metagenome and metatranscriptome to immunotherapy responses in melanoma patients. PMID:31597568
Distinct Gut Microbiota Induced by Different Fat-to-Sugar-Ratio High-Energy Diets Share Similar Pro-obesity Genetic and Metabolite Profiles in Prediabetic Mice. PMID:31594827
Lotus japonicus Symbiosis Genes Impact Microbial Interactions between Symbionts and Multikingdom Commensal Communities. PMID:31594815
Infrared Spectroscopic Detection of Biosignatures at Lake Tírez, Spain: Implications for Mars. PMID:31592682
Elemental diet induces alterations of the gut microbial community in mice. PMID:31592206
Mucosal-associated invariant T cells and Vδ2+ γδ T cells in community acquired pneumonia: association of abundance in sputum with clinical severity and outcome. PMID:31587268
Intestinal microbiome analysis demonstrates azithromycin post-treatment effects improve when combined with lactulose. PMID:31583533
Microbial communities associated with the black morel Morchella sextelata cultivated in greenhouses. PMID:31579614
Proto-dolomite formation in microbial consortia dominated by Halomonas strains. PMID:31576454
Ecological and Genomic Attributes of Novel Bacterial Taxa That Thrive in Subsurface Soil Horizons. PMID:31575762
Partially Hydrolyzed Guar Gum Attenuates d-Galactose-Induced Oxidative Stress and Restores Gut Microbiota in Rats. PMID:31574948
Dramatic Remodeling of the Gut Microbiome Around Parturition and Its Relationship With Host Serum Metabolic Changes in Sows. PMID:31572329
Bacteria Associated With Shiraia Fruiting Bodies Influence Fungal Production of Hypocrellin A. PMID:31572311
The Phylogeny, Biodiversity, and Ecology of the Chloroflexi in Activated Sludge. PMID:31572309
Xanthoceraside Could Ameliorate Alzheimer's Disease Symptoms of Rats by Affecting the Gut Microbiota Composition and Modulating the Endogenous Metabolite Levels. PMID:31572201
Cooking shapes the structure and function of the gut microbiome. PMID:31570867
Dysbiosis signatures of the microbial profile in tissue from bladder cancer. PMID:31568654
Investigation of tylosin in feed of feedlot cattle and effects on liver abscess prevalence, and fecal and soil microbiomes and resistomes1. PMID:31563955
Immediate Effects of Ammonia Shock on Transcription and Composition of a Biogas Reactor Microbiome. PMID:31555248
Characteristics and Evolution of sill-driven off-axis hydrothermalism in Guaymas Basin - the Ringvent site. PMID:31554864
Evaluation of in ovo Bacillus spp. based probiotic administration on horizontal transmission of virulent Escherichia coli in neonatal broiler chickens. PMID:31549175
Heat-induced shift in coral microbiome reveals several members of the Rhodobacteraceae family as indicator species for thermal stress in Porites lutea. PMID:31544365
Comparative analysis of the fecal microbiota from different species of domesticated and wild suids. PMID:31541124
Fetal exposure to maternal inflammation interrupts murine intestinal development and increases susceptibility to neonatal intestinal injury. PMID:31537532
Molecular function limits divergent protein evolution on planetary timescales. PMID:31532392
Prediction of nutrient digestibility in grower-finisher pigs based on faecal microbiota composition. PMID:31531910
Diversity and geochemical community assembly processes of the living rare biosphere in a sand-and-gravel aquifer ecosystem in the Midwestern United States. PMID:31530884
Almond Snacking for 8 wk Increases Alpha-Diversity of the Gastrointestinal Microbiome and Decreases Bacteroides fragilis Abundance Compared with an Isocaloric Snack in College Freshmen. PMID:31528836
High-throughput amplicon sequencing datasets of the metacommunity DNA of the gut microbiota of naturally occurring and laboratory aquaculture green sea urchins Lytechinus variegatus. PMID:31528670
Benchmarking urine storage and collection conditions for evaluating the female urinary microbiome. PMID:31527753
The effect of 2'-fucosyllactose on simulated infant gut microbiome and metabolites; a pilot study in comparison to GOS and lactose. PMID:31520068
A Comparison of Biopsy and Mucosal Swab Specimens for Examining the Microbiota of Upper Gastrointestinal Carcinoma. PMID:31519703
Urinary lead concentration and composition of the adult gut microbiota in a cross-sectional population-based sample. PMID:31518933
TADA: phylogenetic augmentation of microbiome samples enhances phenotype classification. PMID:31510701
Evaluation of the Antimicrobial and Anti-inflammatory Properties of Bacillus-DFM (Norum™) in Broiler Chickens Infected With Salmonella Enteritidis. PMID:31508436
Microbial Communities Associated With Passive Acidic Abandoned Coal Mine Remediation. PMID:31507566
Seasonal Dynamics of Soil Fungal and Bacterial Communities in Cool-Temperate Montane Forests. PMID:31507559
Gene-diet interactions associated with complex trait variation in an advanced intercross outbred mouse line. PMID:31506438
Microbiome as an Immunological Modifier. PMID:31502171
Plumage iridescence is associated with distinct feather microbiota in a tropical passerine. PMID:31501471
Longitudinal development of the gut microbiota in healthy and diarrheic piglets induced by age-related dietary changes. PMID:31496126
Bacterial salivary microbiome associates with asthma among african american children and young adults. PMID:31496123
Potential Interactions between Clade SUP05 Sulfur-Oxidizing Bacteria and Phages in Hydrothermal Vent Sponges. PMID:31492669
A Comparative Metagenomics Study on Gastrointestinal Microbiota in Amphibious Mudskippers and Other Vertebrate Animals. PMID:31489883
CCMP: software-as-a-service approach for fully-automated microbiome profiling. PMID:31482150
Biofilm formation inhibition and dispersal of multi-species communities containing ammonia-oxidising bacteria. PMID:31482007
Gut Microbiota Has a Widespread and Modifiable Effect on Host Gene Regulation. PMID:31481602
Human microbial ecology and the rising new medicine. PMID:31475212
Legitimate and Reliable Determination of the Age-Related Intestinal Microbiome in Young Piglets; Rectal Swabs and Fecal Samples Provide Comparable Insights. PMID:31474964
Gut microbiota and their putative metabolic functions in fragmented Bengal tiger population of Nepal. PMID:31465520
Dietary intake influences gut microbiota development of healthy Australian children from the age of one to two years. PMID:31462648
Integrated Meta-omics Reveals a Fungus-Associated Bacteriome and Distinct Functional Pathways in Clostridioides difficile Infection. PMID:31462412
Beneficial roles of probiotics on the modulation of gut microbiota and immune response in pigs. PMID:31461453
Bacterial but Not Fungal Gut Microbiota Alterations Are Associated With Common Variable Immunodeficiency (CVID) Phenotype. PMID:31456808
Insight Into the Microbial Co-occurrence and Diversity of 73 Grapevine (Vitis vinifera) Crown Galls Collected Across the Northern Hemisphere. PMID:31456792
The ruminal bacterial community in lactating dairy cows has limited variation on a day-to-day basis. PMID:31452880
Distinct temporal dynamics of planktonic archaeal and bacterial assemblages in the bays of the Yellow Sea. PMID:31449563
A Microbiomic Analysis of a Pasture-Raised Broiler Flock Elucidates Foodborne Pathogen Ecology Along the Farm-To-Fork Continuum. PMID:31448296
A Metagenomics Study on Hirschsprung's Disease Associated Enterocolitis: Biodiversity and Gut Microbial Homeostasis Depend on Resection Length and Patient's Clinical History. PMID:31448249
Baltic Sea methanogens compete with acetogens for electrons from metallic iron. PMID:31444483
Surface Water Microbial Community Response to the Biocide 2,2-Dibromo-3-Nitrilopropionamide, Used in Unconventional Oil and Gas Extraction. PMID:31444200
Dose-Dependent Alterations to In Vitro Human Microbiota Composition and Butyrate Inhibition by a Supercritical Carbon Dioxide Hops Extract. PMID:31438572
TreeCluster: Clustering biological sequences using phylogenetic trees. PMID:31437182
Factors associated with the composition and diversity of the cervical microbiota of reproductive-age Black South African women: a retrospective cross-sectional study. PMID:31435492
A hierarchy of environmental covariates control the global biogeography of soil bacterial richness. PMID:31431661
Characterising the gut microbiome in veterans with Gulf War Illness: a protocol for a longitudinal, prospective cohort study. PMID:31431446
The occurrence of Listeria monocytogenes is associated with built environment microbiota in three tree fruit processing facilities. PMID:31431193
Cecal Gut Microbiota and Metabolites Might Contribute to the Severity of Acute Myocardial Ischemia by Impacting the Intestinal Permeability, Oxidative Stress, and Energy Metabolism. PMID:31428065
Continental scale structuring of forest and soil diversity via functional traits. PMID:31427732
The gastrointestinal fate of limonin and its effect on gut microbiota in mice. PMID:31418448
Comparative Analyses of Fecal Microbiota in European Mouflon (Ovis orientalis musimon) and Blue Sheep (Pseudois nayaur) Living at Low or High Altitudes. PMID:31417526
Fecal Metaproteomic Analysis Reveals Unique Changes of the Gut Microbiome Functions After Consumption of Sourdough Carasau Bread. PMID:31417524
Temperature Response of Planktonic Microbiota in Remote Alpine Lakes. PMID:31417513
Maternal Genistein Intake Mitigates the Deleterious Effects of High-Fat Diet on Glucose and Lipid Metabolism and Modulates Gut Microbiota in Adult Life of Male Mice. PMID:31417434
Bogotá River anthropogenic contamination alters microbial communities and promotes spread of antibiotic resistance genes. PMID:31409850
Highly Reproducible 16S Sequencing Facilitates Measurement of Host Genetic Influences on the Stickleback Gut Microbiome. PMID:31409661
Comparative metagenomic sequencing analysis of cecum microbiotal diversity and function in broilers and layers. PMID:31406638
Fecal microbiome and metabolome of infants fed bovine MFGM supplemented formula or standard formula with breast-fed infants as reference: a randomized controlled trial. PMID:31406230
Cooked Red Lentils Dose-Dependently Modulate the Colonic Microenvironment in Healthy C57Bl/6 Male Mice. PMID:31405019
Supplemental Plant Extracts From Flos lonicerae in Combination With Baikal skullcap Attenuate Intestinal Disruption and Modulate Gut Microbiota in Laying Hens Challenged by Salmonella pullorum. PMID:31396190
Shared mycorrhizae but distinct communities of other root-associated microbes on co-occurring native and invasive maples. PMID:31392089
Stability of temperate coral Astrangia poculata microbiome is reflected across different sequencing methodologies. PMID:31384703
Phylogenetic, genomic, and biogeographic characterization of a novel and ubiquitous marine invertebrate-associated Rickettsiales parasite, Candidatus Aquarickettsia rohweri, gen. nov., sp. nov. PMID:31384012
Defining the human gut host-phage network through single-cell viral tagging. PMID:31384000
Environmental filtering increases with elevation for the assembly of gut microbiota in wild pikas. PMID:31380612
Taking insight into the gut microbiota of three spider species: No characteristic symbiont was found corresponding to the special feeding style of spiders. PMID:31380078
Variation in the Microbiota Associated with Daphnia magna Across Genotypes, Populations, and Temperature. PMID:31377832
Influence of environment on the pathogenesis of Ostreid herpesvirus-1 (OsHV-1) infections in Pacific oysters (Crassostrea gigas) through differential microbiome responses. PMID:31372553
Hass Avocado Inclusion in a Weight-Loss Diet Supported Weight Loss and Altered Gut Microbiota: A 12-Week Randomized, Parallel-Controlled Trial. PMID:31367691
The feline cutaneous and oral microbiota are influenced by breed and environment. PMID:31361788
rpoB, a promising marker for analyzing the diversity of bacterial communities by amplicon sequencing. PMID:31357928
Combination of cannabinoids, delta-9-tetrahydrocannabinol (THC) and cannabidiol (CBD), mitigates experimental autoimmune encephalomyelitis (EAE) by altering the gut microbiome. PMID:31356922
Microbial characterization of esophageal squamous cell carcinoma and gastric cardia adenocarcinoma from a high-risk region of China. PMID:31355925
Reconditioning Degraded Mine Site Soils With Exogenous Soil Microbes: Plant Fitness and Soil Microbiome Outcomes. PMID:31354694
The Seasonal Dynamics and the Influence of Human Activities on Campus Outdoor Microbial Communities. PMID:31354673
Fecal Microbiota Transplant From Highly Feed Efficient Donors Affects Cecal Physiology and Microbiota in Low- and High-Feed Efficient Chickens. PMID:31354670
The Relative Abundance of Benthic Bacterial Phyla Along a Water-Depth Gradient in a Plateau Lake: Physical, Chemical, and Biotic Drivers. PMID:31354648
Achieving stable and efficient single-stage deammonification using plug flow reactor. PMID:31352595
Effect of sulfite addition and pied de cuve inoculation on the microbial communities and sensory profiles of Chardonnay wines: dominance of indigenous Saccharomyces uvarum at a commercial winery. PMID:31344230
The Ruminal Microbiome and Metabolome Alterations Associated with Diet-Induced Milk Fat Depression in Dairy Cows. PMID:31340604
Rapid metagenomics analysis of EMS vehicles for monitoring pathogen load using nanopore DNA sequencing. PMID:31339905
The human microbiota is associated with cardiometabolic risk across the epidemiologic transition. PMID:31339887
Establishment of Coral-Bacteria Symbioses Reveal Changes in the Core Bacterial Community With Host Ontogeny. PMID:31338082
The data on metagenomic profile of bacterial diversity changes in the different concentration of fermented romaine lettuce brine. PMID:31334317
Variations in Oral Microbiota Composition Are Associated With a Risk of Throat Cancer. PMID:31334130
Raw Material Regulates Flavor Formation via Driving Microbiota in Chinese Liquor Fermentation. PMID:31333623
Effect of live yeast Saccharomyces cerevisiae supplementation on the performance and cecum microbial profile of suckling piglets. PMID:31329605
Combining stable isotope analysis with DNA metabarcoding improves inferences of trophic ecology. PMID:31329604
Development of a Humanized Murine Model for the Study of Oxalobacter formigenes Intestinal Colonization. PMID:31328778
A new framework for approaching precision bioremediation of PAH contaminated soils. PMID:31327574
Meta-Analysis Reveals Reproducible Gut Microbiome Alterations in Response to a High-Fat Diet. PMID:31324413
Common Core Bacterial Biomarkers of Bladder Cancer Based on Multiple Datasets. PMID:31321235
Differential responses of the soil microbial community in two pitaya orchards with different mulch types. PMID:31320743
Basal Diet Determined Long-Term Composition of the Gut Microbiome and Mouse Phenotype to a Greater Extent than Fecal Microbiome Transfer from Lean or Obese Human Donors. PMID:31319545
Microbiota-Related Changes in Unconjugated Fecal Bile Acids Are Associated With Naturally Occurring, Insulin-Dependent Diabetes Mellitus in Dogs. PMID:31316997
Reduced diversity and stability of coral-associated bacterial communities and suppressed immune function precedes disease onset in corals. PMID:31312497
Decoupling the Dynamics of Bacterial Taxonomy and Antibiotic Resistance Function in a Subtropical Urban Reservoir as Revealed by High-Frequency Sampling. PMID:31312186
Crypt- and Mucosa-Associated Core Microbiotas in Humans and Their Alteration in Colon Cancer Patients. PMID:31311881
Establishment and evaluation of prediction model for multiple disease classification based on gut microbial data. PMID:31308384
Food-grade cationic antimicrobial ε-polylysine transiently alters the gut microbial community and predicted metagenome function in CD-1 mice. PMID:31304250
Endosymbiotic Bacteria Are Prevalent and Diverse in Agricultural Spiders. PMID:31300838
Early-Onset Preeclampsia Is Associated With Gut Microbial Alterations in Antepartum and Postpartum Women. PMID:31297341
Natural limestone discolouration triggered by microbial activity-a contribution. PMID:31294236
Sequential Changes in the Host Gut Microbiota During Infection With the Intestinal Parasitic Nematode Strongyloides venezuelensis. PMID:31293983
Microbial characterization of Arachis pintoi and its silages at different fermentation periods. PMID:31290054
DAIRYdb: a manually curated reference database for improved taxonomy annotation of 16S rRNA gene sequences from dairy products. PMID:31286860
Dynamics of Abundant and Rare Bacteria During Degradation of Lignocellulose from Sugarcane Biomass. PMID:31286170
Community analysis of gut microbiota in hornets, the largest eusocial wasps, Vespa mandarinia and V. simillima. PMID:31285515
A heritable subset of the core rumen microbiome dictates dairy cow productivity and emissions. PMID:31281883
Metagenomics and transcriptomics data from human colorectal cancer. PMID:31278253
Metagenomics in ophthalmology: current findings and future prospectives. PMID:31276030
Skin bacterial communities of neotropical treefrogs vary with local environmental conditions at the time of sampling. PMID:31275740
Subgingival microbiome of experimental gingivitis: shifts associated with the use of chlorhexidine and N-acetyl cysteine mouthwashes. PMID:31275528
The Chinese Herbal Formula Shenzhu Tiaopi Granule Results in Metabolic Improvement in Type 2 Diabetic Rats by Modulating the Gut Microbiota. PMID:31275416
Alleviation of Intestinal Inflammation by Oral Supplementation With 2-Fucosyllactose in Mice. PMID:31275292
Modulation of Growth Performance and Intestinal Microbiota in Chickens Fed Plant Extracts or Virginiamycin. PMID:31275268
Unraveling the effects of the gut microbiota composition and function on horse endurance physiology. PMID:31270376
iMAP: an integrated bioinformatics and visualization pipeline for microbiome data analysis. PMID:31269897
Cathelicidin- derived PR39 protects enterohemorrhagic Escherichia coli O157:H7 challenged mice by improving epithelial function and balancing the microbiota in the intestine. PMID:31263234
High-throughput sequencing and analysis of microbial communities in the mangrove swamps along the coast of Beibu Gulf in Guangxi, China. PMID:31253826
Assessment of the impact of different fecal storage protocols on the microbiota diversity and composition: a pilot study. PMID:31253096
Dynamics of Vaginal and Rectal Microbiota Over Several Menstrual Cycles in Female Cynomolgus Macaques. PMID:31249812
Enrichment of intestinal Lactobacillus by enhanced secretory IgA coating alters glucose homeostasis in P2rx7-/- mice. PMID:31249344
Dynamic Alterations in the Gut Microbiota of Collagen-Induced Arthritis Rats Following the Prolonged Administration of Total Glucosides of Paeony. PMID:31245305
Evaluation of Methods for the Extraction of Microbial DNA From Vaginal Swabs Used for Microbiome Studies. PMID:31245304
Cytosine Methylation Within Marine Sediment Microbial Communities: Potential Epigenetic Adaptation to the Environment. PMID:31244806
Mixed Spices at Culinary Doses Have Prebiotic Effects in Healthy Adults: A Pilot Study. PMID:31242596
Long-read based de novo assembly of low-complexity metagenome samples results in finished genomes and reveals insights into strain diversity and an active phage system. PMID:31238873
Arthropod-bacteria interactions influence assembly of aquatic host microbiome and pathogen defense. PMID:31238845
Stages of pregnancy and weaning influence the gut microbiota diversity and function in sows. PMID:31237071
Bacterial microbiomes of Ixodes scapularis ticks collected from Massachusetts and Texas, USA. PMID:31234774
Puerarin prevents high-fat diet-induced obesity by enriching Akkermansia muciniphila in the gut microbiota of mice. PMID:31233515
Microbial transformation of virus-induced dissolved organic matter from picocyanobacteria: coupling of bacterial diversity and DOM chemodiversity. PMID:31227815
Enterotype Variations of the Healthy Human Gut Microbiome in Different Geographical Regions. PMID:31223215
PPR-Meta: a tool for identifying phages and plasmids from metagenomic fragments using deep learning. PMID:31220250
Dietary Nitrite Drives Disease Outcomes in Oral Polymicrobial Infections. PMID:31219733
Association between the pig genome and its gut microbiota composition. PMID:31217427
Effect of Re-acidification on Buffalo Grass Rhizosphere and Bulk Microbial Communities During Phytostabilization of Metalliferous Mine Tailings. PMID:31214146
Actinobacteria and Cyanobacteria Diversity in Terrestrial Antarctic Microenvironments Evaluated by Culture-Dependent and Independent Methods. PMID:31214128
Aerobic cometabolism of tetrabromobisphenol A by marine bacterial consortia. PMID:31209756
High-Fat Diet Alters the Intestinal Microbiota in Streptozotocin-Induced Type 2 Diabetic Mice. PMID:31208113
Salivary Microbial Dysbiosis is Associated with Systemic Inflammatory Markers and Predicted Oral Metabolites in Non-Small Cell Lung Cancer Patients. PMID:31205521
Aims, Study Design, and Enrollment Results From the Assessing Predictors of Infant Respiratory Syncytial Virus Effects and Severity Study. PMID:31199303
A culture-dependent and metagenomic approach of household drinking water from the source to point of use in a developing country. PMID:31194061
Gut microbial dataset of a foraging tribe from rural West Bengal - insights into unadulterated and transitional microbial abundance. PMID:31193982
Identification of Widespread Antibiotic Exposure in Patients With Cholera Correlates With Clinically Relevant Microbiota Changes. PMID:31192364
Early genistein exposure of California mice and effects on the gut microbiota-brain axis. PMID:31189133
A multidimensional perspective on microbial interactions. PMID:31187139
Effect of gastrointestinal microbiome and its diversity on the expression of tumor-infiltrating lymphocytes in breast cancer. PMID:31186716
Taxonomy based performance metrics for evaluating taxonomic assignment methods. PMID:31185897
Electricity generation from Nopal biogas effluent using a surface modified clay cup (cantarito) microbial fuel cell. PMID:31183413
Microbiomes of stony and soft deep-sea corals share rare core bacteria. PMID:31182168
Effect of the Degree of Polymerization of Fructans on Ex Vivo Fermented Human Gut Microbiome. PMID:31181638
The Fungal and Bacterial Rhizosphere Microbiome Associated With Grapevine Rootstock Genotypes in Mature and Young Vineyards. PMID:31178845
Egg Production in Poultry Farming Is Improved by Probiotic Bacteria. PMID:31178831
Molecular characterization of alterations in the intestinal microbiota of patients with grade 3 hypertension. PMID:31173179
Bovine milk microbiome: a more complex issue than expected. PMID:31171032
Modulation of cytokine patterns and microbiome during pregnancy in IBD. PMID:31167813
Ground beef microbiome changes with antimicrobial decontamination interventions and product storage. PMID:31166992
Getting to Know the Gut Microbial Diversity of Metropolitan Buenos Aires Inhabitants. PMID:31164869
Lactobacillus rhamnosus GG reverses mortality of neonatal mice against Salmonella challenge. PMID:31160970
Sex-specific association between gut microbiome and fat distribution. PMID:31160598
Understanding microbial community dynamics to improve optimal microbiome selection. PMID:31159875
The Biodiversity and Geochemistry of Cryoconite Holes in Queen Maud Land, East Antarctica. PMID:31159414
Shifts in the Composition of the Microbiota of Stored Wheat Grains in Response to Fumigation. PMID:31156603
The Variation of Nasal Microbiota Caused by Low Levels of Gaseous Ammonia Exposure in Growing Pigs. PMID:31156592
Optimizing the Production of Nursery-Based Biological Soil Crusts for Restoration of Arid Land Soils. PMID:31152015
Experimental warming alters the community composition, diversity, and N2 fixation activity of peat moss (Sphagnum fallax) microbiomes. PMID:31148286
Exploration of antibiotic resistance risks in a veterinary teaching hospital with Oxford Nanopore long read sequencing. PMID:31145757
Comparative screening of endosymbiotic bacteria associated with the asexual and sexual lineages of the termite Glyptotermes nakajimai. PMID:31143363
Oil Hydrocarbon Degradation by Caspian Sea Microbial Communities. PMID:31143165
Wood Decay Characteristics and Interspecific Interactions Control Bacterial Community Succession in Populus grandidentata (Bigtooth Aspen). PMID:31143163
Characteristics of mucosa-associated gut microbiota during treatment in Crohn's disease. PMID:31143071
Host genetic determinants of the gut microbiota of wild mice. PMID:31141224
Regional and Microenvironmental Scale Characterization of the Zostera muelleri Seagrass Microbiome. PMID:31139163
Comparison of Bacterial Populations in the Ceca of Swine at Two Different Stages and their Functional Annotations. PMID:31137556
The effects of chemical and organic fertilizer usage on rhizosphere soil in tea orchards. PMID:31136614
[Role of the microbiome in chronic wounds]. PMID:31134288
Unveiled feather microcosm: feather microbiota of passerine birds is closely associated with host species identity and bacteriocin-producing bacteria. PMID:31127178
Response of Beef Cattle Fecal Microbiota to Grazing on Toxic Tall Fescue. PMID:31126949
Age-based dynamic changes of phylogenetic composition and interaction networks of health pig gut microbiome feeding in a uniformed condition. PMID:31126262
Safety of Hyaluronan 35 in Healthy Human Subjects: A Pilot Study. PMID:31121841
Mucosa-Associated Microbiota in Ileoanal Pouches May Contribute to Clinical Symptoms, Particularly Stool Frequency, Independent of Endoscopic Disease Activity. PMID:31117112
Roots Mediate the Effects of Snowpack Decline on Soil Bacteria, Fungi, and Nitrogen Cycling in a Northern Hardwood Forest. PMID:31114563
Effect of intestinal tapeworms on the gut microbiota of the common carp, Cyprinus carpio. PMID:31113452
An integrated insight into the response of bacterial communities to anthropogenic contaminants in a river: A case study of the Wonderfonteinspruit catchment area, South Africa. PMID:31112559
Diversity and relative abundance of ammonia- and nitrite-oxidizing microorganisms in the offshore Namibian hypoxic zone. PMID:31112557
Toll-like receptor-2 and -4 responses regulate neutrophil infiltration into the junctional epithelium and significantly contribute to the composition of the oral microbiota. PMID:31111967
Dysbiosis and Variation in Predicted Functions of the Granulation Tissue Microbiome in HPV Positive and Negative Severe Chronic Periodontitis. PMID:31111067
Maternal and Breast Milk Influences on the Infant Gut Microbiome, Enteric Health and Growth Outcomes of Rhesus Monkeys. PMID:31107796
Impact of a Bacillus Direct-Fed Microbial on Growth Performance, Intestinal Barrier Integrity, Necrotic Enteritis Lesions, and Ileal Microbiota in Broiler Chickens Using a Laboratory Challenge Model. PMID:31106209
Captivity causes taxonomic and functional convergence of gut microbial communities in bats. PMID:31106061
Diet Rich in Animal Protein Promotes Pro-inflammatory Macrophage Response and Exacerbates Colitis in Mice. PMID:31105710
The role of fungi in heterogeneous sediment microbial networks. PMID:31101834
Fecal short-chain fatty acid concentrations and dysbiosis in dogs with chronic enteropathy. PMID:31099928
Transcriptome analysis of activated sludge microbiomes reveals an unexpected role of minority nitrifiers in carbon metabolism. PMID:31098412
Sex-specific effects of microbiome perturbations on cerebral Aβ amyloidosis and microglia phenotypes. PMID:31097468
Amphibian Host and Skin Microbiota Response to a Common Agricultural Antimicrobial and Internal Parasite. PMID:31093726
Evolution of the gut microbiome following acute HIV-1 infection. PMID:31078141
Correlation of the rumen fluid microbiome and the average daily gain with a dietary supplementation of Allium mongolicum Regel extracts in sheep1. PMID:31074483
Mucosal-associated invariant T cells and oral microbiome in persistent apical periodontitis. PMID:31068577
Effects of Dairy Manure-Based Amendments and Soil Texture on Lettuce- and Radish-Associated Microbiota and Resistomes. PMID:31068435
Faecal microbiota changes associated with the moult fast in chinstrap and gentoo penguins. PMID:31067284
Development of a Blocking Primer to Inhibit the PCR Amplification of the 18S rDNA Sequences of Litopenaeus vannamei and Its Efficacy in Crassostrea hongkongensis. PMID:31065252
Using fecal microbiota as biomarkers for predictions of performance in the selective breeding process of pedigree broiler breeders. PMID:31063485
Hindgut microbiota in laboratory-reared and wild Triatoma infestans. PMID:31059501
Differential Effects of Bacitracin Methylene Disalicylate (BMD) on the Distal Colon and Cecal Microbiota of Young Broiler Chickens. PMID:31058171
Manure and Doxycycline Affect the Bacterial Community and Its Resistome in Lettuce Rhizosphere and Bulk Soil. PMID:31057496
A longitudinal characterization of the Non-Cystic Fibrosis Bronchiectasis airway microbiome. PMID:31053725
Microbiome in the hair follicle of androgenetic alopecia patients. PMID:31050675
Characterization of microbial communities in the chicken oviduct and the origin of chicken embryo gut microbiota. PMID:31048728
Laryngotracheal Microbiota in Adult Laryngotracheal Stenosis. PMID:31043518
Using Ipomoea aquatic as an environmental-friendly alternative to Elodea nuttallii for the aquaculture of Chinese mitten crab. PMID:31041154
Bacterial communities within Phengaris (Maculinea) alcon caterpillars are shifted following transition from solitary living to social parasitism of Myrmica ant colonies. PMID:31031919
Deciphering the complex interplay between microbiota, HPV, inflammation and cancer through cervicovaginal metabolic profiling. PMID:31027917
Agricultural Risk Factors Influence Microbial Ecology in Honghu Lake. PMID:31026580
Impact of reproductive aging on the vaginal microbiome and soluble immune mediators in women living with and at-risk for HIV infection. PMID:31026271
The Vaginal and Urinary Microbiomes in Premenopausal Women With Interstitial Cystitis/Bladder Pain Syndrome as Compared to Unaffected Controls: A Pilot Cross-Sectional Study. PMID:31024861
Gamma Irradiation Influences the Survival and Regrowth of Antibiotic-Resistant Bacteria and Antibiotic-Resistance Genes on Romaine Lettuce. PMID:31024491
Antimicrobial removal on piglets promotes health and higher bacterial diversity in the nasal microbiota. PMID:31024076
Environmental DNA metabarcoding to detect pathogenic Leptospira and associated organisms in leptospirosis-endemic areas of Japan. PMID:31024059
Influence of the Intestinal Microbiota on Colonization Resistance to Salmonella and the Shedding Pattern of Naturally Exposed Pigs. PMID:31020042
Rhizobacterial Community Assembly Patterns Vary Between Crop Species. PMID:31019492
Specific class of intrapartum antibiotics relates to maturation of the infant gut microbiota: a prospective cohort study. PMID:31006170
Diurnal Temperature Variation and Plants Drive Latitudinal Patterns in Seasonal Dynamics of Soil Microbial Community. PMID:31001239
High-Alpine Permafrost and Active-Layer Soil Microbiomes Differ in Their Response to Elevated Temperatures. PMID:31001236
AutoMLST: an automated web server for generating multi-locus species trees highlighting natural product potential. PMID:30997504
Uncovering the hidden marine sponge microbiome by applying a multi-primer approach. PMID:30996336
Exploring the emerging role of the microbiome in cancer immunotherapy. PMID:30995949
A Preliminary Study of Microbiota Diversity in Saliva and Bronchoalveolar Lavage Fluid from Patients with Primary Bronchogenic Carcinoma. PMID:30994108
Microbiomes of Inflammatory Thoracic Aortic Aneurysms Due to Giant Cell Arteritis and Clinically Isolated Aortitis Differ From Those of Non-Inflammatory Aneurysms. PMID:30993253
The Microbiome of Temporal Arteries. PMID:30993251
Diagnosing and tracing the pathogens of infantile infectious diarrhea by amplicon sequencing. PMID:30992716
Diversity of nasal microbiota and its interaction with surface microbiota among residents in healthcare institutes. PMID:30992494
High intake of dietary fructose in overweight/obese teenagers associated with depletion of Eubacterium and Streptococcus in gut microbiome. PMID:30991877
NLRP12 suppresses hepatocellular carcinoma via downregulation of cJun N-terminal kinase activation in the hepatocyte. PMID:30990169
Characterization of Microbiota Associated with Digesta and Mucosa in Different Regions of Gastrointestinal Tract of Nursery Pigs. PMID:30986907
The cervical microbiota in reproductive-age South African women with and without human papillomavirus infection. PMID:30986570
Growth, health, rumen fermentation, and bacterial community of Holstein calves fed Lactobacillus rhamnosus GG during the preweaning stage1. PMID:30984974
Insight Into Dynamics of Gut Microbial Community of Broilers Fed With Fructooligosaccharides Supplemented Low Calcium and Phosphorus Diets. PMID:30984773
Overuse of antianaerobic drug is associated with poor postchemotherapy prognosis of patients with hepatocellular carcinoma. PMID:30980680
A longitudinal study of the faecal microbiome and metabolome of periparturient mares. PMID:30976468
Bamboo lignocellulose degradation by gut symbiotic microbiota of the bamboo snout beetle Cyrtotrachelus buqueti. PMID:30976320
Increased mucosal neutrophil survival is associated with altered microbiota in HIV infection. PMID:30973942
Scalp bacterial shift in Alopecia areata. PMID:30973913
Characteristics of the Intestinal Microbiota in Very Low Birth Weight Infants With Extrauterine Growth Restriction. PMID:30972313
The Koala (Phascolarctos cinereus) faecal microbiome differs with diet in a wild population. PMID:30972242
Host-Microbiome Synergistic Control on Sphingolipid Metabolism by Mechanotransduction in Model Arthritis. PMID:30970641
Bacterial and Archaeal Communities Change With Intensity of Vegetation Coverage in Arenized Soils From the Pampa Biome. PMID:30967845
Characteristic dysbiosis of gut microbiota of Chinese patients with diarrhea-predominant irritable bowel syndrome by an insight into the pan-microbiome. PMID:30958430
Ecological Correlates of Large-Scale Turnover in the Dominant Members of Pseudacris crucifer Skin Bacterial Communities. PMID:30949751
Dysbiosis of Skin Microbiota in Psoriatic Patients: Co-occurrence of Fungal and Bacterial Communities. PMID:30949136
Mucus accumulation in the lungs precedes structural changes and infection in children with cystic fibrosis. PMID:30944166
Evaluation of the bacterial ocular surface microbiome in clinically normal horses before and after treatment with topical neomycin-polymyxin-bacitracin. PMID:30943258
Feed supplementation with biochar may reduce poultry pathogens, including Campylobacter hepaticus, the causative agent of Spotty Liver Disease. PMID:30943226
Biodegradation of thiocyanate by a native groundwater microbial consortium. PMID:30941266
Microbial Community of Saline, Alkaline Lakes in the Nebraska Sandhills Based on 16S rRNA Gene Amplicon Sequence Data. PMID:30938697
Obscure soil microbes and where to find them. PMID:30926921
Effects of Bacillus subtilis on the growth, colony maintenance, and attached bacterial community composition of colonial cyanobacteria. PMID:30919182
The epiphytic microbiota of sour rot-affected grapes differs minimally from that of healthy grapes, indicating causal organisms are already present on healthy berries. PMID:30917111
Evaluation and entomopathogenicity of gut bacteria associated with dauer juveniles of Oscheius chongmingensis (Nematoda: Rhabditidae). PMID:30916451
Houttuynia cordata polysaccharide alleviated intestinal injury and modulated intestinal microbiota in H1N1 virus infected mice. PMID:30910055
Altered diversity and composition of the gut microbiome in patients with cervical cancer. PMID:30904962
Research Techniques Made Simple: Profiling the Skin Microbiota. PMID:30904077
Positive effects of the tea catechin (-)-epigallocatechin-3-gallate on gut bacteria and fitness of Ectropis obliqua Prout (Lepidoptera: Geometridae). PMID:30903009
Genomic Characterization of Candidate Division LCP-89 Reveals an Atypical Cell Wall Structure, Microcompartment Production, and Dual Respiratory and Fermentative Capacities. PMID:30902854
Microbe and host interaction in gastrointestinal homeostasis. PMID:30900006
Characterization of the gut microbiota of invasive Agrilus mali Matsumara (Coleoptera: Buprestidae) using high-throughput sequencing: uncovering plant cell-wall degrading bacteria. PMID:30894631
Benefits of a Bacillus probiotic to larval fish survival and transport stress resistance. PMID:30894554
Characterization of gut microbiota composition and functions in patients with chronic alcohol overconsumption. PMID:30894059
Alterations of the Mice Gut Microbiome via Schistosoma japonicum Ova-Induced Granuloma. PMID:30891012
Exploring the bacteriome in anthropophilic ticks: To investigate the vectors for diagnosis. PMID:30889229
Laboratory contamination over time during low-biomass sample analysis. PMID:30887686
Diabetic cats have decreased gut microbial diversity and a lack of butyrate producing bacteria. PMID:30886210
Analysis of the Effects of Dietary Pattern on the Oral Microbiome of Elite Endurance Athletes. PMID:30871219
Potential Functions of the Gastrointestinal Microbiome Inhabiting the Length of the Rat Digest Tract. PMID:30870968
Apple consumption is associated with a distinctive microbiota, proteomics and metabolomics profile in the gut of Dawley Sprague rats fed a high-fat diet. PMID:30870465
Metagenomic Approach to Characterizing Disease Epidemiology in a Disease-Endemic Environment in Northern Thailand. PMID:30863381
Biochemical but not compositional recovery of skin mucosal microbiome communities after disruption. PMID:30863123
Characterization of the rumen and fecal microbiome in bloated and non-bloated cattle grazing alfalfa pastures and subjected to bloat prevention strategies. PMID:30862851
Changes in Mouse Gut Microbial Community in Response to the Different Types of Commonly Consumed Meat. PMID:30862107
Sedimentary Marl mudstone as a substrate in a xeric environment revealed by microbiome analysis. PMID:30850921
Symbiont-mediated chemical defense in the invasive ladybird Harmonia axyridis. PMID:30847067
Divergent national-scale trends of microbial and animal biodiversity revealed across diverse temperate soil ecosystems. PMID:30846683
Dietary raisin intake has limited effect on gut microbiota composition in adult volunteers. PMID:30845997
Infectious Complications Are Associated With Alterations in the Gut Microbiome in Pediatric Patients With Acute Lymphoblastic Leukemia. PMID:30838178
Dynamic Development of Fecal Microbiome During the Progression of Diabetes Mellitus in Zucker Diabetic Fatty Rats. PMID:30837966
Differential Sensitivity to Plasmodium yoelii Infection in C57BL/6 Mice Impacts Gut-Liver Axis Homeostasis. PMID:30837607
Human Gut Microbiome Response Induced by Fermented Dairy Product Intake in Healthy Volunteers. PMID:30836671
Understanding and overcoming the pitfalls and biases of next-generation sequencing (NGS) methods for use in the routine clinical microbiological diagnostic laboratory. PMID:30834996
Diversity and functional analysis of salivary microflora of Indian Antarctic expeditionaries. PMID:30834068
Long-Term Effects of Periodical Fires on Archaeal Communities from Brazilian Cerrado Soils. PMID:30833827
Does the human placenta delivered at term have a microbiota? Results of cultivation, quantitative real-time PCR, 16S rRNA gene sequencing, and metagenomics. PMID:30832984
1,25(OH)2D3 deficiency-induced gut microbial dysbiosis degrades the colonic mucus barrier in Cyp27b1 knockout mouse model. PMID:30828386
Effects of dietary supplementation of probiotic Enterococcus faecium on growth performance and gut microbiota in weaned piglets. PMID:30825022
Loading ceftriaxone, vancomycin, and Bifidobacteria bifidum TMC3115 to neonatal mice could differently and consequently affect intestinal microbiota and immunity in adulthood. PMID:30824845
Relative abundance of Akkermansia spp. and other bacterial phylotypes correlates with anxiety- and depressive-like behavior following social defeat in mice. PMID:30824791
Differential Effects of Breed and Nursing on Early-Life Colonic Microbiota and Immune Status as Revealed in a Cross-Fostering Piglet Model. PMID:30824438
Neuroprotection of Fasting Mimicking Diet on MPTP-Induced Parkinson's Disease Mice via Gut Microbiota and Metabolites. PMID:30815845
In Vitro Infant Faecal Fermentation of Low Viscosity Barley β-Glucan and Its Acid Hydrolyzed Derivatives: Evaluation of Their Potential as Novel Prebiotics. PMID:30813540
Guanidine thiocyanate solution facilitates sample collection for plant rhizosphere microbiome analysis. PMID:30809445
Sperm Microbiota and Its Impact on Semen Parameters. PMID:30809218
Functional Genes and Bacterial Communities During Organohalide Respiration of Chloroethenes in Microcosms of Multi-Contaminated Groundwater. PMID:30809199
Interactions in self-assembled microbial communities saturate with diversity. PMID:30809013
The fecal, oral, and skin microbiota of children with Chagas disease treated with benznidazole. PMID:30807605
16S rRNA sequence embeddings: Meaningful numeric feature representations of nucleotide sequences that are convenient for downstream analyses. PMID:30807567
Lactobacillus plantarum PFM 105 Promotes Intestinal Development Through Modulation of Gut Microbiota in Weaning Piglets. PMID:30804899
Soil bacterial diversity is positively associated with air temperature in the maritime Antarctic. PMID:30804443
Helminth-Based Product and the Microbiome of Mice with Lupus. PMID:30801028
Neighbor urban wastewater treatment plants display distinct profiles of bacterial community and antibiotic resistance genes. PMID:30796660
Above and belowground community strategies respond to different global change drivers. PMID:30796259
In-feed resin acids reduce matrix metalloproteinase activity in the ileal mucosa of healthy broilers without inducing major effects on the gut microbiota. PMID:30795808
High Prevalence of Cefotaxime Resistant Bacteria in Grazing Beef Cattle: A Cross Sectional Study. PMID:30792707
16S rRNA amplicon sequencing characterization of caecal microbiome composition of broilers and free-range slow-growing chickens throughout their productive lifespan. PMID:30792439
Effect of Selected Stilbenoids on Human Fecal Microbiota. PMID:30791436
Fecal transplant modifies urine chemistry risk factors for urinary stone disease. PMID:30789675
Offspring Microbiomes Differ Across Breeding Sites in a Panmictic Species. PMID:30787910
A diet-change modulates the previously established bacterial gut community in juvenile brown trout (Salmo trutta). PMID:30787388
Genomic and metatranscriptomic analyses of carbon remineralization in an Antarctic polynya. PMID:30786927
A prospective cohort for the investigation of alteration in temporal transcriptional and microbiome trajectories preceding preterm birth: a study protocol. PMID:30782707
Fitness Cost of Aflatoxin Production in Aspergillus flavus When Competing with Soil Microbes Could Maintain Balancing Selection. PMID:30782658
Bacterial community analysis of marine recirculating aquaculture system bioreactors for complete nitrogen removal established from a commercial inoculum. PMID:30778266
Methods for Studying Gut Microbiota: A Primer for Physicians. PMID:30774267
Australian dryland soils are acidic and nutrient-depleted, and have unique microbial communities compared with other drylands. PMID:30774181
Effects of a Saccharomyces cerevisiae fermentation product on fecal characteristics, nutrient digestibility, fecal fermentative end-products, fecal microbial populations, immune function, and diet palatability in adult dogs1. PMID:30770927
Does birth mode modify associations of maternal pre-pregnancy BMI and gestational weight gain with the infant gut microbiome? PMID:30765892
Shift in Bacterial Community Structure Drives Different Atrazine-Degrading Efficiencies. PMID:30761118
Effect of Fortified Daqu on the Microbial Community and Flavor in Chinese Strong-Flavor Liquor Brewing Process. PMID:30761106
Association of Systemic Antibiotic Treatment of Acne With Skin Microbiota Characteristics. PMID:30758497
Root-Associated Endophytic Bacterial Community Composition of Pennisetum sinese from Four Representative Provinces in China. PMID:30754647
The Relationship between Platelet Count and Host Gut Microbiota: A Population-Based Retrospective Cross-Sectional Study. PMID:30744195
Enhancement of gasworks groundwater remediation by coupling a bio-electrochemical and activated carbon system. PMID:30739291
The Microbiome in Lung Cancer Tissue and Recurrence-Free Survival. PMID:30733306
Evaluation of Oral Cavity DNA Extraction Methods on Bacterial and Fungal Microbiota. PMID:30728424
Impacts of Arsenic and Antimony Co-Contamination on Sedimentary Microbial Communities in Rivers with Different Pollution Gradients. PMID:30725170
Impact of Saccharomyces cerevisiae and Lactobacillus buchneri on microbial communities during ensiling and aerobic spoilage of corn silage1. PMID:30715344
The intestinal microbiota predisposes to traveler's diarrhea and to the carriage of multidrug-resistant Enterobacteriaceae after traveling to tropical regions. PMID:30714464
Bacterial Communities in the Alpaca Gastrointestinal Tract Vary With Diet and Body Site. PMID:30713530
Detecting antibiotic resistance genes and human potential pathogenic Bacteria in fishmeal by culture-independent method. PMID:30707381
The Water Hyacinth Microbiome: Link Between Carbon Turnover and Nutrient Cycling. PMID:30706113
Intestinal Morphologic and Microbiota Responses to Dietary Bacillus spp. in a Broiler Chicken Model. PMID:30705639
Marine biofilms constitute a bank of hidden microbial diversity and functional potential. PMID:30705275
Feed Restriction Modifies Intestinal Microbiota-Host Mucosal Networking in Chickens Divergent in Residual Feed Intake. PMID:30701192
Microbiome Alteration in Type 2 Diabetes Mellitus Model of Zebrafish. PMID:30696861
Long Term Diversity and Distribution of Non-photosynthetic Cyanobacteria in Peri-Alpine Lakes. PMID:30692982
iVikodak-A Platform and Standard Workflow for Inferring, Analyzing, Comparing, and Visualizing the Functional Potential of Microbial Communities. PMID:30692979
Megaphages infect Prevotella and variants are widespread in gut microbiomes. PMID:30692672
Comparative genomics of Bacteria commonly identified in the built environment. PMID:30691394
The Purple Sea Urchin Strongylocentrotus purpuratus Demonstrates a Compartmentalization of Gut Bacterial Microbiota, Predictive Functional Attributes, and Taxonomic Co-Occurrence. PMID:30691133
The Microbiome Stress Project: Toward a Global Meta-Analysis of Environmental Stressors and Their Effects on Microbial Communities. PMID:30687263
Soil microbial restoration strategies for promoting climate-ready prairie ecosystems. PMID:30680826
Close social relationships correlate with human gut microbiota composition. PMID:30679677
Gut microbiota-mediated Gene-Environment interaction in the TashT mouse model of Hirschsprung disease. PMID:30679567
Genomic and metagenomic insights into the microbial community of a thermal spring. PMID:30674352
Copper Affects Composition and Functioning of Microbial Communities in Marine Biofilms at Environmentally Relevant Concentrations. PMID:30671047
Genomic Analyses of Acute Flaccid Myelitis Cases among a Cluster in Arizona Provide Further Evidence of Enterovirus D68 Role. PMID:30670612
A collection of rumen bacteriome data from 334 mid-lactation dairy cows. PMID:30667380
Gut microbiota density influences host physiology and is shaped by host and microbial factors. PMID:30666957
Population structure of human gut bacteria in a diverse cohort from rural Tanzania and Botswana. PMID:30665461
Depth-Dependent Environmental Drivers of Microbial Plankton Community Structure in the Northern Gulf of Mexico. PMID:30662434
Comparative study of vulva and abdominal skin microbiota of healthy females with high and average BMI. PMID:30654751
Microbiotas from Humans with Inflammatory Bowel Disease Alter the Balance of Gut Th17 and RORγt+ Regulatory T Cells and Exacerbate Colitis in Mice. PMID:30650377
Preferential flow paths shape the structure of bacterial communities in a clayey till depth profile. PMID:30649315
The effects of afforestation on soil bacterial communities in temperate grassland are modulated by soil chemical properties. PMID:30648012
The microbiomic and environmental analysis of sediments in the Indo-Pacific humpback dolphin (Sousa chinensis) habitat in the Northern Beibu Gulf, China. PMID:30644049
Healthy infants harbor intestinal bacteria that protect against food allergy. PMID:30643289
Reductive metabolism of the important atmospheric gas isoprene by homoacetogens. PMID:30643199
Metagenomic profiling of ticks: Identification of novel rickettsial genomes and detection of tick-borne canine parvovirus. PMID:30640905
The Metabolic Response to a Low Amino Acid Diet is Independent of Diet-Induced Shifts in the Composition of the Gut Microbiome. PMID:30635612
The Mode of Action of Chicory Roots on Skatole Production in Entire Male Pigs Is neither via Reducing the Population of Skatole-Producing Bacteria nor via Increased Butyrate Production in the Hindgut. PMID:30635386
Potential role of host-derived quorum quenching in modulating bacterial colonization in the moon jellyfish Aurelia aurita. PMID:30631102
Seasonal, sub-seasonal and diurnal variation of soil bacterial community composition in a temperate deciduous forest. PMID:30629168
Cross-Domain and Viral Interactions in the Microbiome. PMID:30626617
Pilot study of probiotic/colostrum supplementation on gut function in children with autism and gastrointestinal symptoms. PMID:30625189
OTUX: V-region specific OTU database for improved 16S rRNA OTU picking and efficient cross-study taxonomic comparison of microbiomes. PMID:30624596
Diversity and Composition of Pelagic Prokaryotic and Protist Communities in a Thin Arctic Sea-Ice Regime. PMID:30623212
Comparison of the nasopharynx microbiome between influenza and non-influenza cases of severe acute respiratory infections: A pilot study. PMID:30623080
Gut Microbiota Features in Young Children With Autism Spectrum Disorders. PMID:30619212
Microbiota Changes in the Musk Gland of Male Forest Musk Deer During Musk Maturation. PMID:30619139
Impact of intramammary inoculation of inactivated Lactobacillus rhamnosus and antibiotics on the milk microbiota of water buffalo with subclinical mastitis. PMID:30615691
Specific microbes of saliva and vaginal fluid of Guangdong Han females based on 16S rDNA high-throughput sequencing. PMID:30610448
Vaginal microbiome variances in sample groups categorized by clinical criteria of bacterial vaginosis. PMID:30598080
Higher Fecal Short-Chain Fatty Acid Levels Are Associated with Gut Microbiome Dysbiosis, Obesity, Hypertension and Cardiometabolic Disease Risk Factors. PMID:30591685
The efficacy of whole human genome capture on ancient dental calculus and dentin. PMID:30586168
Determination of microbiological characteristics in the digestive tract of different ruminant species. PMID:30585444
Impact of Introduction of Arbuscular Mycorrhizal Fungi on the Root Microbial Community in Agricultural Fields. PMID:30584188
Freshwater carbon and nutrient cycles revealed through reconstructed population genomes. PMID:30581671
Effects of Saccharomyces Cerevisiae Fermentation Products on the Microbial Community throughout the Gastrointestinal Tract of Calves. PMID:30577678
Ecological Succession of Sulfur-Oxidizing Epsilon- and Gammaproteobacteria During Colonization of a Shallow-Water Gas Vent. PMID:30574130
Gut microbiota profiling in Norwegian weaner pigs reveals potentially beneficial effects of a high-fiber rapeseed diet. PMID:30571797
Assessing the Influence of Dietary History on Gut Microbiota. PMID:30569322
Impact of xylanases on gut microbiota of growing pigs fed corn- or wheat-based diets. PMID:30564753
Microbial Community Structure in a Malaysian Tropical Peat Swamp Forest: The Influence of Tree Species and Depth. PMID:30564202
A Metabologenomic Approach Reveals Changes in the Intestinal Environment of Mice Fed on American Diet. PMID:30562947
The fecal microbiome and serum concentrations of indoxyl sulfate and p-cresol sulfate in cats with chronic kidney disease. PMID:30561098
Free D-amino acids produced by commensal bacteria in the colonic lumen. PMID:30559391
Signatures within the esophageal microbiome are associated with host genetics, age, and disease. PMID:30558669
Microbial community composition and diversity in the Indian Ocean deep sea REY-rich muds. PMID:30557300
Microbial communities in swine lungs and their association with lung lesions. PMID:30556308
Bacterial Diversity Associated With the Rhizosphere and Endosphere of Two Halophytes: Glaux maritima and Salicornia europaea. PMID:30555434
Coupled Carbon, Sulfur, and Nitrogen Cycles Mediated by Microorganisms in the Water Column of a Shallow-Water Hydrothermal Ecosystem. PMID:30555427
Iron Biofortified Carioca Bean (Phaseolus vulgaris L.)-Based Brazilian Diet Delivers More Absorbable Iron and Affects the Gut Microbiota In Vivo (Gallus gallus). PMID:30551574
Impact of CFTR modulation with Ivacaftor on Gut Microbiota and Intestinal Inflammation. PMID:30546102
Reassessment of Routine Midstream Culture in Diagnosis of Urinary Tract Infection. PMID:30541935
Diet, physical activity and screen time but not body mass index are associated with the gut microbiome of a diverse cohort of college students living in university housing: a cross-sectional study. PMID:30541450
Fecal microbiota analysis of polycystic kidney disease patients according to renal function: A pilot study. PMID:30539656
Impact of Individual Traits, Saturated Fat, and Protein Source on the Gut Microbiome. PMID:30538180
Comparative Analysis of Anuran Amphibian Skin Microbiomes Across Inland and Coastal Wetlands. PMID:30535916
Cyanate and urea are substrates for nitrification by Thaumarchaeota in the marine environment. PMID:30531977
Microbiota and cancer immunotherapy: in search of microbial signals. PMID:30530851
Influence of CO2 Degassing on the Microbial Community in a Dry Mofette Field in Hartoušov, Czech Republic (Western Eger Rift). PMID:30524401
Bacterial microbiome of the chigger mite Leptotrombidium imphalum varies by life stage and infection with the scrub typhus pathogen Orientia tsutsugamushi. PMID:30521561
Marginal Zinc Deficiency and Environmentally Relevant Concentrations of Arsenic Elicit Combined Effects on the Gut Microbiome. PMID:30518676
An alternative storage method for characterization of the intestinal microbiota through next generation sequencing. PMID:30517247
Gut microbiota diversity across ethnicities in the United States. PMID:30513082
Feed Restriction Modulates the Fecal Microbiota Composition, Nutrient Retention, and Feed Efficiency in Chickens Divergent in Residual Feed Intake. PMID:30510543
An assessment of the microbial community in an urban fringing tidal marsh with an emphasis on petroleum hydrocarbon degradative genes. PMID:30509817
Lactobacillus reuteri HCM2 protects mice against Enterotoxigenic Escherichia coli through modulation of gut microbiota. PMID:30504833
Characterization of vaginal microbiota in Thai women. PMID:30498641
Bacterial Community Composition in the Sea Surface Microlayer Off the Peruvian Coast. PMID:30498480
Highly competitive fungi manipulate bacterial communities in decomposing beech wood (Fagus sylvatica). PMID:30496397
Deep-sea anthropogenic macrodebris harbours rich and diverse communities of bacteria and archaea. PMID:30485275
Comparative analysis of the gut microbiota in distinct statin response patients in East China. PMID:30484158
Deforestation impacts network co-occurrence patterns of microbial communities in Amazon soils. PMID:30481288
Comparison of Microbiota Variation in Korean Healthy Adolescents with Adults Suggests Notable Maturity Differences. PMID:30481125
Effect of Ground Chopi (Zanthoxylum piperitum) on Physicochemical Traits and Microbial Community of Chicken Summer Sausage during Manufacture. PMID:30479501
Characterization of fungal dysbiosis in Japanese patients with inflammatory bowel disease. PMID:30478724
An intensive milk replacer feeding program benefits immune response and intestinal microbiota of lambs during weaning. PMID:30477479
Host species, pathogens and disease associated with divergent nasal microbial communities in tortoises. PMID:30473851
Witches' broom resistant genotype CCN51 shows greater diversity of symbiont bacteria in its phylloplane than susceptible genotype catongo. PMID:30470193
The Influence of Habitat and Phylogeny on the Skin Microbiome of Amphibians in Guatemala and Mexico. PMID:30467714
Ecological patterns in the skin microbiota of frogs from tropical Australia. PMID:30464823
Comparative Analysis of the Microbial Profiles in Supragingival Plaque Samples Obtained From Twins With Discordant Caries Phenotypes and Their Mothers. PMID:30460203
Intestinal probiotics restore the ecological fitness decline of Bactrocera dorsalis by irradiation. PMID:30459840
Plant Litter Type Dictates Microbial Communities Responsible for Greenhouse Gas Production in Amended Lake Sediments. PMID:30459741
The lost world of Cuatro Ciénegas Basin, a relictual bacterial niche in a desert oasis. PMID:30457104
Evaluation of Sialyllactose Supplementation of a Prebiotic-Containing Formula on Growth, Intestinal Development, and Bacterial Colonization in the Neonatal Piglet. PMID:30443641
Microbiota of Inflammatory Bowel Disease Models. PMID:30440884
Contribution of Host Genetics to the Variation of Microbial Composition of Cecum Lumen and Feces in Pigs. PMID:30429843
Aquatic Bacterial Communities Associated With Land Use and Environmental Factors in Agricultural Landscapes Using a Metabarcoding Approach. PMID:30425684
Fecal Akkermansia muciniphila Is Associated with Body Composition and Microbiota Diversity in Overweight and Obese Women with Breast Cancer Participating in a Presurgical Weight Loss Trial. PMID:30420171
Alterations of fecal bacterial communities in patients with lung cancer. PMID:30416659
The effect of drinking water pH on the human gut microbiota and glucose regulation: results of a randomized controlled cross-over intervention. PMID:30413727
Re-purposing 16S rRNA gene sequence data from within case paired tumor biopsy and tumor-adjacent biopsy or fecal samples to identify microbial markers for colorectal cancer. PMID:30412600
Variations in Gut Microbiota of Siberian Flying Squirrels Correspond to Seasonal Phenological Changes in Their Hokkaido Subarctic Forest Ecosystem. PMID:30411188
Considerations When Designing a Microbiome Study: Implications for Nursing Science. PMID:30409024
Variation and diversification of the microbiome of Schlechtendalia chinensis on two alternate host plants. PMID:30408037
Chicken Gut Microbiota: Importance and Detection Technology. PMID:30406117
The Biogeographical Distribution of Soil Bacterial Communities in the Loess Plateau as Revealed by High-Throughput Sequencing. PMID:30405547
Long-Term Nitrogen Fertilization Elevates the Activity and Abundance of Nitrifying and Denitrifying Microbial Communities in an Upland Soil: Implications for Nitrogen Loss From Intensive Agricultural Systems. PMID:30405543
Microbiome shifts with onset and progression of Sea Star Wasting Disease revealed through time course sampling. PMID:30405146
First Insights into the Gut Microbiota of Mexican Patients with Celiac Disease and Non-Celiac Gluten Sensitivity. PMID:30400238
An Interleukin-23-Interleukin-22 Axis Regulates Intestinal Microbial Homeostasis to Protect from Diet-Induced Atherosclerosis. PMID:30389414
Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival. PMID:30388454
Fecal microbiota associated with phytohaemagglutinin-induced immune response in nestlings of a passerine bird. PMID:30386575
Altered Gut Microbiota and Compositional Changes in Firmicutes and Proteobacteria in Mexican Undernourished and Obese Children. PMID:30386323
Reduced diversity of gut microbiota in two Aedes mosquitoes species in areas of recent invasion. PMID:30382151
Long-term investigation of microbial community composition and transcription patterns in a biogas plant undergoing ammonia crisis. PMID:30381904
Repeated rectal application of a hyperosmolar lubricant is associated with microbiota shifts but does not affect PrEP drug concentrations: results from a randomized trial in men who have sex with men. PMID:30378274
Host diet mediates a negative relationship between abundance and diversity of Drosophila gut microbiota. PMID:30377517
Balance of saccharolysis and proteolysis underpins improvements in stool quality induced by adding a fiber bundle containing bound polyphenols to either hydrolyzed meat or grain-rich foods. PMID:30376392
Associations between digital dermatitis lesion grades in dairy cattle and the quantities of four Treponema species. PMID:30373670
The gut microbiome participates in transgenerational inheritance of low-temperature responses in Drosophila melanogaster. PMID:30372516
Neonatal gut and respiratory microbiota: coordinated development through time and space. PMID:30367675
Diet Influences Early Microbiota Development in Dairy Calves without Long-Term Impacts on Milk Production. PMID:30367001
Gut microbiota and plasma metabolites associated with diabetes in women with, or at high risk for, HIV infection. PMID:30366816
Distinct mucosal microbial communities in infants with surgical necrotizing enterocolitis correlate with age and antibiotic exposure. PMID:30365522
Microbiome dataset from the upper respiratory tract of patients living with HIV, HIV/TB and TB from Myanmar. PMID:30364728
Comparing microbial community compositions of biogas and sewage treatment plants by analyzing 16S rRNA gene data. PMID:30364597
Effects of a Commercial Microbial Agent on the Bacterial Communities in Shrimp Culture System. PMID:30364349
Deciphering the bacterial composition in the rhizosphere of Baphicacanthus cusia (NeeS) Bremek. PMID:30361644
Impact of high-grain diet feeding on mucosa-associated bacterial community and gene expression of tight junction proteins in the small intestine of goats. PMID:30358163
Titanium Ions Inhibit the Bacteria in Vase Solutions of Freshly Cut Gerbera jamesonii and Extend the Flower Longevity. PMID:30357425
Clostridioides difficile uses amino acids associated with gut microbial dysbiosis in a subset of patients with diarrhea. PMID:30355801
Comparative study of gut microbiota in wild and captive Malaysian Mahseer (Tor tambroides). PMID:30353678
Bacterial and archaeal community structures in perennial cave ice. PMID:30353134
Differences in the fecal microbiota of neonates born at home or in the hospital. PMID:30353125
Gut Microbiota in the First 2 Years of Life and the Association with Body Mass Index at Age 12 in a Norwegian Birth Cohort. PMID:30352933
Huang-Lian-Jie-Du-Decoction Ameliorates Hyperglycemia and Insulin Resistant in Association With Gut Microbiota Modulation. PMID:30349514
Limited congruence exhibited across microbial, meiofaunal and macrofaunal benthic assemblages in a heterogeneous coastal environment. PMID:30341362
Competitive lottery-based assembly of selected clades in the human gut microbiome. PMID:30340536
Comparison of Healthy and Dandruff Scalp Microbiome Reveals the Role of Commensals in Scalp Health. PMID:30338244
Intestinal toxicity of deoxynivalenol is limited by supplementation with Lactobacillus plantarum JM113 and consequentially altered gut microbiota in broiler chickens. PMID:30338065
Supplemental Bacillus subtilis DSM 32315 manipulates intestinal structure and microbial composition in broiler chickens. PMID:30337568
Fecal source identification using random forest. PMID:30336775
A Comparison of Techniques for Collecting Skin Microbiome Samples: Swabbing Versus Tape-Stripping. PMID:30333815
Gut bacterial and fungal communities in ground-dwelling beetles are associated with host food habit and habitat. PMID:30333525
Salt-Responsive Metabolite, β-Hydroxybutyrate, Attenuates Hypertension. PMID:30332647
Specific Volumetric Weight-Driven Shift in Microbiota Compositions With Saccharifying Activity Change in Starter for Chinese Baijiu Fermentation. PMID:30323805
Differential Activation of Hepatic Invariant NKT Cell Subsets Plays a Key Role in Progression of Nonalcoholic Steatohepatitis. PMID:30322964
Community profiling of the urinary microbiota: considerations for low-biomass samples. PMID:30315209
Protective role of the vulture facial skin and gut microbiomes aid adaptation to scavenging. PMID:30309375
Microbial community and functions associated with digestion of algal polysaccharides in the visceral tract of Haliotis discus hannai: Insights from metagenome and metatranscriptome analysis. PMID:30308038
Gut microbiome modulation during treatment of mucositis with the dairy bacterium Lactococcus lactis and recombinant strain secreting human antimicrobial PAP. PMID:30305667
Meta-analysis of effects of exclusive breastfeeding on infant gut microbiota across populations. PMID:30301893
A Natural History of Actinic Keratosis and Cutaneous Squamous Cell Carcinoma Microbiomes. PMID:30301852
Rethinking the Coral Microbiome: Simplicity Exists within a Diverse Microbial Biosphere. PMID:30301849
Profiling the airway in the macaque model of tuberculosis reveals variable microbial dysbiosis and alteration of community structure. PMID:30301469
Metagenomic analysis and the functional profiles of traditional fermented pork fat 'sa-um' of Northeast India. PMID:30298308
Influence of Temperature on the Bacterial Community in Substrate and Extracellular Enzyme Activity of Auricularia cornea. PMID:30294482
Differential expression of tumor-associated genes and altered gut microbiome with decreased Akkermansia muciniphila confer a tumor-preventive microenvironment in intestinal epithelial Pten-deficient mice. PMID:30292635
Rhizosphere Microbial Response to Multiple Metal(loid)s in Different Contaminated Arable Soils Indicates Crop-Specific Metal-Microbe Interactions. PMID:30291123
Electrode Colonization by the Feammox Bacterium Acidimicrobiaceae sp. Strain A6. PMID:30291122
The palatine tonsil bacteriome, but not the mycobiome, is altered in HIV infection. PMID:30290791
Fungal, Bacterial, and Archaeal Diversity in Soils Beneath Native and Introduced Plants in Fiji, South Pacific. PMID:30288545
Air and waterborne microbiome of a pharmaceutical plant provide insights on spatiotemporal variations and community resilience after disturbance. PMID:30285625
Chinese Black Truffle (Tuber indicum) Alters the Ectomycorrhizosphere and Endoectomycosphere Microbiome and Metabolic Profiles of the Host Tree Quercus aliena. PMID:30283422
Caloric restriction promotes functional changes involving short-chain fatty acid biosynthesis in the rat gut microbiota. PMID:30283130
Gut microbiota-dependent modulation of innate immunity and lymph node remodeling affects cardiac allograft outcomes. PMID:30282817
Variation of soil bacterial communities along a chronosequence of Eucalyptus plantation. PMID:30280026
Dietary Bile Salt Types Influence the Composition of Biliary Bile Acids and Gut Microbiota in Grass Carp. PMID:30279683
Local confinement of disease-related microbiome facilitates recovery of gorgonian sea fans from necrotic-patch disease. PMID:30279438
High-production dairy cattle exhibit different rumen and fecal bacterial community and rumen metabolite profile than low-production cattle. PMID:30277648
The time response of anaerobic digestion microbiome during an organic loading rate shock. PMID:30276715
Loss of murine Paneth cell function alters the immature intestinal microbiome and mimics changes seen in neonatal necrotizing enterocolitis. PMID:30273395
Obesity alters composition and diversity of the oral microbiota in patients with type 2 diabetes mellitus independently of glycemic control. PMID:30273364
Optimizing PCR primers targeting the bacterial 16S ribosomal RNA gene. PMID:30268091
Progress of analytical tools and techniques for human gut microbiome research. PMID:30267313
Oral probiotic combination of Lactobacillus and Bifidobacterium alters the gastrointestinal microbiota during antibiotic treatment for Clostridium difficile infection. PMID:30265691
Fish Gut Microbiome: Current Approaches and Future Perspectives. PMID:30262950
Comparison of Oral Collection Methods for Studies of Microbiota. PMID:30262598
Autoprobiotics as an Approach for Restoration of Personalised Microbiota. PMID:30258408
First insight into microbiome profile of fungivorous thrips Hoplothrips carpathicus (Insecta: Thysanoptera) at different developmental stages: molecular evidence of Wolbachia endosymbiosis. PMID:30258200
Community Structure, Dynamics and Interactions of Bacteria, Archaea and Fungi in Subtropical Coastal Wetland Sediments. PMID:30258074
Soil productivity and structure of bacterial and fungal communities in unfertilized arable soil. PMID:30248134
A Comparative Analysis of Microbial DNA Preparation Methods for Use With Massive and Branching Coral Growth Forms. PMID:30245683
Microbiome 101: Studying, Analyzing, and Interpreting Gut Microbiome Data for Clinicians. PMID:30240894
Effects of temperature on bacterial microbiome composition in Ixodes scapularis ticks. PMID:30239169
Comparison of Fecal Collection Methods for Microbiome and Metabolomics Studies. PMID:30234027
Design of Primers for Evaluation of Lactic Acid Bacteria Populations in Complex Biological Samples. PMID:30233530
Identification of Halophilic Microbes in Lung Fibrotic Tissue by Oligotyping. PMID:30233503
Improved Glucose and Lipid Metabolism in the Early Life of Female Offspring by Maternal Dietary Genistein Is Associated With Alterations in the Gut Microbiota. PMID:30233500
The human gut pan-microbiome presents a compositional core formed by discrete phylogenetic units. PMID:30232462
Child Weight Gain Trajectories Linked To Oral Microbiota Composition. PMID:30232389
SYK-CARD9 Signaling Axis Promotes Gut Fungi-Mediated Inflammasome Activation to Restrict Colitis and Colon Cancer. PMID:30231985
Predicting recurrence of Clostridium difficile infection following encapsulated fecal microbiota transplantation. PMID:30227892
The impact of chemerin or chemokine-like receptor 1 loss on the mouse gut microbiome. PMID:30225164
Longitudinal development of the dust microbiome in a newly opened Norwegian kindergarten. PMID:30219104
A PCR-Based Method for Distinguishing between Two Common Beehive Bacteria, Paenibacillus larvae and Brevibacillus laterosporus. PMID:30217838
Conservation Implications of Shifting Gut Microbiomes in Captive-Reared Endangered Voles Intended for Reintroduction into the Wild. PMID:30213049
The Microbiome of the Gastrointestinal Tract of a Range-Shifting Marine Herbivorous Fish. PMID:30210475
Insights Into Culturomics of the Rumen Microbiome. PMID:30210474
G3 PhyloChip Analysis Confirms the Promise of Plant-Based Culture Media for Unlocking the Composition and Diversity of the Maize Root Microbiome and for Recovering Unculturable Candidate Divisions/Phyla. PMID:30210099
Captivity-Induced Changes in the Skin Microbial Communities of Hellbenders (Cryptobranchus alleganiensis). PMID:30209587
Cellulase-Hemicellulase Activities and Bacterial Community Composition of Different Soils from Algerian Ecosystems. PMID:30209585
GeFaST: An improved method for OTU assignment by generalising Swarm's fastidious clustering approach. PMID:30208838
Characterization of bacterial and microbial eukaryotic communities associated with an ephemeral hypoxia event in Taihu Lake, a shallow eutrophic Chinese lake. PMID:30206827
Tick Microbiome Characterization by Next-Generation 16S rRNA Amplicon Sequencing. PMID:30199026
Over 2.5 million COI sequences in GenBank and growing. PMID:30192752
Shifts in the Skin-Associated Microbiota of Hatchery-Reared Common Snook Centropomus undecimalis During Acclimation to the Wild. PMID:30191255
Microbial Community and in situ Bioremediation of Groundwater by Nitrate Removal in the Zone of a Radioactive Waste Surface Repository. PMID:30190715
Endophytic Bacterial Community Structure and Function of Herbaceous Plants From Petroleum Hydrocarbon Contaminated and Non-contaminated Sites. PMID:30190710
Habitat environments impacted the gut microbiome of long-distance migratory swan geese but central species conserved. PMID:30190564
Evaluation of the Epithelial Barrier Function and Ileal Microbiome in an Established Necrotic Enteritis Challenge Model in Broiler Chickens. PMID:30186844
Local and Regional Scale Heterogeneity Drive Bacterial Community Diversity and Composition in a Polar Desert. PMID:30186257
TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution. PMID:30185512
The use of Prevotella bryantii 3C5 for modulation of the ruminal environment in an ovine model. PMID:30181051
Profiling of the Microbiome Associated With Nitrogen Removal During Vermifiltration of Wastewater From a Commercial Dairy. PMID:30177929
Pediatric Obstructive Sleep Apnea is Associated With Changes in the Oral Microbiome and Urinary Metabolomics Profile: A Pilot Study. PMID:30176961
Methods for automatic reference trees and multilevel phylogenetic placement. PMID:30169747
A Review of Prebiotics Against Salmonella in Poultry: Current and Future Potential for Microbiome Research Applications. PMID:30159318
Colon Microbiome of Pigs Fed Diet Contaminated with Commercial Purified Deoxynivalenol and Zearalenone. PMID:30158450
Influence of cigarette smoking on the human duodenal mucosa-associated microbiota. PMID:30157953
Insights into the Populations of Proteolytic and Amino Acid-Fermenting Bacteria from Microbiota Analysis Using In Vitro Enrichment Cultures. PMID:30151556
Distinct systemic microbiome and microbial translocation are associated with plasma level of anti-CD4 autoantibody in HIV infection. PMID:30150778
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. PMID:30148503
Characterization of bacterial microbiota compositions along the intestinal tract in pigs and their interactions and functions. PMID:30143657
Marchantia liverworts as a proxy to plants' basal microbiomes. PMID:30140076
Differential effects of selective and non-selective cyclooxygenase inhibitors on fecal microbiota in adult horses. PMID:30138339
Sex-specific associations of infants' gut microbiome with arsenic exposure in a US population. PMID:30135504
Impact of soil salinity on the microbial structure of halophyte rhizosphere microbiome. PMID:30128756
Biases in Prokaryotic Community Amplicon Sequencing Affected by DNA Extraction Methods in Both Saline and Non-saline Soil. PMID:30127778
PARP1 Is Up-Regulated in Non-small Cell Lung Cancer Tissues in the Presence of the Cyanobacterial Toxin Microcystin. PMID:30127774
The Performance of an Oral Microbiome Biomarker Panel in Predicting Oral Cavity and Oropharyngeal Cancers. PMID:30123780
Denoising the Denoisers: an independent evaluation of microbiome sequence error-correction approaches. PMID:30123705
Linkages between mineralogy, fluid chemistry, and microbial communities within hydrothermal chimneys from the Endeavour Segment, Juan de Fuca Ridge. PMID:30123099
Chloroplast sequence variation and the efficacy of peptide nucleic acids for blocking host amplification in plant microbiome studies. PMID:30121081
Comparison of microbiomes of cold-water corals Primnoa pacifica and Primnoa resedaeformis, with possible link between microbiome composition and host genotype. PMID:30120375
AIEC infection triggers modification of gut microbiota composition in genetically predisposed mice, contributing to intestinal inflammation. PMID:30120269
Conventional culture methods with commercially available media unveil the presence of novel culturable bacteria. PMID:30118379
Robust Domination of Lactobacillus sakei in Microbiota During Traditional Japanese Sake Starter Yamahai-Moto Fermentation and the Accompanying Changes in Metabolites. PMID:30116836
Unraveling the Composition of the Root-Associated Bacterial Microbiota of Phragmites australis and Typha latifolia. PMID:30116224
Detection of pathogenic bacteria in the blood from sepsis patients using 16S rRNA gene amplicon sequencing analysis. PMID:30110400
Social behaviour in bees influences the abundance of Sodalis (Enterobacteriaceae) symbionts. PMID:30109092
Gut Microbiota in Tibetan Herdsmen Reflects the Degree of Urbanization. PMID:30108579
Concentration and Community of Airborne Bacteria in Response to Cyclical Haze Events During the Fall and Midwinter in Beijing, China. PMID:30108578
Dietary l-arginine Supplementation Alleviates the Intestinal Injury and Modulates the Gut Microbiota in Broiler Chickens Challenged by Clostridium perfringens. PMID:30108569
Do Ruminal Ciliates Select Their Preys and Prokaryotic Symbionts? PMID:30108566
Bacterial Diversity in Replicated Hydrogen Sulfide-Rich Streams. PMID:30105506
Investigating Effects of Tulathromycin Metaphylaxis on the Fecal Resistome and Microbiome of Commercial Feedlot Cattle Early in the Feeding Period. PMID:30105011
Ultraviolet Irradiation of Skin Alters the Faecal Microbiome Independently of Vitamin D in Mice. PMID:30103486
Loss of HDAC6 alters gut microbiota and worsens obesity. PMID:30102568
Exploring the Impact of the Biofloc Rearing System and an Oral WSSV Challenge on the Intestinal Bacteriome of Litopenaeus vannamei. PMID:30096796
Disparate effects of antibiotics on hypertension. PMID:30095376
Coral microbiome database: Integration of sequences reveals high diversity and relatedness of coral-associated microbes. PMID:30094953
Human pharyngeal microbiota in age-related macular degeneration. PMID:30089174
Microbial connectivity and sorting in a High Arctic watershed. PMID:30087410
Co-occurring nematodes and bacteria in submarine canyon sediments. PMID:30083476
Variations of Bacterial Community Composition and Functions in an Estuary Reservoir during Spring and Summer Alternation. PMID:30082592
Microbiome Composition in Both Wild-Type and Disease Model Mice Is Heavily Influenced by Mouse Facility. PMID:30079054
Fiber Supplements Derived From Sugarcane Stem, Wheat Dextrin and Psyllium Husk Have Different In Vitro Effects on the Human Gut Microbiota. PMID:30072976
Soil bacterial networks are less stable under drought than fungal networks. PMID:30072764
High Dose Vitamin D supplementation alters faecal microbiome and predisposes mice to more severe colitis. PMID:30065252
Gut Microbiota of Great Spotted Cuckoo Nestlings is a Mixture of Those of Their Foster Magpie Siblings and of Cuckoo Adults. PMID:30060541
A comparison of computationally predicted functional metagenomes and microarray analysis for microbial P cycle genes in a unique basalt-soil forest. PMID:30057749
Gut microbiota is associated with obesity and cardiometabolic disease in a population in the midst of Westernization. PMID:30054529
Interaction Between Plant Competition and Rhizospheric Bacterial Community Influence Secondary Succession of Abandoned Farmland on the Loess Plateau of China. PMID:30050542
Gut Bacterial Microbiota and its Resistome Rapidly Recover to Basal State Levels after Short-term Amoxicillin-Clavulanic Acid Treatment in Healthy Adults. PMID:30046129
A two-stage microbial association mapping framework with advanced FDR control. PMID:30045760
Bacterial DNA patterns identified using paired-end Illumina sequencing of 16S rRNA genes from whole blood samples of septic patients in the emergency room and intensive care unit. PMID:30045694
Minor taxa in human skin microbiome contribute to the personal identification. PMID:30044822
Antibiotic-induced acceleration of type 1 diabetes alters maturation of innate intestinal immunity. PMID:30039798
Gut microflora may facilitate adaptation to anthropic habitat: A comparative study in Rattus. PMID:30038748
Oropharyngeal microbiome evaluation highlights Neisseria abundance in active celiac patients. PMID:30038321
Selection of Appropriate Metagenome Taxonomic Classifiers for Ancient Microbiome Research. PMID:30035235
Current Perspectives of the Chicken Gastrointestinal Tract and Its Microbiome. PMID:30026889
Highlighting Clinical Metagenomics for Enhanced Diagnostic Decision-making: A Step Towards Wider Implementation. PMID:30026887
Endosymbiont genomes yield clues of tubeworm success. PMID:30022157
In ovo microbial communities: a potential mechanism for the initial acquisition of gut microbiota among oviparous birds and lizards. PMID:30021862
Taxonomic annotation errors incorrectly assign the family Pseudoalteromonadaceae to the order Vibrionales in Greengenes: implications for microbial community assessments. PMID:30018864
16S rRNA Long-Read Sequencing of the Granulation Tissue from Nonsmokers and Smokers-Severe Chronic Periodontitis Patients. PMID:30013983
Betaine Improves Intestinal Functions by Enhancing Digestive Enzymes, Ameliorating Intestinal Morphology, and Enriching Intestinal Microbiota in High-salt stressed Rats. PMID:30012963
The murine female intestinal microbiota does not shift throughout the estrous cycle. PMID:30011327
Gut microbial and metabolomic profiles after fecal microbiota transplantation in pediatric ulcerative colitis patients. PMID:30010747
Enterococcal Concentrations in a Coastal Ecosystem Are a Function of Fecal Source Input, Environmental Conditions, and Environmental Sources. PMID:30006393
AnnotationBustR: an R package to extract subsequences from GenBank annotations. PMID:30002984
Evolutionary trends in host physiology outweigh dietary niche in structuring primate gut microbiomes. PMID:29995839
The short-term impact of probiotic consumption on the oral cavity microbiome. PMID:29992994
Comparative Metagenomics Provides Insight Into the Ecosystem Functioning of the Shark Bay Stromatolites, Western Australia. PMID:29988640
The bacterial community structure and functional profile in the heavy metal contaminated paddy soils, surrounding a nonferrous smelter in South Korea. PMID:29988438
Urban Diets Linked to Gut Microbiome and Metabolome Alterations in Children: A Comparative Cross-Sectional Study in Thailand. PMID:29988433
Analysis of temporal fecal microbiota dynamics in weaner pigs with and without exposure to enterotoxigenic Escherichia coli1,2. PMID:29982429
A Long-Standing Complex Tropical Dipole Shapes Marine Microbial Biogeography. PMID:29980556
Exposure to Arsenic Alters the Microbiome of Larval Zebrafish. PMID:29977230
Drosophila melanogaster establishes a species-specific mutualistic interaction with stable gut-colonizing bacteria. PMID:29975680
Maternal diet during pregnancy is related with the infant stool microbiome in a delivery mode-dependent manner. PMID:29973274
High Fructose Intake During Pregnancy in Rats Influences the Maternal Microbiome and Gut Development in the Offspring. PMID:29971089
Alpinia oxyphylla Miq. Extract Prevents Diabetes in Mice by Modulating Gut Microbiota. PMID:29967794
Complex ecological interactions of Staphylococcus aureus in tampons during menstruation. PMID:29967393
Asymptomatic Intestinal Colonization with Protist Blastocystis Is Strongly Associated with Distinct Microbiome Ecological Patterns. PMID:29963639
Gut Bacterial Communities of Dendroctonus valens and Monoterpenes and Carbohydrates of Pinus tabuliformis at Different Attack Densities to Host Pines. PMID:29963021
Responses of Intestinal Mucosal Barrier Functions of Rats to Simulated Weightlessness. PMID:29962963
Environmental Controls on Soil Microbial Communities in a Seasonally Dry Tropical Forest. PMID:29959251
Overlapping Community Compositions of Gut and Fecal Microbiomes in Lab-Reared and Field-Collected German Cockroaches. PMID:29959246
Factors influencing bacterial microbiome composition in a wild non-human primate community in Taï National Park, Côte d'Ivoire. PMID:29955140
Facultative methanotrophs are abundant at terrestrial natural gas seeps. PMID:29954460
Hydrocarbon degradation and response of seafloor sediment bacterial community in the northern Gulf of Mexico to light Louisiana sweet crude oil. PMID:29950702
HmmUFOtu: An HMM and phylogenetic placement based ultra-fast taxonomic assignment and OTU picking tool for microbiome amplicon sequencing studies. PMID:29950165
Zero-inflated generalized Dirichlet multinomial regression model for microbiome compositional data analysis. PMID:29939212
Guano exposed: Impact of aerobic conditions on bat fecal microbiota. PMID:29938074
Colorectal cancer mutational profiles correlate with defined microbial communities in the tumor microenvironment. PMID:29924794
Fecal Bacteriome and Mycobiome in Bats with Diverse Diets in South China. PMID:29922970
Metagenomic insights into the roles of Proteobacteria in the gastrointestinal microbiomes of healthy dogs and cats. PMID:29911322
Taxonomy annotation and guide tree errors in 16S rRNA databases. PMID:29910992
Shared and Distinct Features of Human Milk and Infant Stool Viromes. PMID:29910789
The comparative genomics of Bifidobacterium callitrichos reflects dietary carbohydrate utilization within the common marmoset gut. PMID:29906260
Profiling the Urinary Microbiota in Male Patients With Bladder Cancer in China. PMID:29904624
Alpha-Ketoglutarate in Low-Protein Diets for Growing Pigs: Effects on Cecal Microbial Communities and Parameters of Microbial Metabolism. PMID:29904374
Impact of Gut Microbiota and Diet on the Development of Atherosclerosis in Apoe-/- Mice. PMID:29903735
Metagenomic data on Anadara granosa associated bacterial communities using culture dependent approaches and 16S rRNA sequencing. PMID:29900350
Dysbiosis and Ecotypes of the Salivary Microbiome Associated With Inflammatory Bowel Diseases and the Assistance in Diagnosis of Diseases Using Oral Bacterial Profiles. PMID:29899737
Culture-independent Profiling of the Fecal Microbiome to Identify Microbial Species Associated with a Diarrheal Outbreak in Immunocompromised Mice. PMID:29898804
Harnessing microfluidic streak plate technique to investigate the gut microbiome of Reticulitermes chinensis. PMID:29897677
Succession of embryonic and the intestinal bacterial communities of Atlantic salmon (Salmo salar) reveals stage-specific microbial signatures. PMID:29897674
Improving PHA production in a SBR of coupling PHA-storing microorganism enrichment and PHA accumulation by feed-on-demand control. PMID:29896682
Evaluating the Capacity of Human Gut Microorganisms to Colonize the Zebrafish Larvae (Danio rerio). PMID:29896165
Gut bacterial and fungal communities of the domesticated silkworm (Bombyx mori) and wild mulberry-feeding relatives. PMID:29895989
Apparent total-tract macronutrient digestibility, serum chemistry, urinalysis, and fecal characteristics, metabolites and microbiota of adult dogs fed extruded, mildly cooked, and raw diets1. PMID:29893876
Ecology of sleeping: the microbial and arthropod associates of chimpanzee beds. PMID:29892462
Acclimation and Institutionalization of the Mouse Microbiota Following Transportation. PMID:29892276
CowPI: A Rumen Microbiome Focussed Version of the PICRUSt Functional Inference Software. PMID:29887853
Bacterial biogeography of adult airways in atopic asthma. PMID:29885665
Bacterial communities in natural versus pesticide-treated Aphis gossypii populations in North China. PMID:29877631
Bacterial communities associated with honeybee food stores are correlated with land use. PMID:29876054
Identifying and Overcoming Threats to Reproducibility, Replicability, Robustness, and Generalizability in Microbiome Research. PMID:29871915
Association of Exposure to Formula in the Hospital and Subsequent Infant Feeding Practices With Gut Microbiota and Risk of Overweight in the First Year of Life. PMID:29868719
Applying fecal microbiota transplantation (FMT) to treat recurrent Clostridium difficile infections (rCDI) in children. PMID:29868248
Invariant Natural Killer T Cells Shape the Gut Microbiota and Regulate Neutrophil Recruitment and Function During Intestinal Inflammation. PMID:29867976
Metagenomic Approaches to Investigate the Contribution of the Vineyard Environment to the Quality of Wine Fermentation: Potentials and Difficulties. PMID:29867889
Enrichment of Bacteria From Eastern Mediterranean Sea Involved in Lignin Degradation via the Phenylacetyl-CoA Pathway. PMID:29867833
Influence of gut microbiome on mucosal immune activation and SHIV viral transmission in naive macaques. PMID:29858581
Effect of different types of olive oil pomace dietary supplementation on the rumen microbial community profile in Comisana ewes. PMID:29855510
Effects of Achyrocline satureioides Inflorescence Extracts against Pathogenic Intestinal Bacteria: Chemical Characterization, In Vitro Tests, and In Vivo Evaluation. PMID:29853943
Characterization of Microbial Communities in Pilot-Scale Constructed Wetlands with Salicornia for Treatment of Marine Aquaculture Effluents. PMID:29853796
Characterization of the fecal and mucosa-associated microbiota in dogs with colorectal epithelial tumors. PMID:29852000
Rapid Microbial Community Changes During Initial Stages of Pine Litter Decomposition. PMID:29850933
Oral Microbiome in HIV-Infected Women: Shifts in the Abundance of Pathogenic and Beneficial Bacteria Are Associated with Aging, HIV Load, CD4 Count, and Antiretroviral Therapy. PMID:29808701
Bifidobacterium pseudolongum in the Ceca of Rats Fed Hi-Maize Starch Has Characteristics of a Keystone Species in Bifidobacterial Blooms. PMID:29802187
Supplementation of fructooligosaccharides to suckling piglets affects intestinal microbiota colonization and immune development. PMID:29800418
Digestive microbiota is different in pigs receiving antimicrobials or a feed additive during the nursery period. PMID:29799833
Differential metabolic effects of oral butyrate treatment in lean versus metabolic syndrome subjects. PMID:29799027
Interaction between Host MicroRNAs and the Gut Microbiota in Colorectal Cancer. PMID:29795787
Fecal microbiota composition changes after a BW loss diet in Beagle dogs. PMID:29790949
Colonic Inhibition of Phosphatase and Tensin Homolog Increases Colitogenic Bacteria, Causing Development of Colitis in Il10-/- Mice. PMID:29788382
Bacterial community changes in an industrial algae production system. PMID:29785358
Microbial Community Analyses of the Deteriorated Storeroom Objects in the Tianjin Museum Using Culture-Independent and Culture-Dependent Approaches. PMID:29780363
Enrichment of Clinically Relevant Organisms in Spontaneous Preterm-Delivered Placentas and Reagent Contamination across All Clinical Groups in a Large Pregnancy Cohort in the United Kingdom. PMID:29776928
Fecal Aliquot Straw Technique (FAST) allows for easy and reproducible subsampling: assessing interpersonal variation in trimethylamine-N-oxide (TMAO) accumulation. PMID:29776435
The Invasive Brazilian Pepper Tree (Schinus terebinthifolius) Is Colonized by a Root Microbiome Enriched With Alphaproteobacteria and Unclassified Spartobacteria. PMID:29774018
Early Salmonella Typhimurium infection in pigs disrupts Microbiome composition and functionality principally at the ileum mucosa. PMID:29773876
Effects of molecular hydrogen-dissolved alkaline electrolyzed water on intestinal environment in mice. PMID:29770190
Food Starch Structure Impacts Gut Microbiome Composition. PMID:29769378
PBDEs Altered Gut Microbiome and Bile Acid Homeostasis in Male C57BL/6 Mice. PMID:29769268
Stable isotope probing of hypoxic toluene degradation at the Siklós aquifer reveals prominent role of Rhodocyclaceae. PMID:29767715
Rearing Water Treatment Induces Microbial Selection Influencing the Microbiota and Pathogen Associated Transcripts of Cod (Gadus morhua) Larvae. PMID:29765364
Comparing Microbiome Sampling Methods in a Wild Mammal: Fecal and Intestinal Samples Record Different Signals of Host Ecology, Evolution. PMID:29765359
Strong associations between plant genotypes and bacterial communities in a natural salt marsh. PMID:29760911
The influence of diet and environment on the gut microbial community of field crickets. PMID:29760910
Coral Bacterial-Core Abundance and Network Complexity as Proxies for Anthropogenic Pollution. PMID:29755445
16S rRNA Gene Sequencing for Deciphering the Colorectal Cancer Gut Microbiome: Current Protocols and Workflows. PMID:29755427
Effects of moderate, voluntary ethanol consumption on the rat and human gut microbiome. PMID:29750384
Low-abundant bacteria drive compositional changes in the gut microbiota after dietary alteration. PMID:29747692
KF-finder: identification of key factors from host-microbial networks in cervical cancer. PMID:29745858
TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees. PMID:29745847
Microbial diversity and ecotoxicity of sediments 3 years after the Jiaozhou Bay oil spill. PMID:29744605
Different rearing conditions alter gut microbiota composition and host physiology in Shaoxing ducks. PMID:29743727
Diversity and antimicrobial potential in sea anemone and holothurian microbiomes. PMID:29742123
Predicted Bacterial Interactions Affect in Vivo Microbial Colonization Dynamics in Nematostella. PMID:29740401
Microbial community analysis and biodeterioration of waterlogged archaeological wood from the Nanhai No. 1 shipwreck during storage. PMID:29740020
Microbiome Responses to an Uncontrolled Short-Term Diet Intervention in the Frame of the Citizen Science Project. PMID:29738477
Age-related changes in the gut microbiota influence systemic inflammation and stroke outcome. PMID:29733457
Near full-length 16S rRNA gene next-generation sequencing revealed Asaia as a common midgut bacterium of wild and domesticated Queensland fruit fly larvae. PMID:29729663
DNA-SIP Reveals the Diversity of Chemolithoautotrophic Bacteria Inhabiting Three Different Soil Types in Typical Karst Rocky Desertification Ecosystems in Southwest China. PMID:29728707
Climate-driven shifts in sediment chemistry enhance methane production in northern lakes. PMID:29728566
Fecal Microbiota Transplantation in Experimental Ulcerative Colitis Reveals Associated Gut Microbial and Host Metabolic Reprogramming. PMID:29728388
Effects of Ceftiofur and Chlortetracycline on the Resistomes of Feedlot Cattle. PMID:29728379
Gut microbiota utilize immunoglobulin A for mucosal colonization. PMID:29724905
How Does Salinity Shape Bacterial and Fungal Microbiomes of Alnus glutinosa Roots? PMID:29720967
Urea hydrolysis by gut bacteria in a hibernating frog: evidence for urea-nitrogen recycling in Amphibia. PMID:29720413
Transplantation of human microbiota into conventional mice durably reshapes the gut microbiota. PMID:29717179
Omeprazole Minimally Alters the Fecal Microbial Community in Six Cats: A Pilot Study. PMID:29713638
The impact of vegan production on the kimchi microbiome. PMID:29706333
A seasonal study of a passive abandoned coalmine drainage remediation system reveals three distinct zones of contaminant levels and microbial communities. PMID:29696823
Single-cell metagenomics: challenges and applications. PMID:29696589
Chronic kidney disease, uremic milieu, and its effects on gut bacterial microbiota dysbiosis. PMID:29693447
Inferring Roles in Defense from Metabolic Allocation of Rice Diterpenoids. PMID:29691314
A town on fire! Integrating 16S rRNA gene amplicon analyses into an undergraduate microbiology lecture class. PMID:29688343
Gut Microbiota Profiling and Gut-Brain Crosstalk in Children Affected by Pediatric Acute-Onset Neuropsychiatric Syndrome and Pediatric Autoimmune Neuropsychiatric Disorders Associated With Streptococcal Infections. PMID:29686658
Entomopathogenic fungal infection leads to temporospatial modulation of the mosquito immune system. PMID:29684026
Accuracy of taxonomy prediction for 16S rRNA and fungal ITS sequences. PMID:29682424
A combination of Lactobacillus mali APS1 and dieting improved the efficacy of obesity treatment via manipulating gut microbiome in mice. PMID:29670255
Targeting the gut microbiome to treat the osteoarthritis of obesity. PMID:29669931
Stem Cell Transcription Factor FoxO Controls Microbiome Resilience in Hydra. PMID:29666616
Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes. PMID:29666365
Comparative Analysis of the Microbiota Between Sheep Rumen and Rabbit Cecum Provides New Insight Into Their Differential Methane Production. PMID:29662480
Tracing of the fecal microbiota of commercial pigs at five growth stages from birth to shipment. PMID:29662088
Antimicrobial peptide expression in a wild tobacco plant reveals the limits of host-microbe-manipulations in the field. PMID:29661271
Obese Mice Losing Weight Due to trans-10,cis-12 Conjugated Linoleic Acid Supplementation or Food Restriction Harbor Distinct Gut Microbiota. PMID:29659960
Using pseudoalignment and base quality to accurately quantify microbial community composition. PMID:29659582
Dietary supplementation with flaxseed meal and oat hulls modulates intestinal histomorphometric characteristics, digesta- and mucosa-associated microbiota in pigs. PMID:29651010
Impact of a vegan diet on the human salivary microbiota. PMID:29643500
Alfalfa Intervention Alters Rumen Microbial Community Development in Hu Lambs During Early Life. PMID:29636743
Rumen Biohydrogenation and Microbial Community Changes Upon Early Life Supplementation of 22:6n-3 Enriched Microalgae to Goats. PMID:29636742
A large-scale survey of the postmortem human microbiome, and its potential to provide insight into the living health condition. PMID:29636512
Meta-scale mountain grassland observatories uncover commonalities as well as specific interactions among plant and non-rhizosphere soil bacterial communities. PMID:29636506
Fast acquisition of a polysaccharide fermenting gut microbiome by juvenile green turtles Chelonia mydas after settlement in coastal habitats. PMID:29636094
Stool and urine trefoil factor 3 levels: associations with symptoms, intestinal permeability, and microbial diversity in irritable bowel syndrome. PMID:29633639
Fecal microbial dysbiosis in Chinese patients with inflammatory bowel disease. PMID:29632427
Response of Aquatic Bacterial Communities to Hydraulic Fracturing in Northwestern Pennsylvania: A Five-Year Study. PMID:29632304
A Retrospective Review of Microbiological Methods Applied in Studies Following the Deepwater Horizon Oil Spill. PMID:29628913
Modulations in the offspring gut microbiome are refractory to postnatal synbiotic supplementation among juvenile primates. PMID:29621980
Food withdrawal alters the gut microbiota and metabolome in mice. PMID:29620942
Strongyle Infection and Gut Microbiota: Profiling of Resistant and Susceptible Horses Over a Grazing Season. PMID:29618989
Responses in the rumen microbiome of Bos taurus and indicus steers fed a low-quality rice straw diet and supplemented protein. PMID:29617868
Effects of Lactogen 13, a New Probiotic Preparation, on Gut Microbiota and Endocrine Signals Controlling Growth and Appetite of Oreochromis niloticus Juveniles. PMID:29616281
Microbiota Composition May Predict Anti-Tnf Alpha Response in Spondyloarthritis Patients: an Exploratory Study. PMID:29615661
Gut-dependent microbial translocation induces inflammation and cardiovascular events after ST-elevation myocardial infarction. PMID:29615110
Exposure to Formaldehyde Perturbs the Mouse Gut Microbiome. PMID:29614050
Quantification of Human Microbiome Stability Over 6 Months: Implications for Epidemiologic Studies. PMID:29608646
Exercise prevents high fat diet-induced bone loss, marrow adiposity and dysbiosis in male mice. PMID:29604350
Antibiotic distribution, risk assessment, and microbial diversity in river water and sediment in Hong Kong. PMID:29600501
Skin Microbiomes of California Terrestrial Salamanders Are Influenced by Habitat More Than Host Phylogeny. PMID:29593686
Bacterial diversity and community structure in the rhizosphere of four Ferula species. PMID:29593299
Outlier detection in BLAST hits. PMID:29588650
Wisconsin microbiome study, a cross-sectional investigation of dietary fibre, microbiome composition and antibiotic-resistant organisms: rationale and methods. PMID:29588324
The impact of Rhodiola rosea on the gut microbial community of Drosophila melanogaster. PMID:29581730
Resilience of small intestinal beneficial bacteria to the toxicity of soybean oil fatty acids. PMID:29580380
Variation in the microbiome of the urogenital tract of Chlamydia-free female koalas (Phascolarctos cinereus) with and without 'wet bottom'. PMID:29579080
Dynamics of coral-associated microbiomes during a thermal bleaching event. PMID:29573244
At-hatch administration of probiotic to chickens can introduce beneficial changes in gut microbiota. PMID:29570728
High salt diet exacerbates colitis in mice by decreasing Lactobacillus levels and butyrate production. PMID:29566748
Behaviour during transportation predicts stress response and lower airway contamination in horses. PMID:29566072
Potential human pathogenic bacteria in five hot springs in Eritrea revealed by next generation sequencing. PMID:29566040
Gut Microbial Dysbiosis in Indian Children with Autism Spectrum Disorders. PMID:29564487
Systematic Bias Introduced by Genomic DNA Template Dilution in 16S rRNA Gene-Targeted Microbiota Profiling in Human Stool Homogenates. PMID:29564398
Nutrient-Dependent Impact of Microbes on Drosophila suzukii Development. PMID:29559576
Use of in-field bioreactors demonstrate groundwater filtration influences planktonic bacterial community assembly, but not biofilm composition. PMID:29558522
Studying microbial functionality within the gut ecosystem by systems biology. PMID:29556373
Characterization of intestinal microbiota in alcoholic patients with and without alcoholic hepatitis or chronic alcoholic pancreatitis. PMID:29555983
Nitrate decreases ruminal methane production with slight changes to ruminal methanogen composition of nitrate-adapted steers. PMID:29554875
A Method to Define the Effects of Environmental Enrichment on Colon Microbiome Biodiversity in a Mouse Colon Tumor Model. PMID:29553541
Comparison Between the Fecal Bacterial Microbiota of Healthy and Diarrheic Captive Musk Deer. PMID:29551996
16S rRNA Gene-Based Metagenomic Analysis of Ozark Cave Bacteria. PMID:29551950
Changes in Larval Mosquito Microbiota Reveal Non-target Effects of Insecticide Treatments in Hurricane-Created Habitats. PMID:29549385
BURRITO: An Interactive Multi-Omic Tool for Visualizing Taxa-Function Relationships in Microbiome Data. PMID:29545787
A global comparison of the microbiome compositions of three gut locations in commercial pigs with extreme feed conversion ratios. PMID:29540768
Gut microbiota in adolescents and the association with fatty liver: the EPOCH study. PMID:29538359
Barcoded Pyrosequencing Reveals a Shift in the Bacterial Community in the Rhizosphere and Rhizoplane of Rehmannia glutinosa under Consecutive Monoculture. PMID:29538311
World's Largest Mass Bathing Event Influences the Bacterial Communities of Godavari, a Holy River of India. PMID:29536131
FUT2 genotype and secretory status are not associated with fecal microbial composition and inferred function in healthy subjects. PMID:29533703
Automated high throughput animal CO1 metabarcode classification. PMID:29523803
Tissue Localization and Variation of Major Symbionts in Haemaphysalis longicornis, Rhipicephalus haemaphysaloides, and Dermacentor silvarum in China. PMID:29523550
Gut Microbiome Composition Predicts Infection Risk During Chemotherapy in Children With Acute Lymphoblastic Leukemia. PMID:29518185
Short term dynamics of the sputum microbiome among COPD patients. PMID:29518088
Concurrent gut transcriptome and microbiota profiling following chronic ethanol consumption in nonhuman primates. PMID:29517944
Inter-niche and inter-individual variation in gut microbial community assessment using stool, rectal swab, and mucosal samples. PMID:29515151
Physiological mechanisms of sustained fumagillin-induced weight loss. PMID:29515039
Bacillus subtilis spore with surface display of paramyosin from Clonorchis sinensis potentializes a promising oral vaccine candidate. PMID:29514667
The influence of caging, bedding, and diet on the composition of the microbiota in different regions of the mouse gut. PMID:29511208
Inulin-type fructan improves diabetic phenotype and gut microbiota profiles in rats. PMID:29507837
Imbalance of gut microbiome and intestinal epithelial barrier dysfunction in patients with high blood pressure. PMID:29507058
On Burkholderiales order microorganisms and cystic fibrosis in Russia. PMID:29504898
Taxa-function robustness in microbial communities. PMID:29499759
Long-Term Harvest Residue Retention Could Decrease Soil Bacterial Diversities Probably Due to Favouring Oligotrophic Lineages. PMID:29497766
Probiotic supplementation increases obesity with no detectable effects on liver fat or gut microbiota in obese Hispanic adolescents: a 16-week, randomized, placebo-controlled trial. PMID:29493105
16S rRNA gene sequencing reveals effects of photoperiod on cecal microbiota of broiler roosters. PMID:29492337
Impact of Glyphosate on the Rhizosphere Microbial Communities of An EPSPS-Transgenic Soybean Line ZUTS31 by Metagenome Sequencing. PMID:29491731
Interactions among plants, bacteria, and fungi reduce extracellular enzyme activities under long-term N fertilization. PMID:29488286
Bacterial Community Dynamics across the Gastrointestinal Tracts of Dairy Calves during Preweaning Development. PMID:29475865
Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice. PMID:29474469
COREMIC: a web-tool to search for a niche associated CORE MICrobiome. PMID:29473009
Microbial community composition along a 50 000-year lacustrine sediment sequence. PMID:29471361
Detection of Bacterial DNA During the Process of Sake Production Using Sokujo-Moto. PMID:29470634
Prenatal androgen exposure causes hypertension and gut microbiota dysbiosis. PMID:29469650
Interspecific Plant Interactions Reflected in Soil Bacterial Community Structure and Nitrogen Cycling in Primary Succession. PMID:29467741
Predatory flying squids are detritivores during their early planktonic life. PMID:29467371
Archaea diversity in vegetation gradients from the Brazilian Cerrado. PMID:29459210
A microbiome case-control study of recurrent acute otitis media identified potentially protective bacterial genera. PMID:29458340
Delayed gut microbiota development in high-risk for asthma infants is temporarily modifiable by Lactobacillus supplementation. PMID:29453431
The Gills of Reef Fish Support a Distinct Microbiome Influenced by Host-Specific Factors. PMID:29453266
Comparative genomic analysis of the multispecies probiotic-marketed product VSL#3. PMID:29451876
Biofilm formation and potential for iron cycling in serpentinization-influenced groundwater of the Zambales and Coast Range ophiolites. PMID:29450709
Strain Tracking Reveals the Determinants of Bacterial Engraftment in the Human Gut Following Fecal Microbiota Transplantation. PMID:29447696
The Dynamic Distribution of Small-Tail Han Sheep Microbiota across Different Intestinal Segments. PMID:29445360
Inter-domain microbial diversity within the coral holobiont Siderastrea siderea from two depth habitats. PMID:29441234
Bacteriome from Pinus arizonica and P. durangensis: Diversity, Comparison of Assemblages, and Overlapping Degree with the Gut Bacterial Community of a Bark Beetle That Kills Pines. PMID:29441055
Microbial rRNA Synthesis and Growth Compared through Quantitative Stable Isotope Probing with H218O. PMID:29439990
Response of soil microbial communities to red mud-based stabilizer remediation of cadmium-contaminated farmland. PMID:29435798
Specific plasmid patterns and high rates of bacterial co-occurrence within the coral holobiont. PMID:29435256
Bayesian Nonparametric Ordination for the Analysis of Microbial Communities. PMID:29430070
The Madness of Microbiome: Attempting To Find Consensus "Best Practice" for 16S Microbiome Studies. PMID:29427429
Nitrogen Cycle Evaluation (NiCE) Chip for Simultaneous Analysis of Multiple N Cycle-Associated Genes. PMID:29427421
Dysbiosis of Inferior Turbinate Microbiota Is Associated with High Total IgE Levels in Patients with Allergic Rhinitis. PMID:29426044
Abiotic Stresses Shift Belowground Populus-Associated Bacteria Toward a Core Stress Microbiome. PMID:29404422
Air-Dried Brown Seaweed, Ascophyllum nodosum, Alters the Rumen Microbiome in a Manner That Changes Rumen Fermentation Profiles and Lowers the Prevalence of Foodborne Pathogens. PMID:29404417
Distribution of bacterial communities along the spatial and environmental gradients from Bohai Sea to northern Yellow Sea. PMID:29404208
Metagenomic and Metatranscriptomic Analyses of Diverse Watermelon Cultivars Reveal the Role of Fruit Associated Microbiome in Carbohydrate Metabolism and Ripening of Mature Fruits. PMID:29403516
Longitudinal Effects of Supplemental Forage on the Honey Bee (Apis mellifera) Microbiota and Inter- and Intra-Colony Variability. PMID:29397399
Crawling-induced floor dust resuspension affects the microbiota of the infant breathing zone. PMID:29394954
Distribution of thermophilic endospores in a temperate estuary indicate that dispersal history structures sediment microbial communities. PMID:29393553
The effects of glyphosate, glufosinate, paraquat and paraquat-diquat on soil microbial activity and bacterial, archaeal and nematode diversity. PMID:29391493
Effects of spray-dried porcine plasma on fecal microbiota in nursery pigs. PMID:29385463
Age and fecal microbial strain-specific differences in patients with spondyloarthritis. PMID:29382366
Human Microbiome Acquisition and Bioinformatic Challenges in Metagenomic Studies. PMID:29382070
16S rRNA gene metabarcoding and TEM reveals different ecological strategies within the genus Neogloboquadrina (planktonic foraminifer). PMID:29377905
Mosquito vector-associated microbiota: Metabarcoding bacteria and eukaryotic symbionts across habitat types in Thailand endemic for dengue and other arthropod-borne diseases. PMID:29375803
Plant community and soil conditions individually affect soil microbial community assembly in experimental mesocosms. PMID:29375790
Composition and Functional Specialists of the Gut Microbiota of Frogs Reflect Habitat Differences and Agricultural Activity. PMID:29375532
Identification, Comparison, and Validation of Robust Rumen Microbial Biomarkers for Methane Emissions Using Diverse Bos Taurus Breeds and Basal Diets. PMID:29375511
Apple endophytic microbiota of different rootstock/scion combinations suggests a genotype-specific influence. PMID:29374490
Combining 16S rRNA gene variable regions enables high-resolution microbial community profiling. PMID:29373999
Lipopolysaccharide-induced maternal inflammation induces direct placental injury without alteration in placental blood flow and induces a secondary fetal intestinal injury that persists into adulthood. PMID:29369434
Multiple colonist pools shape fiddler crab-associated bacterial communities. PMID:29362507
Prevalence and Source of Fecal and Oral Bacteria on Infant, Child, and Adult Hands. PMID:29359197
Antibiotic Treatments for Clostridium difficile Infection Are Associated with Distinct Bacterial and Fungal Community Structures. PMID:29359185
Microbial community assembly in wild populations of the fruit fly Drosophila melanogaster. PMID:29358735
Gastrointestinal Tract Pathology in a BALB/c Niemann-Pick Disease Type C1 Null Mouse Model. PMID:29357083
Metataxonomic approach to decipher the polymicrobial burden in diabetic foot ulcer and its biofilm mode of infection. PMID:29356343
A Community-Based Culture Collection for Targeting Novel Plant Growth-Promoting Bacteria from the Sugarcane Microbiome. PMID:29354144
Temporal and Spatial Impact of Human Cadaver Decomposition on Soil Bacterial and Arthropod Community Structure and Function. PMID:29354106
Interactions between species introduce spurious associations in microbiome studies. PMID:29338008
Inter- and intracellular colonization of Arabidopsis roots by endophytic actinobacteria and the impact of plant hormones on their antimicrobial activity. PMID:29335919
Fungi stabilize connectivity in the lung and skin microbial ecosystems. PMID:29335027
Multi-omics differentially classify disease state and treatment outcome in pediatric Crohn's disease. PMID:29335008
Is there a link between aging and microbiome diversity in exceptional mammalian longevity? PMID:29333342
Characterizing the bacterial microbiota in different gastrointestinal tract segments of the Bactrian camel. PMID:29330494
An insight into intestinal mucosal microbiota disruption after stroke. PMID:29330443
Naproxen Is Transformed Via Acetogenesis and Syntrophic Acetate Oxidation by a Methanogenic Wastewater Consortium. PMID:29327072
Host Specificity for Bacterial, Archaeal and Fungal Communities Determined for High- and Low-Microbial Abundance Sponge Species in Two Genera. PMID:29326681
Diversity of Microbial Communities and Quantitative Chemodiversity in Layers of Marine Sediment Cores from a Causeway (Kaichu-Doro) in Okinawa Island, Japan. PMID:29321767
Microbiological and Geochemical Survey of CO2-Dominated Mofette and Mineral Waters of the Cheb Basin, Czech Republic. PMID:29321765
Influenza A virus infection impacts systemic microbiota dynamics and causes quantitative enteric dysbiosis. PMID:29321057
Metaproteomics of Colonic Microbiota Unveils Discrete Protein Functions among Colitic Mice and Control Groups. PMID:29319931
Effect of dark sweet cherry powder consumption on the gut microbiota, short-chain fatty acids, and biomarkers of gut health in obese db/db mice. PMID:29312822
Profiling soil microbial communities with next-generation sequencing: the influence of DNA kit selection and technician technical expertise. PMID:29302394
Biodiversity of the microbial mat of the Garga hot spring. PMID:29297382
Intraruminal infusion of oligofructose alters ruminal microbiota and induces acute laminitis in sheep. PMID:29293794
Bifidobacteria or Fiber Protects against Diet-Induced Microbiota-Mediated Colonic Mucus Deterioration. PMID:29276171
Enhancing the Resolution of Rumen Microbial Classification from Metatranscriptomic Data Using Kraken and Mothur. PMID:29270165
An Attenuated Salmonella enterica Serovar Typhimurium Strain and Galacto-Oligosaccharides Accelerate Clearance of Salmonella Infections in Poultry through Modifications to the Gut Microbiome. PMID:29269490
Impact of genistein on the gut microbiome of humanized mice and its role in breast tumor inhibition. PMID:29267377
Citrobacter rodentium Relies on Commensals for Colonization of the Colonic Mucosa. PMID:29262319
Randomized clinical trial to evaluate the effect of fecal microbiota transplant for initial Clostridium difficile infection in intestinal microbiome. PMID:29261736
Temporal Dynamics of the Microbial Community Composition with a Focus on Toxic Cyanobacteria and Toxin Presence during Harmful Algal Blooms in Two South German Lakes. PMID:29255452
Selenium nanoparticles in poultry feed modify gut microbiota and increase abundance of Faecalibacterium prausnitzii. PMID:29250719
Insights into origin and evolution of α-proteobacterial gene transfer agents. PMID:29250433
Harnessing the microbiomes of Brassica vegetables for health issues. PMID:29247170
Characterization of multiple antibiotic resistance of culturable microorganisms and metagenomic analysis of total microbial diversity of marine fish sold in retail shops in Mumbai, India. PMID:29243150
Diversity of vaginal microbiota increases by the time of labor onset. PMID:29242550
Associations between infant fungal and bacterial dysbiosis and childhood atopic wheeze in a nonindustrialized setting. PMID:29241587
Tree Leaf Bacterial Community Structure and Diversity Differ along a Gradient of Urban Intensity. PMID:29238751
Environmental Factors Shape Water Microbial Community Structure and Function in Shrimp Cultural Enclosure Ecosystems. PMID:29238333
Small molecules related to adrenomedullin reduce tumor burden in a mouse model of colitis-associated colon cancer. PMID:29235493
The microbiome in PTEN hamartoma tumor syndrome. PMID:29233840
Microbial communities exhibit host species distinguishability and phylosymbiosis along the length of the gastrointestinal tract. PMID:29230893
The rumen microbiome as a reservoir of antimicrobial resistance and pathogenicity genes is directly affected by diet in beef cattle. PMID:29228991
Impact of prematurity and nutrition on the developing gut microbiome and preterm infant growth. PMID:29228972
Metabolic Differences between Dogs of Different Body Sizes. PMID:29225968
Performance of Anaerobic Biotrickling Filter and its Microbial Diversity for the Removal of Stripped Disinfection Byproducts. PMID:29225380
A New Niche for Anoxygenic Phototrophs as Endoliths. PMID:29222097
Exposure to traffic-related air pollution and the composition of the gut microbiota in overweight and obese adolescents. PMID:29220800
Antibiotic-Induced Alterations in Gut Microbiota Are Associated with Changes in Glucose Metabolism in Healthy Mice. PMID:29213261
Bacterial Community Dynamics in Dichloromethane-Contaminated Groundwater Undergoing Natural Attenuation. PMID:29213257
Atmospheric trace gases support primary production in Antarctic desert surface soil. PMID:29211716
iNOS- and NOX1-dependent ROS production maintains bacterial homeostasis in the ileum of mice. PMID:29210363
The Gut Entomotype of Red Palm Weevil Rhynchophorus ferrugineus Olivier (Coleoptera: Dryophthoridae) and Their Effect on Host Nutrition Metabolism. PMID:29209298
Nitrifier Gene Abundance and Diversity in Sediments Impacted by Acid Mine Drainage. PMID:29209281
Ecosystem Resilience and Limitations Revealed by Soil Bacterial Community Dynamics in a Bark Beetle-Impacted Forest. PMID:29208740
Delivery Mode and the Transition of Pioneering Gut-Microbiota Structure, Composition and Predicted Metabolic Function. PMID:29207565
Resting Stage of Plankton Diversity from Singapore Coastal Water: Implications for Harmful Algae Blooms and Coastal Management. PMID:29204675
Faecalibacterium Gut Colonization Is Accelerated by Presence of Older Siblings. PMID:29202044
Environmental Microbiota Drives Microbial Succession and Metabolic Profiles during Chinese Liquor Fermentation. PMID:29196296
Gut Microbiota in Human Systemic Lupus Erythematosus and a Mouse Model of Lupus. PMID:29196292
Multi-level comparisons of cloacal, skin, feather and nest-associated microbiota suggest considerable influence of horizontal acquisition on the microbiota assembly of sympatric woodlarks and skylarks. PMID:29191217
A comprehensive analysis of breast cancer microbiota and host gene expression. PMID:29190829
Organic Amendments in a Long-term Field Trial-Consequences for the Bulk Soil Bacterial Community as Revealed by Network Analysis. PMID:29188301
Postoperative Tropheryma whipplei endophthalmitis - a case report highlighting the additive value of molecular testing. PMID:29188071
Eggshells as hosts of bacterial communities: An experimental test of the antimicrobial egg coloration hypothesis. PMID:29188002
Doxycycline induces dysbiosis in female C57BL/6NCrl mice. PMID:29187243
Direct PCR Offers a Fast and Reliable Alternative to Conventional DNA Isolation Methods for Gut Microbiomes. PMID:29181448
Gut Microbial Dysbiosis Is Associated with Altered Hepatic Functions and Serum Metabolites in Chronic Hepatitis B Patients. PMID:29180991
Catalogue of antibiotic resistome and host-tracking in drinking water deciphered by a large scale survey. PMID:29179769
Dietary energy drives the dynamic response of bovine rumen viral communities. PMID:29179741
Insect-based diet, a promising nutritional source, modulates gut microbiota composition and SCFAs production in laying hens. PMID:29176587
Featured article: Structure moderation of gut microbiota in liraglutide-treated diabetic male rats. PMID:29171288
Comparison of the gut microbiota composition between wild and captive sika deer (Cervus nippon hortulorum) from feces by high-throughput sequencing. PMID:29170893
Gut microbes limit growth in house sparrow nestlings (Passer domesticus) but not through limitations in digestive capacity. PMID:29168619
Links between Soil Fungal Diversity and Plant and Soil Properties on the Loess Plateau. PMID:29163460
Camelina Seed Supplementation at Two Dietary Fat Levels Change Ruminal Bacterial Community Composition in a Dual-Flow Continuous Culture System. PMID:29163431
Wild bonobos host geographically restricted malaria parasites including a putative new Laverania species. PMID:29158512
Measuring the microbiome of chronic wounds with use of a topical antimicrobial dressing - A feasibility study. PMID:29155834
Consumption of kiwifruit capsules increases Faecalibacterium prausnitzii abundance in functionally constipated individuals: a randomised controlled human trial. PMID:29152256
Breast tissue, oral and urinary microbiomes in breast cancer. PMID:29152146
Dynamics of Heterotrophic Bacterial Assemblages within Synechococcus Cultures. PMID:29150500
Kappaphycus alvarezii as a Food Supplement Prevents Diet-Induced Metabolic Syndrome in Rats. PMID:29149029
Changes of gut microbiota structure and morphology in weaned piglets treated with fresh fermented soybean meal. PMID:29147865
Previous crop and rotation history effects on maize seedling health and associated rhizosphere microbiome. PMID:29146930
Structural and functional differences in gut microbiome composition in patients undergoing haemodialysis or peritoneal dialysis. PMID:29142271
Intestinal microbiota profiles associated with low and high residual feed intake in chickens across two geographical locations. PMID:29141016
A dietary flavone confers communicable protection against colitis through NLRP6 signaling independently of inflammasome activation. PMID:29139477
Phylogenic inference using alignment-free methods for applications in microbial community surveys using 16s rRNA gene. PMID:29136663
Composition, diversity and function of intestinal microbiota in pacific white shrimp (Litopenaeus vannamei) at different culture stages. PMID:29134144
Stromatolites on the rise in peat-bound karstic wetlands. PMID:29133809
Treatment impacts on temporal microbial community dynamics during phytostabilization of acid-generating mine tailings in semiarid regions. PMID:29132003
Effects of gravel-sand mulching on soil bacterial community and metabolic capability in the semi-arid Loess Plateau, China. PMID:29124424
Assessment of bacterial diversity in Hyalomma aegyptium, H. marginatum and H. excavatum ticks through tag-encoded pyrosequencing. PMID:29124413
A High Grain Diet Dynamically Shifted the Composition of Mucosa-Associated Microbiota and Induced Mucosal Injuries in the Colon of Sheep. PMID:29123511
Cyanobacteria and Alphaproteobacteria May Facilitate Cooperative Interactions in Niche Communities. PMID:29118751
Microbial Community and Biochemical Dynamics of Biological Soil Crusts across a Gradient of Surface Coverage in the Central Mojave Desert. PMID:29109701
New microbial resource: microbial diversity, function and dynamics in Chinese liquor starter. PMID:29109406
Analysis of bacterial communities and characterization of antimicrobial strains from cave microbiota. PMID:29108974
A polyphenol-rich cranberry extract reverses insulin resistance and hepatic steatosis independently of body weight loss. PMID:29107524
Host-microbiota interaction induces bi-phasic inflammation and glucose intolerance in mice. PMID:29107285
MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments. PMID:29106667
The Low-Diversity Fecal Microbiota of the Critically Endangered Kākāpō Is Robust to Anthropogenic Dietary and Geographic Influences. PMID:29104565
Gastric microbial community profiling reveals a dysbiotic cancer-associated microbiota. PMID:29102920
Fecal Microbiota Transplant from Highly Feed-Efficient Donors Shows Little Effect on Age-Related Changes in Feed-Efficiency-Associated Fecal Microbiota from Chickens. PMID:29101192
Improvement in cardiometabolic risk markers following a multifunctional diet is associated with gut microbial taxa in healthy overweight and obese subjects. PMID:29098426
Brown Rot Syndrome and Changes in the Bacterial Сommunity of the Baikal Sponge Lubomirskia baicalensis. PMID:29098357
Evaluating the contribution of gut microbiome to the variance of porcine serum glucose and lipid concentration. PMID:29097803
Gut microbiome modulates response to anti-PD-1 immunotherapy in melanoma patients. PMID:29097493
Association of high-risk sexual behaviour with diversity of the vaginal microbiota and abundance of Lactobacillus. PMID:29095928
Strong responses of Drosophila melanogaster microbiota to developmental temperature. PMID:29095113
Rapid regrowth and detection of microbial contaminants in equine fecal microbiome samples. PMID:29091944
A compendium of multi-omic sequence information from the Saanich Inlet water column. PMID:29087368
The Pelagic Bacterium Paraphotobacterium marinum Has the Smallest Complete Genome Within the Family Vibrionaceae. PMID:29085348
Cereal products derived from wheat, sorghum, rice and oats alter the infant gut microbiota in vitro. PMID:29085002
Diet, Environments, and Gut Microbiota. A Preliminary Investigation in Children Living in Rural and Urban Burkina Faso and Italy. PMID:29081768
Community structure of gut bacteria of Dendroctonus armandi (Coleoptera: Curculionidae: Scolytinae) larvae during overwintering stage. PMID:29079773
Analysis of airborne microbial communities using 16S ribosomal RNA: Potential bias due to air sampling stress. PMID:29079080
EBI Metagenomics in 2017: enriching the analysis of microbial communities, from sequence reads to assemblies. PMID:29069476
Microbial community differentiation between active and inactive sulfide chimneys of the Kolumbo submarine volcano, Hellenic Volcanic Arc. PMID:29067531
Inheritance and Establishment of Gut Microbiota in Chickens. PMID:29067020
Seawater transfer alters the intestinal microbiota profiles of Atlantic salmon (Salmo salar L.). PMID:29066818
Genomic variation in microbial populations inhabiting the marine subseafloor at deep-sea hydrothermal vents. PMID:29066755
Adaptation to Chronic Nutritional Stress Leads to Reduced Dependence on Microbiota in Drosophila melanogaster. PMID:29066546
Endosphere microbiome comparison between symptomatic and asymptomatic roots of Brassica napus infected with Plasmodiophora brassicae. PMID:29065162
Response of marine bacteria to oil contamination and to high pressure and low temperature deep sea conditions. PMID:29057585
Empirical, Metagenomic, and Computational Techniques Illuminate the Mechanisms by which Fungicides Compromise Bee Health. PMID:29053686
The taxonomic composition of the donor intestinal microbiota is a major factor influencing the efficacy of faecal microbiota transplantation in therapy refractory ulcerative colitis. PMID:29052237
Dynamic microbial populations along the Cuyahoga River. PMID:29049324
Group Living and Male Dispersal Predict the Core Gut Microbiome in Wild Baboons. PMID:29048537
Prokaryotic Community Distribution along an Ecological Gradient of Salinity in Surface and Subsurface Saline Soils. PMID:29042583
Vildagliptin increases butyrate-producing bacteria in the gut of diabetic rats. PMID:29036231
Arbuscular mycorrhizal fungi promote coexistence and niche divergence of sympatric palm species on a remote oceanic island. PMID:29034978
Perinatal Bisphenol A Exposure Induces Chronic Inflammation in Rabbit Offspring via Modulation of Gut Bacteria and Their Metabolites. PMID:29034330
High-Fat Diet Changes Fungal Microbiomes and Interkingdom Relationships in the Murine Gut. PMID:29034327
Nutritional composition of honey bee food stores vary with floral composition. PMID:29032464
Do host-associated gut microbiota mediate the effect of an herbicide on disease risk in frogs? PMID:29030867
Indoor microbiota in severely moisture damaged homes and the impact of interventions. PMID:29029638
Individual signatures and environmental factors shape skin microbiota in healthy dogs. PMID:29029635
The Female Genital Tract Microbiome Is Associated With Vaginal Antiretroviral Drug Concentrations in Human Immunodeficiency Virus-Infected Women on Antiretroviral Therapy. PMID:29029138
A review of methods and databases for metagenomic classification and assembly. PMID:29028872
Dietary copper-fructose interactions alter gut microbial activity in male rats. PMID:29025734
The sponge microbiome project. PMID:29020741
Accuracy of microbial community diversity estimated by closed- and open-reference OTUs. PMID:29018622
Amplicon sequencing of bacterial microbiota in abortion material from cattle. PMID:29017611
Legacy Effects on the Recovery of Soil Bacterial Communities from Extreme Temperature Perturbation. PMID:28993764
Stenotrophomonas-Like Bacteria Are Widespread Symbionts in Cone Snail Venom Ducts. PMID:28986377
Effect of the environment on horizontal gene transfer between bacteria and archaea. PMID:28975058
Interhost dispersal alters microbiome assembly and can overwhelm host innate immunity in an experimental zebrafish model. PMID:28973938
Ketogenic diet poses a significant effect on imbalanced gut microbiota in infants with refractory epilepsy. PMID:28970732
MetaComp: comprehensive analysis software for comparative meta-omics including comparative metagenomics. PMID:28969605
Decaffeinated green and black tea polyphenols decrease weight gain and alter microbiome populations and function in diet-induced obese mice. PMID:28965248
Assessing effects of the entomopathogenic fungus Metarhizium brunneum on soil microbial communities in Agriotes spp. biological pest control. PMID:28961941
Recurrent Reverse Evolution Maintains Polymorphism after Strong Bottlenecks in Commensal Gut Bacteria. PMID:28961745
Prophylactic Supplementation of Bifidobacterium longum 51A Protects Mice from Ovariectomy-Induced Exacerbated Allergic Airway Inflammation and Airway Hyperresponsiveness. PMID:28959241
Cecal microbiota association with tumor load in a colorectal cancer mouse model. PMID:28959179
Modeling a Superorganism - Considerations Regarding the Use of "Dirty" Mice in Biomedical Research . PMID:28955177
Digestion of Human Milk Oligosaccharides by Bifidobacterium breve in the Premature Infant. PMID:28945208
Intestinal microbiota is altered in patients with colon cancer and modified by probiotic intervention. PMID:28944067
Lack of NLRP3-inflammasome leads to gut-liver axis derangement, gut dysbiosis and a worsened phenotype in a mouse model of NAFLD. PMID:28939830
A Distinctive and Host-Restricted Gut Microbiota in Populations of a Cactophilic Drosophila Species. PMID:28939605
Evaluation of prokaryotic diversity of five hot springs in Eritrea. PMID:28938870
Modulation of Gut Microbiome Composition and Function in Experimental Colitis Treated with Sulfasalazine. PMID:28936203
Exploring the salivary microbiome of children stratified by the oral hygiene index. PMID:28934367
Denitrification potential of the eastern oyster microbiome using a 16S rRNA gene based metabolic inference approach. PMID:28934286
Characterization of the nasal and oral microbiota of detection dogs. PMID:28934260
Microbial Community Structure and Functions in Ethanol-Fed Sulfate Removal Bioreactors for Treatment of Mine Water. PMID:28930182
Composted Cattle Manure Increases Microbial Activity and Soil Fertility More Than Composted Swine Manure in a Submerged Rice Paddy. PMID:28928727
Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing. PMID:28928718
The microbiota of water buffalo milk during mastitis. PMID:28926595
Cyanobacterial exopolymer properties differentiate microbial carbonate fabrics. PMID:28924251
Antagonism correlates with metabolic similarity in diverse bacteria. PMID:28923945
OCULAR FINDINGS AND SELECT OPHTHALMIC DIAGNOSTIC TESTS IN CAPTIVE AMERICAN WHITE PELICANS (PELECANUS ERYTHRORHYNCHOS). PMID:28920779
Season, but not symbiont state, drives microbiome structure in the temperate coral Astrangia poculata. PMID:28915923
Shifts in Host Mucosal Innate Immune Function Are Associated with Ruminal Microbial Succession in Supplemental Feeding and Grazing Goats at Different Ages. PMID:28912767
Spatial patterns of hypolithic cyanobacterial diversity in Northern Australia. PMID:28904780
Analysis of Mucosa-Associated Microbiota in Colorectal Cancer. PMID:28904330
Sources of Variation in the Gut Microbial Community of Lycaeides melissa Caterpillars. PMID:28900218
Low Lactobacilli abundance and polymicrobial diversity in the lower reproductive tract of female rhesus monkeys do not compromise their reproductive success. PMID:28898440
Impact of the Mk VI SkinSuit on skin microbiota of terrestrial volunteers and an International Space Station-bound astronaut. PMID:28894789
Novel arsenic-transforming bacteria and the diversity of their arsenic-related genes and enzymes arising from arsenic-polluted freshwater sediment. PMID:28894204
Omega-3 fatty acids correlate with gut microbiome diversity and production of N-carbamylglutamate in middle aged and elderly women. PMID:28894110
Natural products and morphogenic activity of γ-Proteobacteria associated with the marine hydroid polyp Hydractinia echinata. PMID:28893599
Caloric restriction promotes rapid expansion and long-lasting increase of Lactobacillus in the rat fecal microbiota. PMID:28891744
Identifying the Active Microbiome Associated with Roots and Rhizosphere Soil of Oilseed Rape. PMID:28887416
Culture Media and Individual Hosts Affect the Recovery of Culturable Bacterial Diversity from Amphibian Skin. PMID:28883811
Changes in soil microbial communities after 10 years of winter wheat cultivation versus fallow in an organic-poor soil in the Loess Plateau of China. PMID:28880897
Marine Microbial Gene Abundance and Community Composition in Response to Ocean Acidification and Elevated Temperature in Two Contrasting Coastal Marine Sediments. PMID:28878754
Community responses to seawater warming are conserved across diverse biological groupings and taxonomic resolutions. PMID:28878056
The intestinal microbiota determines the colitis-inducing potential of T-bet-deficient Th cells in mice. PMID:28875499
Skin bacterial microbiome of a generalist Puerto Rican frog varies along elevation and land use gradients. PMID:28875068
Lineage overwhelms environmental conditions in determining rhizosphere bacterial community structure in a cosmopolitan invasive plant. PMID:28874666
Reactivation of Intestinal Inflammation Is Suppressed by Catestatin in a Murine Model of Colitis via M1 Macrophages and Not the Gut Microbiota. PMID:28871257
Enrichment of beneficial bacteria in the skin microbiota of bats persisting with white-nose syndrome. PMID:28870257
Pre-pregnancy weight, gestational weight gain, and the gut microbiota of mothers and their infants. PMID:28870230
Impacts of Repeated Glyphosate Use on Wheat-Associated Bacteria Are Small and Depend on Glyphosate Use History. PMID:28864656
Gut microbiota and physiologic bowel 18F-FDG uptake. PMID:28861740
Environmental Pollutant Benzo[a]Pyrene Impacts the Volatile Metabolome and Transcriptome of the Human Gut Microbiota. PMID:28861070
Effect of Pre-weaning Diet on the Ruminal Archaeal, Bacterial, and Fungal Communities of Dairy Calves. PMID:28861065
The structure of the Brassica napus seed microbiome is cultivar-dependent and affects the interactions of symbionts and pathogens. PMID:28859671
Analysis of endoscopic brush samples identified mucosa-associated dysbiosis in inflammatory bowel disease. PMID:28852861
Microbial communities in marine sediments modify success of an invasive macrophyte. PMID:28852143
Microbial communities in peatlands along a chronosequence on the Sanjiang Plain, China. PMID:28852134
Comparing microbiota profiles in induced and spontaneous sputum samples in COPD patients. PMID:28851370
Crop Establishment Practices Are a Driver of the Plant Microbiota in Winter Oilseed Rape (Brassica napus). PMID:28848510
Oxalobacter formigenes-associated host features and microbial community structures examined using the American Gut Project. PMID:28841836
Seasonal cycling in the gut microbiome of the Hadza hunter-gatherers of Tanzania. PMID:28839072
Soy Improves Cardiometabolic Health and Cecal Microbiota in Female Low-Fit Rats. PMID:28835674
Land cover and forest connectivity alter the interactions among host, pathogen and skin microbiome. PMID:28835551
Core fecal microbiota of domesticated herbivorous ruminant, hindgut fermenters, and monogastric animals. PMID:28834331
Emergence of Leuconostoc mesenteroides as a causative agent of oozing in carrots stored under non-ventilated conditions. PMID:28834204
Microbiome succession during ammonification in eelgrass bed sediments. PMID:28828269
Regulation of life span by the gut microbiota in the short-lived African turquoise killifish. PMID:28826469
Microbial Community Analysis of Colored Snow from an Alpine Snowfield in Northern Japan Reveals the Prevalence of Betaproteobacteria with Snow Algae. PMID:28824603
Personalization of the Microbiota of Donor Human Milk with Mother's Own Milk. PMID:28824595
Serotonin Transporter Genotype Modulates the Gut Microbiota Composition in Young Rats, an Effect Augmented by Early Life Stress. PMID:28824378
Differences in Temperature and Water Chemistry Shape Distinct Diversity Patterns in Thermophilic Microbial Communities. PMID:28821552
Starch-entrapped microsphere fibers improve bowel habit but do not exhibit prebiotic capacity in those with unsatisfactory bowel habits: a phase I, randomized, double-blind, controlled human trial. PMID:28821315
Administration of two probiotic strains during early childhood does not affect the endogenous gut microbiota composition despite probiotic proliferation. PMID:28818050
Effect of barley supplementation on the fecal microbiota, caecal biochemistry, and key biomarkers of obesity and inflammation in obese db/db mice. PMID:28815303
The Microbial Ecosystem Distinguishes Chronically Diseased Tissue from Adjacent Tissue in the Sigmoid Colon of Chronic, Recurrent Diverticulitis Patients. PMID:28814777
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis. PMID:28807046
Wood Ash Induced pH Changes Strongly Affect Soil Bacterial Numbers and Community Composition. PMID:28804476
PCB dechlorination hotspots and reductive dehalogenase genes in sediments from a contaminated wastewater lagoon. PMID:28803405
Exploring the microbial diversity in Jordanian hot springs by comparative metagenomic analysis. PMID:28799297
Pearl Millet Genetic Traits Shape Rhizobacterial Diversity and Modulate Rhizosphere Aggregation. PMID:28798755
Preservation and Significance of Extracellular DNA in Ferruginous Sediments from Lake Towuti, Indonesia. PMID:28798742
The microbiome in urogenital schistosomiasis and induced bladder pathologies. PMID:28793309
The Effects of Weaning Methods on Gut Microbiota Composition and Horse Physiology. PMID:28790932
A clinician's guide to microbiome analysis. PMID:28790452
Cutaneous Microbial Community Variation across Populations of Eastern Hellbenders (Cryptobranchus alleganiensis alleganiensis). PMID:28785252
A Method to Assess Bacteriocin Effects on the Gut Microbiota of Mice. PMID:28784971
Enrichment of anaerobic nitrate-dependent methanotrophic 'Candidatus Methanoperedens nitroreducens' archaea from an Italian paddy field soil. PMID:28779290
Dietary perturbations alter the ecological significance of ingested Lactobacillus plantarum in the digestive tract. PMID:28779118
Environmental Selection, Dispersal, and Organism Interactions Shape Community Assembly in High-Throughput Enrichment Culturing. PMID:28778896
Occurrence and expression of novel methyl-coenzyme M reductase gene (mcrA) variants in hot spring sediments. PMID:28775334
Influence of Chlorination and Choice of Materials on Fouling in Cooling Water System under Brackish Seawater Conditions. PMID:28773597
Microbiome and metabolome data integration provides insight into health and disease. PMID:28764956
Temporal dynamics of in-situ fiber-adherent bacterial community under ruminal acidotic conditions determined by 16S rRNA gene profiling. PMID:28763489
Insights into Butyrate Production in a Controlled Fermentation System via Gene Predictions. PMID:28761933
Correcting names of bacteria deposited in National Microbial Repositories: an analysed sequence data necessary for taxonomic re-categorization of misclassified bacteria-ONE example, genus Lysinibacillus. PMID:28761909
Streptococcus pneumoniae Colonization Is Required To Alter the Nasal Microbiota in Cigarette Smoke-Exposed Mice. PMID:28760931
Amino acid metabolic signaling influences Aedes aegypti midgut microbiome variability. PMID:28753661
Fibrobacter communities in the gastrointestinal tracts of diverse hindgut-fermenting herbivores are distinct from those of the rumen. PMID:28752955
Maternal Gut Microbiome Biodiversity in Pregnancy. PMID:28750469
Bacterial diversity in Buruli ulcer skin lesions: Challenges in the clinical microbiome analysis of a skin disease. PMID:28750103
Multi-omics Analysis of Periodontal Pocket Microbial Communities Pre- and Posttreatment. PMID:28744486
Oral Probiotics Alter Healthy Feline Respiratory Microbiota. PMID:28744273
Nutrient and Rainfall Additions Shift Phylogenetically Estimated Traits of Soil Microbial Communities. PMID:28744266
Metabolite profiling of non-sterile rhizosphere soil. PMID:28742258
A longitudinal study of the diabetic skin and wound microbiome. PMID:28740749
Tuftsin-Phosphorylcholine Maintains Normal Gut Microbiota in Collagen Induced Arthritic Mice. PMID:28740485
Visibiome: an efficient microbiome search engine based on a scalable, distributed architecture. PMID:28738824
A genomic perspective on stoichiometric regulation of soil carbon cycling. PMID:28731470
Molecular Characterization of the Human Stomach Microbiota in Gastric Cancer Patients. PMID:28730144
Burn Injury Leads to Increase in Relative Abundance of Opportunistic Pathogens in the Rat Gastrointestinal Microbiome. PMID:28729860
Early-life disruption of amphibian microbiota decreases later-life resistance to parasites. PMID:28729558
Dynamic models of the complex microbial metapopulation of lake mendota. PMID:28725469
Microbial Community Structure and Function Decoupling Across a Phosphorus Gradient in Streams. PMID:28721504
Temporal dynamics of bacterial microbiota in the human oral cavity determined using an in situ model of dental biofilms. PMID:28721251
Bidirectional communication between the Aryl hydrocarbon Receptor (AhR) and the microbiome tunes host metabolism. PMID:28721249
Comparison of DNA-, PMA-, and RNA-based 16S rRNA Illumina sequencing for detection of live bacteria in water. PMID:28720878
Drought Stress Results in a Compartment-Specific Restructuring of the Rice Root-Associated Microbiomes. PMID:28720730
Potential for Monitoring Gut Microbiota for Diagnosing Infections and Graft-versus-Host Disease in Cancer and Stem Cell Transplant Patients. PMID:28720679
Taxa-area relationship of aquatic fungi on deciduous leaves. PMID:28719634
The Human Microbiome in the Fight Against Tuberculosis. PMID:28719264
Effect of freshwater mussels on the vertical distribution of anaerobic ammonia oxidizers and other nitrogen-transforming microorganisms in upper Mississippi river sediment. PMID:28717594
Airborne Bacterial Communities in Three East Asian Cities of China, South Korea, and Japan. PMID:28717138
The Gut Microbiota of Healthy Chilean Subjects Reveals a High Abundance of the Phylum Verrucomicrobia. PMID:28713349
Polydextrose changes the gut microbiome and attenuates fasting triglyceride and cholesterol levels in Western diet fed mice. PMID:28706193
Microbial Composition and Diversity Patterns in Deep Hyperthermal Aquifers from the Western Plain of Romania. PMID:28702708
Metagenomic Analysis of Subtidal Sediments from Polar and Subpolar Coastal Environments Highlights the Relevance of Anaerobic Hydrocarbon Degradation Processes. PMID:28702706
Comparative analysis of the intestinal flora in type 2 diabetes and nondiabetic mice. PMID:28701620
Normal milk microbiome is reestablished following experimental infection with Escherichia coli independent of intramammary antibiotic treatment with a third-generation cephalosporin in bovines. PMID:28701174
The association between ethnicity and vaginal microbiota composition in Amsterdam, the Netherlands. PMID:28700747
The Microbiome in Posttraumatic Stress Disorder and Trauma-Exposed Controls: An Exploratory Study. PMID:28700459
The gut microbiota in larvae of the housefly Musca domestica and their horizontal transfer through feeding. PMID:28697583
Metagenomic binning of a marine sponge microbiome reveals unity in defense but metabolic specialization. PMID:28696422
The dynamics of the bacterial communities developed in maize silage. PMID:28696065
Root Hair Mutations Displace the Barley Rhizosphere Microbiota. PMID:28694814
Reliable Biomarker discovery from Metagenomic data via RegLRSD algorithm. PMID:28693478
The changes of gut microbiota after acute myocardial infarction in rats. PMID:28686722
Three distinct pneumotypes characterize the microbiome of the lung in BALB/cJ mice. PMID:28683098
Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes. PMID:28680968
The Influence of Land Use Intensity on the Plant-Associated Microbiome of Dactylis glomerata L. PMID:28680426
Macrophage dysfunction initiates colitis during weaning of infant mice lacking the interleukin-10 receptor. PMID:28678006
Microbial community analysis of the hypersaline water of the Dead Sea using high-throughput amplicon sequencing. PMID:28677326
16S rRNA Next Generation Sequencing Analysis Shows Bacteria in Alzheimer's Post-Mortem Brain. PMID:28676754
Monensin and Nisin Affect Rumen Fermentation and Microbiota Differently In Vitro. PMID:28670304
A Combination of Stable Isotope Probing, Illumina Sequencing, and Co-occurrence Network to Investigate Thermophilic Acetate- and Lactate-Utilizing Bacteria. PMID:28669057
Association of the gut microbiota mobilome with hospital location and birth weight in preterm infants. PMID:28665922
Dominant Groups of Potentially Active Bacteria Shared by Barley Seeds become Less Abundant in Root Associated Microbiome. PMID:28663753
Community analysis of biofilms on flame-oxidized stainless steel anodes in microbial fuel cells fed with different substrates. PMID:28662640
Early-Life Diet Affects Host Microbiota and Later-Life Defenses Against Parasites in Frogs. PMID:28662573
Bacterial microbiome in the nose of healthy cats and in cats with nasal disease. PMID:28662139
Variation between the oral and faecal microbiota in a free-living passerine bird, the great tit (Parus major). PMID:28662106
Lactobacillus johnsonii N6.2 Modulates the Host Immune Responses: A Double-Blind, Randomized Trial in Healthy Adults. PMID:28659913
Dietary fructose causes defective insulin signalling and ceramide accumulation in the liver that can be reversed by gut microbiota modulation. PMID:28659742
Method for preparing DNA from feces in guanidine thiocyanate solution affects 16S rRNA-based profiling of human microbiota diversity. PMID:28659635
Hydraulic retention time and pH affect the performance and microbial communities of passive bioreactors for treatment of acid mine drainage. PMID:28658944
Comparison of two bioinformatics tools used to characterize the microbial diversity and predictive functional attributes of microbial mats from Lake Obersee, Antarctica. PMID:28655556
Segal's Law, 16S rRNA gene sequencing, and the perils of foodborne pathogen detection within the American Gut Project. PMID:28652935
A study of ticks and tick-borne livestock pathogens in Pakistan. PMID:28650978
Distinct patterns in the gut microbiota after surgical or medical therapy in obese patients. PMID:28649469
Diurnal cycling of rhizosphere bacterial communities is associated with shifts in carbon metabolism. PMID:28646918
The Microbiome of Endophytic, Wood Colonizing Bacteria from Pine Trees as Affected by Pine Wilt Disease. PMID:28646202
High Diversity of Bacterial Communities in Developmental Stages of Bactrocera carambolae (Insecta: Tephritidae) Revealed by Illumina MiSeq Sequencing of 16S rRNA Gene. PMID:28642971
Non-pylori Helicobacters (NHPHs) Induce Shifts in Gastric Microbiota in Helicobacter pylori-Infected Patients. PMID:28642750
Impact of Ferrous Iron on Microbial Community of the Biofilm in Microbial Fuel Cells. PMID:28638368
NOD2 Genetic Variants Predispose One of Two Familial Adenomatous Polyposis Siblings to Pouchitis Through Microbiome Dysbiosis. PMID:28633443
Putative archaeal viruses from the mesopelagic ocean. PMID:28630803
Physiological effects of stress related to helicopter travel in Federal Emergency Management Agency search-and-rescue canines. PMID:28630705
Urinary catheter-associated microbiota change in accordance with treatment and infection status. PMID:28628622
Identification of a Large Family of Slam-Dependent Surface Lipoproteins in Gram-Negative Bacteria. PMID:28620585
Tolerability and safety of the intake of bovine milk oligosaccharides extracted from cheese whey in healthy human adults. PMID:28620481
ELIXIR pilot action: Marine metagenomics - towards a domain specific set of sustainable services. PMID:28620454
Bacterial Composition and Diversity in Breast Milk Samples from Mothers Living in Taiwan and Mainland China. PMID:28611760
Comprehensive analysis of microorganisms accompanying human archaeological remains. PMID:28609785
Methanogenic Community Was Stable in Two Contrasting Freshwater Marshes Exposed to Elevated Atmospheric CO2. PMID:28596763
Gut Dysbiosis and Neurobehavioral Alterations in Rats Exposed to Silver Nanoparticles. PMID:28588204
Contributions of the maternal oral and gut microbiome to placental microbial colonization in overweight and obese pregnant women. PMID:28588199
Commensal microbes provide first line defense against Listeria monocytogenes infection. PMID:28588016
Fecal microbiota variation across the lifespan of the healthy laboratory rat. PMID:28586297
Ubiquity and quantitative significance of bacterioplankton lineages inhabiting the oxygenated hypolimnion of deep freshwater lakes. PMID:28585941
High resolution profiling of coral-associated bacterial communities using full-length 16S rRNA sequence data from PacBio SMRT sequencing system. PMID:28584301
Bacterial Rhizoplane Colonization Patterns of Buchloe dactyloides Growing in Metalliferous Mine Tailings Reflect Plant Status and Biogeochemical Conditions. PMID:28577167
Pigs, Unlike Mice, Have Two Distinct Colonic Stem Cell Populations Similar to Humans That Respond to High-Calorie Diet prior to Insulin Resistance. PMID:28576788
Phylogenetic and Functional Diversity of Total (DNA) and Expressed (RNA) Bacterial Communities in Urban Green Infrastructure Bioswale Soils. PMID:28576763
The feline skin microbiota: The bacteria inhabiting the skin of healthy and allergic cats. PMID:28575016
Targeting of Streptococcus mutans Biofilms by a Novel Small Molecule Prevents Dental Caries and Preserves the Oral Microbiome. PMID:28571487
Low pH reduces the virulence of black band disease on Orbicella faveolata. PMID:28570712
A diet change from dry food to beef induces reversible changes on the faecal microbiota in healthy, adult client-owned dogs. PMID:28558792
Evaluating the accuracy of amplicon-based microbiome computational pipelines on simulated human gut microbial communities. PMID:28558684
Simultaneous fermentation of cellulose and current production with an enriched mixed culture of thermophilic bacteria in a microbial electrolysis cell. PMID:28557303
A Phloem-Feeding Insect Transfers Bacterial Endophytic Communities between Grapevine Plants. PMID:28555131
Differing Complex Microbiota Alter Disease Severity of the IL-10-/- Mouse Model of Inflammatory Bowel Disease. PMID:28553262
Characterization of the urinary microbiome in healthy dogs. PMID:28545071
Syntrophic association and performance of Clostridium, Desulfovibrio, Aeromonas and Tetrathiobacter as anodic biocatalysts for bioelectricity generation in dual chamber microbial fuel cell. PMID:28537018
Differences in Microbiota Membership along the Gastrointestinal Tract of Piglets and Their Differential Alterations Following an Early-Life Antibiotic Intervention. PMID:28536561
Microbiome patterns across the gastrointestinal tract of the rabbitfish Siganus fuscescens. PMID:28533966
Worldwide exploration of the microbiome harbored by the cnidarian model, Exaiptasia pallida (Agassiz in Verrill, 1864) indicates a lack of bacterial association specificity at a lower taxonomic rank. PMID:28533949
The Variable Influence of Dispersant on Degradation of Oil Hydrocarbons in Subarctic Deep-Sea Sediments at Low Temperatures (0-5 °C). PMID:28533547
Health benefit of vegetable/fruit juice-based diet: Role of microbiome. PMID:28526852
Sulfide-Induced Dissimilatory Nitrate Reduction to Ammonium Supports Anaerobic Ammonium Oxidation (Anammox) in an Open-Water Unit Process Wetland. PMID:28526796
Diabetes-associated microbiota in fa/fa rats is modified by Roux-en-Y gastric bypass. PMID:28524868
Biogeographic Comparison of Lophelia-Associated Bacterial Communities in the Western Atlantic Reveals Conserved Core Microbiome. PMID:28522997
Changes in microbiome during and after travellers' diarrhea: what we know and what we do not. PMID:28521002
A Study of the Microbial Spatial Heterogeneity of Bahamian Thrombolites Using Molecular, Biochemical, and Stable Isotope Analyses. PMID:28520472
Involvement of a gut-retina axis in protection against dietary glycemia-induced age-related macular degeneration. PMID:28507131
The malleable gut microbiome of juvenile rainbow trout (Oncorhynchus mykiss): Diet-dependent shifts of bacterial community structures. PMID:28498878
pH-Mediated Microbial and Metabolic Interactions in Fecal Enrichment Cultures. PMID:28497116
Cooperating Commensals Restore Colonization Resistance to Vancomycin-Resistant Enterococcus faecium. PMID:28494240
Characterization of the juvenile green turtle (Chelonia mydas) microbiome throughout an ontogenetic shift from pelagic to neritic habitats. PMID:28493980
Using null models to infer microbial co-occurrence networks. PMID:28493918
Temporal Variations of Microbiota Associated with the Immature Stages of Two Florida Culex Mosquito Vectors. PMID:28492989
Copper Pollution Increases the Resistance of Soil Archaeal Community to Changes in Water Regime. PMID:28492987
A Bayesian taxonomic classification method for 16S rRNA gene sequences with improved species-level accuracy. PMID:28486927
Characterisation of Arctic Bacterial Communities in the Air above Svalbard. PMID:28481257
The effects of inhaled aztreonam on the cystic fibrosis lung microbiome. PMID:28476135
Widespread position-specific conservation of synonymous rare codons within coding sequences. PMID:28475588
Effect of dietary supplementation with Lactobacillus acidophilus D2/CSL (CECT 4529) on caecum microbioma and productive performance in broiler chickens. PMID:28472118
Microbiomes associated with infective stages of root-knot and lesion nematodes in soil. PMID:28472099
Microbial communities in sediment from Zostera marina patches, but not the Z. marina leaf or root microbiomes, vary in relation to distance from patch edge. PMID:28462046
A Robust Framework for Microbial Archaeology. PMID:28460196
Interactive microbial distribution analysis using BioAtlas. PMID:28460071
Comparative Metagenomics of the Polymicrobial Black Band Disease of Corals. PMID:28458657
Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform. PMID:28453559
Millions of Boreal Shield Lakes can be used to Probe Archaean Ocean Biogeochemistry. PMID:28447615
Study protocol on the role of intestinal microbiota in colorectal cancer treatment: a pathway to personalized medicine 2.0. PMID:28444508
Intestinal microbiota link lymphopenia to murine autoimmunity via PD-1+CXCR5-/dim B-helper T cell induction. PMID:28443628
Molecular assessment of the fecal microbiota in healthy cats and dogs before and during supplementation with fructo-oligosaccharides (FOS) and inulin using high-throughput 454-pyrosequencing. PMID:28439463
Bioinformatic Approaches Including Predictive Metagenomic Profiling Reveal Characteristics of Bacterial Response to Petroleum Hydrocarbon Contamination in Diverse Environments. PMID:28439121
Bacterial diversity of bacteriomes and organs of reproductive, digestive and excretory systems in two cicada species (Hemiptera: Cicadidae). PMID:28437427
Hot topic: 16S rRNA gene sequencing reveals the microbiome of the virgin and pregnant bovine uterus. PMID:28434745
Short Term High Fat Diet Induces Obesity-Enhancing Changes in Mouse Gut Microbiota That are Partially Reversed by Cessation of the High Fat Diet. PMID:28429150
Urinary and Fecal Metabonomics Study of the Protective Effect of Chaihu-Shu-Gan-San on Antibiotic-Induced Gut Microbiota Dysbiosis in Rats. PMID:28425490
Elevated Air Humidity Changes Soil Bacterial Community Structure in the Silver Birch Stand. PMID:28421053
Response of microbial community of organic-matter-impoverished arable soil to long-term application of soil conditioner derived from dynamic rapid fermentation of food waste. PMID:28419163
Characterization of the gut microbiota in the golden takin (Budorcas taxicolor bedfordi). PMID:28413853
Tuber indicum shapes the microbial communities of ectomycorhizosphere soil and ectomycorrhizae of an indigenous tree (Pinus armandii). PMID:28410376
prepare_taxa_charts.py: A Python program to automate generation of publication ready taxonomic pie chart images from QIIME. PMID:28409116
Bacterial Community Composition Associated with Pyrogenic Organic Matter (Biochar) Varies with Pyrolysis Temperature and Colonization Environment. PMID:28405627
Temporal abundance and activity trends of vinyl chloride (VC)-degrading bacteria in a dilute VC plume at Naval Air Station Oceana. PMID:28401391
A geographically-diverse collection of 418 human gut microbiome pathway genome databases. PMID:28398290
Dynamics of archaea at fine spatial scales in Shark Bay mat microbiomes. PMID:28397816
Structure and Function of the Fecal Microbiota in Diarrheic Neonatal Piglets. PMID:28392784
Characterization of the Fecal Bacterial Microbiota of Healthy and Diarrheic Dairy Calves. PMID:28390070
Strategies and Methodologies for Developing Microbial Detoxification Systems to Mitigate Mycotoxins. PMID:28387743
Cassava foliage affects the microbial diversity of Chinese indigenous geese caecum using 16S rRNA sequencing. PMID:28383519
Autogenic succession and deterministic recovery following disturbance in soil bacterial communities. PMID:28383027
Starter Feeding Supplementation Alters Colonic Mucosal Bacterial Communities and Modulates Mucosal Immune Homeostasis in Newborn Lambs. PMID:28382025
Exposure to household furry pets influences the gut microbiota of infant at 3-4 months following various birth scenarios. PMID:28381231
Gut Microbiota Modulation Attenuated the Hypolipidemic Effect of Simvastatin in High-Fat/Cholesterol-Diet Fed Mice. PMID:28378586
Low-dose penicillin in early life induces long-term changes in murine gut microbiota, brain cytokines and behavior. PMID:28375200
Microbial Biogeography and Core Microbiota of the Rat Digestive Tract. PMID:28374781
Nod2 and Nod2-regulated microbiota protect BALB/c mice from diet-induced obesity and metabolic dysfunction. PMID:28373658
A model for paired-multinomial data and its application to analysis of data on a taxonomic tree. PMID:28369713
Multi-Omics Analysis Reveals a Correlation between the Host Phylogeny, Gut Microbiota and Metabolite Profiles in Cyprinid Fishes. PMID:28367147
Reactivation of Deep Subsurface Microbial Community in Response to Methane or Methanol Amendment. PMID:28367144
Bacterial Signatures of "Red-Operculum" Disease in the Gut of Crucian Carp (Carassius auratus). PMID:28364130
Alterations in airway microbiota in patients with PaO2/FiO2 ratio ≤ 300 after burn and inhalation injury. PMID:28358811
Exposure to dairy manure leads to greater antibiotic resistance and increased mass-specific respiration in soil microbial communities. PMID:28356447
Ethnic and diet-related differences in the healthy infant microbiome. PMID:28356137
Metaproteogenomics Reveals Taxonomic and Functional Changes between Cecal and Fecal Microbiota in Mouse. PMID:28352255
Patterns of variation in diversity of the Mississippi river microbiome over 1,300 kilometers. PMID:28350888
MIPE: A metagenome-based community structure explorer and SSU primer evaluation tool. PMID:28350876
It Is Imperative to Establish a Pellucid Definition of Chimeric RNA and to Clear Up a Lot of Confusion in the Relevant Research. PMID:28350330
Sex-related alterations of gut microbiota composition in the BTBR mouse model of autism spectrum disorder. PMID:28349974
Milk Fat Globule Membrane Supplementation in Formula Modulates the Neonatal Gut Microbiome and Normalizes Intestinal Development. PMID:28349941
Land-use types and soil chemical properties influence soil microbial communities in the semiarid Loess Plateau region in China. PMID:28349918
Gut microbial metabolites limit the frequency of autoimmune T cells and protect against type 1 diabetes. PMID:28346408
Respiratory Microbiome of Endangered Southern Resident Killer Whales and Microbiota of Surrounding Sea Surface Microlayer in the Eastern North Pacific. PMID:28341851
Defining the Core Citrus Leaf- and Root-Associated Microbiota: Factors Associated with Community Structure and Implications for Managing Huanglongbing (Citrus Greening) Disease. PMID:28341678
The preservation of microbial DNA in archived soils of various genetic types. PMID:28339464
Symbiosis and microbiome flexibility in calcifying benthic foraminifera of the Great Barrier Reef. PMID:28335814
The nasopharyngeal microbiota of beef cattle before and after transport to a feedlot. PMID:28330466
Oral microbiome in HIV-associated periodontitis. PMID:28328799
Compositional Stability of the Bacterial Community in a Climate-Sensitive Sub-Arctic Peatland. PMID:28326062
Alterations in Gastric Microbiota After H. Pylori Eradication and in Different Histological Stages of Gastric Carcinogenesis. PMID:28322295
MetaDP: a comprehensive web server for disease prediction of 16S rRNA metagenomic datasets. PMID:28317014
Alterations of Urinary Microbiota in Type 2 Diabetes Mellitus with Hypertension and/or Hyperlipidemia. PMID:28316574
Investigation of bacterial communities within the digestive organs of the hydrothermal vent shrimp Rimicaris exoculata provide insights into holobiont geographic clustering. PMID:28296889
Intestinal Microbial Community Dynamics of White-Tailed Deer (Odocoileus virginianus) in an Agroecosystem. PMID:28293696
Untangling the relationship between diet and visceral fat mass through blood metabolomics and gut microbiome profiling. PMID:28293020
Sampling Strategies for Three-Dimensional Spatial Community Structures in IBD Microbiota Research. PMID:28286741
Sorghum and wheat differentially affect caecal microbiota and associated performance characteristics of meat chickens. PMID:28286717
Influence of dairy by-product waste milk on the microbiomes of different gastrointestinal tract components in pre-weaned dairy calves. PMID:28281639
Anti-obesity Effect of Capsaicin in Mice Fed with High-Fat Diet Is Associated with an Increase in Population of the Gut Bacterium Akkermansia muciniphila. PMID:28280490
Variable Colonization after Reciprocal Fecal Microbiota Transfer between Mice with Low and High Richness Microbiota. PMID:28280484
Protein Malnutrition Modifies Innate Immunity and Gene Expression by Intestinal Epithelial Cells and Human Rotavirus Infection in Neonatal Gnotobiotic Pigs. PMID:28261667
Impact of Westernized Diet on Gut Microbiota in Children on Leyte Island. PMID:28261164
Gut Microbiota Analysis Results Are Highly Dependent on the 16S rRNA Gene Target Region, Whereas the Impact of DNA Extraction Is Minor. PMID:28260999
Subgingival dysbiosis in smoker and non‑smoker patients with chronic periodontitis. PMID:28260061
Comparison of Fecal Collection Methods for Microbiota Studies in Bangladesh. PMID:28258145
Bacterial and fungal core microbiomes associated with small grain silages during ensiling and aerobic spoilage. PMID:28253864
Longitudinal sampling of the lung microbiota in individuals with cystic fibrosis. PMID:28253277
Unexplored Archaeal Diversity in the Great Ape Gut Microbiome. PMID:28251182
Antibiotic treatment at delivery shapes the initial oral microbiome in neonates. PMID:28240736
Multiple approaches to assess the safety of artisanal marine food in a tropical estuary. PMID:28238170
Metatranscriptomic Profiling Reveals Linkages between the Active Rumen Microbiome and Feed Efficiency in Beef Cattle. PMID:28235871
Archaeal and bacterial communities in deep-sea hydrogenetic ferromanganese crusts on old seamounts of the northwestern Pacific. PMID:28235095
Age-associated molecular changes are deleterious and may modulate life span through diet. PMID:28232953
Microbiota Disruption Induced by Early Use of Broad-Spectrum Antibiotics Is an Independent Risk Factor of Outcome after Allogeneic Stem Cell Transplantation. PMID:28232086
Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis. PMID:28228596
Betel nut chewing, oral premalignant lesions, and the oral microbiome. PMID:28225785
Broadcast Spawning Coral Mussismilia hispida Can Vertically Transfer its Associated Bacterial Core. PMID:28223979
Gut microbial diversity analysis using Illumina sequencing for functional dyspepsia with liver depression-spleen deficiency syndrome and the interventional Xiaoyaosan in a rat model. PMID:28223725
New evidences on the altered gut microbiota in autism spectrum disorders. PMID:28222761
Metacoder: An R package for visualization and manipulation of community taxonomic diversity data. PMID:28222096
Individual Signatures Define Canine Skin Microbiota Composition and Variability. PMID:28220148
Temporal Stability and the Effect of Transgenerational Transfer on Fecal Microbiota Structure in a Long Distance Migratory Bird. PMID:28220109
MetaGaAP: A Novel Pipeline to Estimate Community Composition and Abundance from Non-Model Sequence Data. PMID:28218638
The choice of the DNA extraction method may influence the outcome of the soil microbial community structure analysis. PMID:28217901
Antifungal Bacteria on Woodland Salamander Skin Exhibit High Taxonomic Diversity and Geographic Variability. PMID:28213545
Responses of spatial-temporal dynamics of bacterioplankton community to large-scale reservoir operation: a case study in the Three Gorges Reservoir, China. PMID:28211884
Ambient Ultrafine Particle Ingestion Alters Gut Microbiota in Association with Increased Atherogenic Lipid Metabolites. PMID:28211537
Home-Made Cost Effective Preservation Buffer Is a Better Alternative to Commercial Preservation Methods for Microbiome Research. PMID:28197142
Assessment of complementary feeding of Canadian infants: effects on microbiome & oxidative stress, a randomized controlled trial. PMID:28196533
Inoculum composition determines microbial community and function in an anaerobic sequential batch reactor. PMID:28196102
Differences in Gut Metabolites and Microbial Composition and Functions between Egyptian and U.S. Children Are Consistent with Their Diets. PMID:28191503
Diverse microbial communities in non-aerated compost teas suppress bacterial wilt. PMID:28181116
Composition and pathogenic potential of a microbial bioremediation product used for crude oil degradation. PMID:28178315
Social Influences on Prevotella and the Gut Microbiome of Young Monkeys. PMID:28178033
Association of oral microbiome with type 2 diabetes risk. PMID:28177125
Reduction of Abeta amyloid pathology in APPPS1 transgenic mice in the absence of gut microbiota. PMID:28176819
ZnT2-Mediated Zinc Import Into Paneth Cell Granules Is Necessary for Coordinated Secretion and Paneth Cell Function in Mice. PMID:28174721
Plants Assemble Species Specific Bacterial Communities from Common Core Taxa in Three Arcto-Alpine Climate Zones. PMID:28174556
Microbiomic differences in tumor and paired-normal tissue in head and neck squamous cell carcinomas. PMID:28173873
Illumina sequencing-based analysis of sediment bacteria community in different trophic status freshwater lakes. PMID:28173613
A new perspective on studying burial environment before archaeological excavation: analyzing bacterial community distribution by high-throughput sequencing. PMID:28169321
Effects of Organic Amendments on Microbiota Associated with the Culex nigripalpus Mosquito Vector of the Saint Louis Encephalitis and West Nile Viruses. PMID:28168223
Comparison of rumen bacteria distribution in original rumen digesta, rumen liquid and solid fractions in lactating Holstein cows. PMID:28168037
Diversity and functions of the sheep faecal microbiota: a multi-omic characterization. PMID:28165194
Do biofilm communities respond to the chemical signatures of fracking? A test involving streams in North-central Arkansas. PMID:28158975
RiboTagger: fast and unbiased 16S/18S profiling using whole community shotgun metagenomic or metatranscriptome surveys. PMID:28155666
Race-dependent association of sulfidogenic bacteria with colorectal cancer. PMID:28153960
The Fecal Microbial Community of Breast-fed Infants from Armenia and Georgia. PMID:28150690
Human Catestatin Alters Gut Microbiota Composition in Mice. PMID:28144234
Gut microbiota dysbiosis contributes to the development of hypertension. PMID:28143587
Host genetic variation in mucosal immunity pathways influences the upper airway microbiome. PMID:28143570
High throughput 16SrRNA gene sequencing reveals the correlation between Propionibacterium acnes and sarcoidosis. PMID:28143482
Changes in bacterial community composition of Escherichia coli O157:H7 super-shedder cattle occur in the lower intestine. PMID:28141846
Exploring the Impacts of Anthropogenic Disturbance on Seawater and Sediment Microbial Communities in Korean Coastal Waters Using Metagenomics Analysis. PMID:28134828
Linking Peripartal Dynamics of Ruminal Microbiota to Dietary Changes and Production Parameters. PMID:28127294
Effects of Exogenous Yeast and Bacteria on the Microbial Population Dynamics and Outcomes of Olive Fermentations. PMID:28124026
Acidification Enhances Hybrid N2O Production Associated with Aquatic Ammonia-Oxidizing Microorganisms. PMID:28119667
Effects of the Dietary Protein and Carbohydrate Ratio on Gut Microbiomes in Dogs of Different Body Conditions. PMID:28119466
The influence of neoadjuvant chemotherapy on gastric cancer patients' postoperative infectious complications: What is the negative role played by the intestinal barrier dysfunction? PMID:28118611
Novel Primer Sets for Next Generation Sequencing-Based Analyses of Water Quality. PMID:28118368
Formulation of Biocides Increases Antimicrobial Potency and Mitigates the Enrichment of Nonsusceptible Bacteria in Multispecies Biofilms. PMID:28115386
Safety of Bifidobacterium animalis Subsp. Lactis (B. lactis) Strain BB-12-Supplemented Yogurt in Healthy Children. PMID:28114246
Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery. PMID:28112736
Environmental and physiological factors shape the gut microbiota of Atlantic salmon parr (Salmo salar L.). PMID:28111483
Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform. PMID:28109256
Independent Effects of a Herbivore's Bacterial Symbionts on Its Performance and Induced Plant Defences. PMID:28106771
Variation in Metabolite Profiles of Amphibian Skin Bacterial Communities Across Elevations in the Neotropics. PMID:28105509
Metagenomic Analysis of Hot Springs in Central India Reveals Hydrocarbon Degrading Thermophiles and Pathways Essential for Survival in Extreme Environments. PMID:28105025
Ovarian cycling and reproductive state shape the vaginal microbiota in wild baboons. PMID:28103920
Characterization of Gut Microbiome Dynamics in Developing Pekin Ducks and Impact of Management System. PMID:28101086
Microbial succession in the gastrointestinal tract of dairy cows from 2 weeks to first lactation. PMID:28098248
The Gut Microbiome of the Vector Lutzomyia longipalpis Is Essential for Survival of Leishmania infantum. PMID:28096483
The effect of cigarette smoking on the oral and nasal microbiota. PMID:28095925
Deciphering composition and function of the root microbiome of a legume plant. PMID:28095877
Antimicrobial Probiotics Reduce Salmonella enterica in Turkey Gastrointestinal Tracts. PMID:28094807
Rapid adaptation drives invasion of airway donor microbiota by Pseudomonas after lung transplantation. PMID:28094327
Increasing dietary nitrate has no effect on cancellous bone loss or fecal microbiome in ovariectomized rats. PMID:28087899
Epiphytic Planctomycetes communities associated with three main groups of macroalgae. PMID:28087803
Microbiota fingerprints lose individually identifying features over time. PMID:28086968
Bioinformatic Analyses of Unique (Orphan) Core Genes of the Genus Acidithiobacillus: Functional Inferences and Use As Molecular Probes for Genomic and Metagenomic/Transcriptomic Interrogation. PMID:28082953
Growth and Morbidity of Gambian Infants are Influenced by Maternal Milk Oligosaccharides and Infant Gut Microbiota. PMID:28079170
Parallel-META 3: Comprehensive taxonomical and functional analysis platform for efficient comparison of microbial communities. PMID:28079128
Bacterial microbiota of Kazakhstan cheese revealed by single molecule real time (SMRT) sequencing and its comparison with Belgian, Kalmykian and Italian artisanal cheeses. PMID:28068902
The Cause of Death of a Child in the 18th Century Solved by Bone Microbiome Typing Using Laser Microdissection and Next Generation Sequencing. PMID:28067829
Evaluating the Contribution of Gut Microbiota to the Variation of Porcine Fatness with the Cecum and Fecal Samples. PMID:28066405
Greater Species Richness of Bacterial Skin Symbionts Better Suppresses the Amphibian Fungal Pathogen Batrachochytrium Dendrobatidis. PMID:28064360
Fermented Papaya Preparation Restores Age-Related Reductions in Peripheral Blood Mononuclear Cell Cytolytic Activity in Tube-Fed Patients. PMID:28060858
Analysis of gut microbiota - An ever changing landscape. PMID:28051919
Alterations in Gut Microbiome Composition and Barrier Function Are Associated with Reproductive and Metabolic Defects in Women with Polycystic Ovary Syndrome (PCOS): A Pilot Study. PMID:28045919
Pseudomonas aeruginosa Microcolonies in Coronary Thrombi from Patients with ST-Segment Elevation Myocardial Infarction. PMID:28030624
Exploring the cockatiel (Nymphicus hollandicus) fecal microbiome, bacterial inhabitants of a worldwide pet. PMID:28028487
Tissue-Associated Bacterial Alterations in Rectal Carcinoma Patients Revealed by 16S rRNA Community Profiling. PMID:28018861
Host-Microbiome Interaction and Cancer: Potential Application in Precision Medicine. PMID:28018236
Regional synchrony in full-scale activated sludge bioreactors due to deterministic microbial community assembly. PMID:27996980
Experimental warming reveals positive feedbacks to climate change in the Eurasian Steppe. PMID:27996978
Disturbance Increases Microbial Community Diversity and Production in Marine Sediments. PMID:27994581
Anode potential influences the structure and function of anodic electrode and electrolyte-associated microbiomes. PMID:27991591
Dietary Changes Impact the Gut Microbe Composition in Overweight and Obese Men with Prostate Cancer Undergoing Radical Prostatectomy. PMID:27988219
Alternative Protein Sources in the Diet Modulate Microbiota and Functionality in the Distal Intestine of Atlantic Salmon (Salmo salar). PMID:27986728
Comparison of Collection Methods for Fecal Samples in Microbiome Studies. PMID:27986704
The human intestinal microbiota of constipated-predominant irritable bowel syndrome patients exhibits anti-inflammatory properties. PMID:27982124
Distinctive Feature of Microbial Communities and Bacterial Functional Profiles in Tricholoma matsutake Dominant Soil. PMID:27977803
Prospective randomized controlled study on the effects of Saccharomyces boulardii CNCM I-745 and amoxicillin-clavulanate or the combination on the gut microbiota of healthy volunteers. PMID:27973989
Bacterial Communities Differ among Drosophila melanogaster Populations and Affect Host Resistance against Parasitoids. PMID:27973604
Stable Transmission of Borrelia burgdorferi Sensu Stricto on the Outer Banks of North Carolina. PMID:27966833
The Underlying Ecological Processes of Gut Microbiota Among Cohabitating Retarded, Overgrown and Normal Shrimp. PMID:27966036
Microbial Communities of Lycaenid Butterflies Do Not Correlate with Larval Diet. PMID:27965647
Atmospheric Deposition-Carried Zn and Cd from a Zinc Smelter and Their Effects on Soil Microflora as Revealed by 16S rDNA. PMID:27958371
Effects of light attenuation on the sponge holobiont- implications for dredging management. PMID:27958345
Profiling bacterial communities associated with sediment-based aquaculture bioremediation systems under contrasting redox regimes. PMID:27941918
Nutrient availability shapes the microbial community structure in sugarcane bagasse compost-derived consortia. PMID:27941835
Microbial Diversity of Source and Point-of-Use Water in Rural Haiti - A Pyrosequencing-Based Metagenomic Survey. PMID:27936055
Environmental fluctuations and host skin bacteria shift survival advantage between frogs and their fungal pathogen. PMID:27935596
Gut microbiota from metabolic disease-resistant, macrophage-specific RIP140 knockdown mice improves metabolic phenotype and gastrointestinal integrity. PMID:27929078
Age-Related Differences in the Luminal and Mucosa-Associated Gut Microbiome of Broiler Chickens and Shifts Associated with Campylobacter jejuni Infection. PMID:27921008
Evidence for Ecological Flexibility in the Cosmopolitan Genus Curtobacterium. PMID:27920771
Metagenomic profiling of historic Colorado Front Range flood impact on distribution of riverine antibiotic resistance genes. PMID:27917931
Colonic luminal microbiota and bacterial metabolite composition in pregnant Huanjiang mini-pigs: effects of food composition at different times of pregnancy. PMID:27917879
Impact of the gut microbiota on enhancer accessibility in gut intraepithelial lymphocytes. PMID:27911843
Microbial Community Patterns Associated with Automated Teller Machine Keypads in New York City. PMID:27904880
Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes. PMID:27900395
MEGARes: an antimicrobial resistance database for high throughput sequencing. PMID:27899569
Beneficial Effects of a Dietary Weight Loss Intervention on Human Gut Microbiome Diversity and Metabolism Are Not Sustained during Weight Maintenance. PMID:27898428
Diet-Microbiota Interactions Mediate Global Epigenetic Programming in Multiple Host Tissues. PMID:27889451
11β-hydroxysteroid dehydrogenase-1 deficiency alters the gut microbiome response to Western diet. PMID:27885053
Extending colonic mucosal microbiome analysis-assessment of colonic lavage as a proxy for endoscopic colonic biopsies. PMID:27884202
The stable microbiome of inter and sub-tidal anemone species under increasing pCO2. PMID:27876762
Microbial Communities of Conducting and Respiratory Zones of Lung-Transplanted Patients. PMID:27872615
Eye of the Finch: characterization of the ocular microbiome of house finches in relation to mycoplasmal conjunctivitis. PMID:27871125
Polymetallic nodules, sediments, and deep waters in the equatorial North Pacific exhibit highly diverse and distinct bacterial, archaeal, and microeukaryotic communities. PMID:27868387
Genotyping by PCR and High-Throughput Sequencing of Commercial Probiotic Products Reveals Composition Biases. PMID:27857709
Using community analysis to explore bacterial indicators for disease suppression of tobacco bacterial wilt. PMID:27857159
Enteral High Fat-Polyunsaturated Fatty Acid Blend Alters the Pathogen Composition of the Intestinal Microbiome in Premature Infants with an Enterostomy. PMID:27856001
CD24 blunts oral squamous cancer development and dampens the functional expansion of myeloid-derived suppressor cells. PMID:27853649
The rectal mucosa and condomless receptive anal intercourse in HIV-negative MSM: implications for HIV transmission and prevention. PMID:27848950
Ontogenetic Characterization of the Intestinal Microbiota of Channel Catfish through 16S rRNA Gene Sequencing Reveals Insights on Temporal Shifts and the Influence of Environmental Microbes. PMID:27846300
A Microbiological Map of the Healthy Equine Gastrointestinal Tract. PMID:27846295
Akkermansia muciniphila mediates negative effects of IFNγ on glucose metabolism. PMID:27841267
Features of the bronchial bacterial microbiome associated with atopy, asthma, and responsiveness to inhaled corticosteroid treatment. PMID:27838347
Cultivation Versus Molecular Analysis of Banana (Musa sp.) Shoot-Tip Tissue Reveals Enormous Diversity of Normally Uncultivable Endophytic Bacteria. PMID:27833995
Alteration of Fecal Microbiota Profiles in Juvenile Idiopathic Arthritis. Associations with HLA-B27 Allele and Disease Status. PMID:27833598
A comparison of intestinal microbiota in a population of low-risk infants exposed and not exposed to intrapartum antibiotics: The Baby & Microbiota of the Intestine cohort study protocol. PMID:27832763
Piezo-tolerant natural gas-producing microbes under accumulating pCO2. PMID:27826355
Sensitive responders among bacterial and fungal microbiome to pyrogenic organic matter (biochar) addition differed greatly between rhizosphere and bulk soils. PMID:27824111
Novel Syntrophic Populations Dominate an Ammonia-Tolerant Methanogenic Microbiome. PMID:27822555
The Oral and Skin Microbiomes of Captive Komodo Dragons Are Significantly Shared with Their Habitat. PMID:27822543
From Sample to Multi-Omics Conclusions in under 48 Hours. PMID:27822524
Open-Source Sequence Clustering Methods Improve the State Of the Art. PMID:27822515
Comparing culture and molecular methods for the identification of microorganisms involved in necrotizing soft tissue infections. PMID:27821087
Piphillin: Improved Prediction of Metagenomic Content by Direct Inference from Human Microbiomes. PMID:27820856
Metagenomic Analysis of Genes Encoding Nutrient Cycling Pathways in the Microbiota of Deep-Sea and Shallow-Water Sponges. PMID:27819120
Impact of Different Fecal Processing Methods on Assessments of Bacterial Diversity in the Human Intestine. PMID:27812352
Limited Bacterial Diversity within a Treatment Plant Receiving Antibiotic-Containing Waste from Bulk Drug Production. PMID:27812209
Pine Defensive Monoterpene α-Pinene Influences the Feeding Behavior of Dendroctonus valens and Its Gut Bacterial Community Structure. PMID:27809267
Microbial community analysis of pH 4 thermal springs in Yellowstone National Park. PMID:27807621
The microbiome of neotropical ticks parasitizing on passerine migratory birds. PMID:27802919
Dietary Gluten-Induced Gut Dysbiosis Is Accompanied by Selective Upregulation of microRNAs with Intestinal Tight Junction and Bacteria-Binding Motifs in Rhesus Macaque Model of Celiac Disease. PMID:27801835
Obese Mice Fed a Diet Supplemented with Enzyme-Treated Wheat Bran Display Marked Shifts in the Liver Metabolome Concurrent with Altered Gut Bacteria. PMID:27798344
The Influence of the Host Plant Is the Major Ecological Determinant of the Presence of Nitrogen-Fixing Root Nodule Symbiont Cluster II Frankia Species in Soil. PMID:27795313
Detection of genetic incompatibilities in non-model systems using simple genetic markers: hybrid breakdown in the haplodiploid spider mite Tetranychus evansi. PMID:27782117
VSEARCH: a versatile open source tool for metagenomics. PMID:27781170
The human laryngeal microbiome: effects of cigarette smoke and reflux. PMID:27775059
Microbiota of wild-caught Red Snapper Lutjanus campechanus. PMID:27769187
In Vivo Effects of Pichia Pastoris-Expressed Antimicrobial Peptide Hepcidin on the Community Composition and Metabolism Gut Microbiota of Rats. PMID:27768776
Bacterial abundance and diversity in pond water supplied with different feeds. PMID:27759010
Successful treatment with fecal microbiota transplantation in patients with multiple organ dysfunction syndrome and diarrhea following severe sepsis. PMID:27751177
Microbial legacies alter decomposition in response to simulated global change. PMID:27740610
The microbial community shifts of subgingival plaque in patients with generalized aggressive periodontitis following non-surgical periodontal therapy: a pilot study. PMID:27732961
Bacteriomes of the corn leafhopper, Dalbulus maidis (DeLong & Wolcott, 1923) (Insecta, Hemiptera, Cicadellidae: Deltocephalinae) harbor Sulcia symbiont: molecular characterization, ultrastructure, and transovarial transmission. PMID:27730310
Archaea and Bacteria Acclimate to High Total Ammonia in a Methanogenic Reactor Treating Swine Waste. PMID:27725793
The gut microbiota contributes to a mouse model of spontaneous bile duct inflammation. PMID:27720803
Genetic and transcriptional analysis of human host response to healthy gut microbiota. PMID:27709125
Hyperoxaluria leads to dysbiosis and drives selective enrichment of oxalate metabolizing bacterial species in recurrent kidney stone endures. PMID:27708409
Bacterial community diversity of the deep-sea octocoral Paramuricea placomus. PMID:27703865
Distinct Ecological Niche of Anal, Oral, and Cervical Mucosal Microbiomes in Adolescent Women. PMID:27698612
Probing the diversity of healthy oral microbiome with bioinformatics approaches. PMID:27697111
Riverine Bacterial Communities Reveal Environmental Disturbance Signatures within the Betaproteobacteria and Verrucomicrobia. PMID:27695444
The Potential of Class II Bacteriocins to Modify Gut Microbiota to Improve Host Health. PMID:27695121
Dairy and plant based food intakes are associated with altered faecal microbiota in 2 to 3 year old Australian children. PMID:27694811
Resolving colocalization of bacteria and metal(loid)s on plant root surfaces by combining fluorescence in situ hybridization (FISH) with multiple-energy micro-focused X-ray fluorescence (ME μXRF). PMID:27693754
A method for high precision sequencing of near full-length 16S rRNA genes on an Illumina MiSeq. PMID:27688981
Environment and host species shape the skin microbiome of captive neotropical bats. PMID:27688962
Extremophiles in an Antarctic Marine Ecosystem. PMID:27681902
Temporal dynamics of hot desert microbial communities reveal structural and functional responses to water input. PMID:27680878
Characterization of the Cutaneous Bacterial Communities of Two Giant Salamander Subspecies. PMID:27677893
Microbial diversity of extreme habitats in human homes. PMID:27672493
Phytoplankton-Associated Bacterial Community Composition and Succession during Toxic Diatom Bloom and Non-Bloom Events. PMID:27672385
Spatial Heterogeneity of Gut Microbial Composition along the Gastrointestinal Tract in Natural Populations of House Mice. PMID:27669007
IMNGS: A comprehensive open resource of processed 16S rRNA microbial profiles for ecology and diversity studies. PMID:27659943
Evaluation of Fecal Microbiota Transfer as Treatment for Postweaning Diarrhea in Research-Colony Puppies. PMID:27657714
Composition of Ileal Bacterial Community in Grazing Goats Varies across Non-rumination, Transition and Rumination Stages of Life. PMID:27656165
Mothers Secretor Status Affects Development of Childrens Microbiota Composition and Function: A Pilot Study. PMID:27644050
Effects of Elevated Tropospheric Ozone Concentration on the Bacterial Community in the Phyllosphere and Rhizoplane of Rice. PMID:27643794
Rhizospheric Bacterial Community of Endemic Rhododendron arboreum Sm. Ssp. delavayi along Eastern Himalayan Slope in Tawang. PMID:27642287
Lactobacillus plantarum attenuates anxiety-related behavior and protects against stress-induced dysbiosis in adult zebrafish. PMID:27641717
Comparative Gut Microbiomes of Four Species Representing the Higher and the Lower Termites. PMID:27638955
High-fat diet modifies the PPAR-γ pathway leading to disruption of microbial and physiological ecosystem in murine small intestine. PMID:27638207
Rare taxa maintain microbial diversity and contribute to terrestrial community dynamics throughout bark beetle infestation. PMID:27637881
Neither vaginal nor buccal administration of 800 μg misoprostol alters mucosal and systemic immune activation or the cervicovaginal microbiome: a pilot study. PMID:27636701
Whole gut microbiome composition of damselfish and cardinalfish before and after reef settlement. PMID:27635360
A heritability-based comparison of methods used to cluster 16S rRNA gene sequences into operational taxonomic units. PMID:27635321
MetaStorm: A Public Resource for Customizable Metagenomics Annotation. PMID:27632579
Expanding the UniFrac Toolbox. PMID:27632205
Effects of captivity and artificial breeding on microbiota in feces of the red-crowned crane (Grus japonensis). PMID:27628212
Gut microbiome alterations in patients with stage 4 hepatitis C. PMID:27625705
Effects of exposure to bisphenol A and ethinyl estradiol on the gut microbiota of parents and their offspring in a rodent model. PMID:27624382
Diversity, Biogeography, and Biodegradation Potential of Actinobacteria in the Deep-Sea Sediments along the Southwest Indian Ridge. PMID:27621725
rRNAFilter: A Fast Approach for Ribosomal RNA Read Removal Without a Reference Database. PMID:27610931
The Salivary Microbiome in Polycystic Ovary Syndrome (PCOS) and Its Association with Disease-Related Parameters: A Pilot Study. PMID:27610099
Bamboo shoot fiber prevents obesity in mice by modulating the gut microbiota. PMID:27599699
Microbial Diversity in Sediment Ecosystems (Evaporites Domes, Microbial Mats, and Crusts) of Hypersaline Laguna Tebenquiche, Salar de Atacama, Chile. PMID:27597845
The Core Gut Microbiome of the American Cockroach, Periplaneta americana, Is Stable and Resilient to Dietary Shifts. PMID:27590811
Pika Gut May Select for Rare but Diverse Environmental Bacteria. PMID:27582734
Honey Bee Gut Microbiome Is Altered by In-Hive Pesticide Exposures. PMID:27579024
Captivity humanizes the primate microbiome. PMID:27573830
Pronounced daily succession of phytoplankton, archaea and bacteria following a spring bloom. PMID:27572439
Detailed methods of two home-based vegetable gardening intervention trials to improve diet, physical activity, and quality of life in two different populations of cancer survivors. PMID:27565830
Sedimentary DNA Reveals Cyanobacterial Community Diversity over 200 Years in Two Perialpine Lakes. PMID:27565621
Distinct Bacterial Microbiomes in Sexual and Asexual Potamopyrgus antipodarum, a New Zealand Freshwater Snail. PMID:27563725
Diversity and function of prevalent symbiotic marine bacteria in the genus Endozoicomonas. PMID:27557714
The Core and Seasonal Microbiota of Raw Bovine Milk in Tanker Trucks and the Impact of Transfer to a Milk Processing Facility. PMID:27555305
Considerations For Optimizing Microbiome Analysis Using a Marker Gene. PMID:27551678
A shift from exploitation to interference competition with increasing density affects population and community dynamics. PMID:27551386
16S rRNA analysis provides evidence of biofilms on all components of three infected periprosthetic knees including permanent braided suture. PMID:27549423
Evidence and Role for Bacterial Mucin Degradation in Cystic Fibrosis Airway Disease. PMID:27548479
Culture Independent Genomic Comparisons Reveal Environmental Adaptations for Altiarchaeales. PMID:27547202
Resolvin E1 Reverses Experimental Periodontitis and Dysbiosis. PMID:27543615
Local Environmental Factors Drive Divergent Grassland Soil Bacterial Communities in the Western Swiss Alps. PMID:27542929
Nematicidal spore-forming Bacilli share similar virulence factors and mechanisms. PMID:27539267
Resolving microbial membership using Abundance and Variability In Taxonomy ('AVIT ). PMID:27530237
Common methods for fecal sample storage in field studies yield consistent signatures of individual identity in microbiome sequencing data. PMID:27528013
Dual epithelial and immune cell function of Dvl1 regulates gut microbiota composition and intestinal homeostasis. PMID:27525310
Vaccinating with conserved Escherichia coli antigens does not alter the mouse intestinal microbiome. PMID:27514618
Diet Diversity Is Associated with Beta but not Alpha Diversity of Pika Gut Microbiota. PMID:27512391
16S rRNA amplicon sequencing dataset for conventionalized and conventionally raised zebrafish larvae. PMID:27508247
Changes in the Structure of the Microbial Community Associated with Nannochloropsis salina following Treatments with Antibiotics and Bioactive Compounds. PMID:27507966
Non-absorbable apple procyanidins prevent obesity associated with gut microbial and metabolomic changes. PMID:27506289
Oral microbial community typing of caries and pigment in primary dentition. PMID:27495902
Patterns of bacterial biodiversity in the glacial meltwater streams of the McMurdo Dry Valleys, Antarctica. PMID:27495241
Metatranscriptional Response of Chemoautotrophic Ifremeria nautilei Endosymbionts to Differing Sulfur Regimes. PMID:27486438
A high-resolution map of the gut microbiota in Atlantic salmon (Salmo salar): A basis for comparative gut microbial research. PMID:27485205
Inclusion of Konjac Flour in the Gestation Diet Changes the Gut Microbiota, Alleviates Oxidative Stress, and Improves Insulin Sensitivity in Sows. PMID:27474722
High-Level Culturability of Epiphytic Bacteria and Frequency of Biosurfactant Producers on Leaves. PMID:27474719
Microbial diversity in individuals and their household contacts following typical antibiotic courses. PMID:27473422
Altered gut microbiota in Rett syndrome. PMID:27473171
Coupling among Microbial Communities, Biogeochemistry, and Mineralogy across Biogeochemical Facies. PMID:27469056
Characterizing human lung tissue microbiota and its relationship to epidemiological and clinical features. PMID:27468850
Identification and genome reconstruction of abundant distinct taxa in microbiomes from one thermophilic and three mesophilic production-scale biogas plants. PMID:27462367
Comparison and Interpretation of Taxonomical Structure of Bacterial Communities in Two Types of Lakes on Yun-Gui plateau of China. PMID:27461070
A snapshot of the microbiome of Amblyomma tuberculatum ticks infesting the gopher tortoise, an endangered species. PMID:27460902
The Microbial Signature Provides Insight into the Mechanistic Basis of Coral Success across Reef Habitats. PMID:27460792
Effects of Lead and Mercury on Sulfate-Reducing Bacterial Activity in a Biological Process for Flue Gas Desulfurization Wastewater Treatment. PMID:27455890
Dysfunctional gut microbiota and relative co-abundance network in infantile eczema. PMID:27453732
Death Becomes Them: Bacterial Community Dynamics and Stilbene Antibiotic Production in Cadavers of Galleria mellonella Killed by Heterorhabditis and Photorhabdus spp. PMID:27451445
Immune Response and Mortality Risk Relate to Distinct Lung Microbiomes in Patients with HIV and Pneumonia. PMID:27447987
Biliary Microbiota, Gallstone Disease and Infection with Opisthorchis felineus. PMID:27447938
Effects of Short-Term Warming and Altered Precipitation on Soil Microbial Communities in Alpine Grassland of the Tibetan Plateau. PMID:27446064
Insights into Abundant Rumen Ureolytic Bacterial Community Using Rumen Simulation System. PMID:27446045
Taxonomic Assessment of Rumen Microbiota Using Total RNA and Targeted Amplicon Sequencing Approaches. PMID:27446027
A Modified SDS-Based DNA Extraction Method for High Quality Environmental DNA from Seafloor Environments. PMID:27446026
Flow Cytometric and 16S Sequencing Methodologies for Monitoring the Physiological Status of the Microbiome in Powdered Infant Formula Production. PMID:27446009
Substrate-Driven Convergence of the Microbial Community in Lignocellulose-Amended Enrichments of Gut Microflora from the Canadian Beaver (Castor canadensis) and North American Moose (Alces americanus). PMID:27446004
Nutrient Deprivation Affects Salmonella Invasion and Its Interaction with the Gastrointestinal Microbiota. PMID:27437699
Identification of Oligosaccharides in Feces of Breast-fed Infants and Their Correlation with the Gut Microbial Community. PMID:27435585
Effects of Arabinoxylan and Resistant Starch on Intestinal Microbiota and Short-Chain Fatty Acids in Subjects with Metabolic Syndrome: A Randomised Crossover Study. PMID:27434092
Effects of Predation by Protists on Prokaryotic Community Function, Structure, and Diversity in Anaerobic Granular Sludge. PMID:27431197
Effects of Organic-Loading-Rate Reduction on Sludge Biomass and Microbial Community in a Deteriorated Pilot-Scale Membrane Bioreactor. PMID:27431196
Characterization of three plant biomass-degrading microbial consortia by metagenomics- and metasecretomics-based approaches. PMID:27418359
Bacterial Community Structure at the Microscale in Two Different Soils. PMID:27418177
Cyanobacterial diversity of western European biological soil crusts along a latitudinal gradient. PMID:27411981
Analysis of the mouse gut microbiome using full-length 16S rRNA amplicon sequencing. PMID:27411898
The Gut Microbiota from Lean and Obese Subjects Contribute Differently to the Fermentation of Arabinogalactan and Inulin. PMID:27410967
Human gut microbes impact host serum metabolome and insulin sensitivity. PMID:27409811
Multiplex amplicon sequencing for microbe identification in community-based culture collections. PMID:27404280
Host genotype and age shape the leaf and root microbiomes of a wild perennial plant. PMID:27402057
Addition of arabinoxylan and mixed linkage glucans in porcine diets affects the large intestinal bacterial populations. PMID:27401929
Deep divergence and rapid evolutionary rates in gut-associated Acetobacteraceae of ants. PMID:27400652
MAIT, MR1, microbes and riboflavin: a paradigm for the co-evolution of invariant TCRs and restricting MHCI-like molecules? PMID:27393664
Dietary silver nanoparticles can disturb the gut microbiota in mice. PMID:27393559
Structural Change in Microbiota by a Probiotic Cocktail Enhances the Gut Barrier and Reduces Cancer via TLR2 Signaling in a Rat Model of Colon Cancer. PMID:27384052
Diversity and Distribution of Prokaryotes within a Shallow-Water Pockmark Field. PMID:27379070
Temperature mediates continental-scale diversity of microbes in forest soils. PMID:27377774
Epimicrobiota Associated with the Decay and Recovery of Orbicella Corals Exhibiting Dark Spot Syndrome. PMID:27375605
Genome-Centric Analysis of Microbial Populations Enriched by Hydraulic Fracture Fluid Additives in a Coal Bed Methane Production Well. PMID:27375557
A Diverse Soil Microbiome Degrades More Crude Oil than Specialized Bacterial Assemblages Obtained in Culture. PMID:27371586
The gut microbiome of the sea urchin, Lytechinus variegatus, from its natural habitat demonstrates selective attributes of microbial taxa and predictive metabolic profiles. PMID:27368709
Biodiversity management of organic orchard enhances both ecological and economic profitability. PMID:27366643
Capturing the diversity of the human gut microbiota through culture-enriched molecular profiling. PMID:27363992
Unlocking the bacterial and fungal communities assemblages of sugarcane microbiome. PMID:27358031
PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets. PMID:27357721
The Microbiome and Metabolites in Fermented Pu-erh Tea as Revealed by High-Throughput Sequencing and Quantitative Multiplex Metabolite Analysis. PMID:27337135
Characterization of the microbiome of nipple aspirate fluid of breast cancer survivors. PMID:27324944
Could gut microbiota serve as prognostic biomarker associated with colorectal cancer patients' survival? A pilot study on relevant mechanism. PMID:27323816
Seasonality and Locality Affect the Diversity of Anopheles gambiae and Anopheles coluzzii Midgut Microbiota from Ghana. PMID:27322614
Host species identity, site and time drive temperate tree phyllosphere bacterial community structure. PMID:27316353
Molecular Properties of Guar Gum and Pectin Modify Cecal Bile Acids, Microbiota, and Plasma Lipopolysaccharide-Binding Protein in Rats. PMID:27315087
High-quality draft genome sequence of Flavobacterium suncheonense GH29-5(T) (DSM 17707(T)) isolated from greenhouse soil in South Korea, and emended description of Flavobacterium suncheonense GH29-5(T). PMID:27313837
Diversity, structure and convergent evolution of the global sponge microbiome. PMID:27306690
Associations among Wine Grape Microbiome, Metabolome, and Fermentation Behavior Suggest Microbial Contribution to Regional Wine Characteristics. PMID:27302757
Captivity results in disparate loss of gut microbial diversity in closely related hosts. PMID:27293630
Diet may influence the oral microbiome composition in cats. PMID:27277498
Complete genome sequence of the haloalkaliphilic, obligately chemolithoautotrophic thiosulfate and sulfide-oxidizing γ-proteobacterium Thioalkalimicrobium cyclicum type strain ALM 1 (DSM 14477(T)). PMID:27274784
Methanogen Diversity in Indigenous and Introduced Ruminant Species on the Tibetan Plateau. PMID:27274707
Lignocellulose-derived thin stillage composition and efficient biological treatment with a high-rate hybrid anaerobic bioreactor system. PMID:27274357
Surface-attached and suspended bacterial community structure as affected by C/N ratios: relationship between bacteria and fish production. PMID:27263011
Bacterial and Fungal Microbiota Changes Distinguish C. difficile Infection from Other Forms of Diarrhea: Results of a Prospective Inpatient Study. PMID:27252696
The Impact of Lactobacillus casei on the Composition of the Cecal Microbiota and Innate Immune System Is Strain Specific. PMID:27244133
Snapshot of a Bacterial Microbiome Shift during the Early Symptoms of a Massive Sponge Die-Off in the Western Mediterranean. PMID:27242765
Identification of Free-Living and Particle-Associated Microbial Communities Present in Hadal Regions of the Mariana Trench. PMID:27242695
Performance of 16s rDNA Primer Pairs in the Study of Rhizosphere and Endosphere Bacterial Microbiomes in Metabarcoding Studies. PMID:27242686
Genomic-Based Restriction Enzyme Selection for Specific Detection of Piscirickettsia salmonis by 16S rDNA PCR-RFLP. PMID:27242682
Sample Processing Impacts the Viability and Cultivability of the Sponge Microbiome. PMID:27242673
Metabolic Model-Based Integration of Microbiome Taxonomic and Metabolomic Profiles Elucidates Mechanistic Links between Ecological and Metabolic Variation. PMID:27239563
Detection of Antibiotic Resistance Genes in Source and Drinking Water Samples from a First Nations Community in Canada. PMID:27235436
Piglet nasal microbiota at weaning may influence the development of Glässer's disease during the rearing period. PMID:27230662
Taxonomer: an interactive metagenomics analysis portal for universal pathogen detection and host mRNA expression profiling. PMID:27224977
Cellular adhesiveness and cellulolytic capacity in Anaerolineae revealed by omics-based genome interpretation. PMID:27222666
BMPOS: a Flexible and User-Friendly Tool Sets for Microbiome Studies. PMID:27220974
Pulmonary Th17 Antifungal Immunity Is Regulated by the Gut Microbiome. PMID:27217583
Microbial modulation of behavior and stress responses in zebrafish larvae. PMID:27217102
Composition and function of the pediatric colonic mucosal microbiome in untreated patients with ulcerative colitis. PMID:27217061
Characterization of the bacterial and fungal microbiome in indoor dust and outdoor air samples: a pilot study. PMID:27213188
MetaTrans: an open-source pipeline for metatranscriptomics. PMID:27211518
Unique Microbial Phylotypes in Namib Desert Dune and Gravel Plain Fairy Circle Soils. PMID:27208111
Experimental Evolution on a Wild Mammal Species Results in Modifications of Gut Microbial Communities. PMID:27199960
Nitrogen Stimulates the Growth of Subsurface Basalt-associated Microorganisms at the Western Flank of the Mid-Atlantic Ridge. PMID:27199959
Metagenomics Reveals Pervasive Bacterial Populations and Reduced Community Diversity across the Alaska Tundra Ecosystem. PMID:27199914
Metagenomics, Metatranscriptomics, and Metabolomics Approaches for Microbiome Analysis. PMID:27199545
Increased GVHD-related mortality with broad-spectrum antibiotic use after allogeneic hematopoietic stem cell transplantation in human patients and mice. PMID:27194729
Integrative microbial community analysis reveals full-scale enhanced biological phosphorus removal under tropical conditions. PMID:27193869
Biogeography of sulfur-oxidizing Acidithiobacillus populations in extremely acidic cave biofilms. PMID:27187796
Immunization with a heat-killed preparation of the environmental bacterium Mycobacterium vaccae promotes stress resilience in mice. PMID:27185913
Intricacies of assessing the human microbiome in epidemiologic studies. PMID:27180112
Evaluating community-environment relationships along fine to broad taxonomic resolutions reveals evolutionary forces underlying community assembly. PMID:27177191
Dandruff is associated with the conjoined interactions between host and microorganisms. PMID:27172459
Bacterial and archaeal communities in the deep-sea sediments of inactive hydrothermal vents in the Southwest India Ridge. PMID:27169490
Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization. PMID:27168460
A Pathogen-Selective Antibiotic Minimizes Disturbance to the Microbiome. PMID:27161626
Rumen and Cecum Microbiomes in Reindeer (Rangifer tarandus tarandus) Are Changed in Response to a Lichen Diet and May Affect Enteric Methane Emissions. PMID:27159387
Improved metagenome assemblies and taxonomic binning using long-read circular consensus sequence data. PMID:27156482
Midgut Transcriptome of the Cockroach Periplaneta americana and Its Microbiota: Digestion, Detoxification and Oxidative Stress Response. PMID:27153200
A Novel Analysis Method for Paired-Sample Microbial Ecology Experiments. PMID:27152415
In vivo gene expression in a Staphylococcus aureus prosthetic joint infection characterized by RNA sequencing and metabolomics: a pilot study. PMID:27150914
Characterization of the Gut Microbiome Using 16S or Shotgun Metagenomics. PMID:27148170
Marker genes that are less conserved in their sequences are useful for predicting genome-wide similarity levels between closely related prokaryotic strains. PMID:27138046
Composition and Predicted Metabolic Capacity of Upper and Lower Airway Microbiota of Healthy Dogs in Relation to the Fecal Microbiota. PMID:27136381
Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity. PMID:27126040
Lingonberries alter the gut microbiota and prevent low-grade inflammation in high-fat diet fed mice. PMID:27125264
Pretreatment gut microbiome predicts chemotherapy-related bloodstream infection. PMID:27121964
High-intensity exercise training increases the diversity and metabolic capacity of the mouse distal gut microbiota during diet-induced obesity. PMID:27117007
Biochar, Bentonite and Zeolite Supplemented Feeding of Layer Chickens Alters Intestinal Microbiota and Reduces Campylobacter Load. PMID:27116607
Cervical Microbiome and Cytokine Profile at Various Stages of Cervical Cancer: A Pilot Study. PMID:27115350
A humanized microbiota mouse model of ovalbumin-induced lung inflammation. PMID:27115049
The influence of a short-term gluten-free diet on the human gut microbiome. PMID:27102333
Diversity and Temporal Dynamics of the Epiphytic Bacterial Communities Associated with the Canopy-Forming Seaweed Cystoseira compressa (Esper) Gerloff and Nizamuddin. PMID:27092130
Carrageenan Gum and Adherent Invasive Escherichia coli in a Piglet Model of Inflammatory Bowel Disease: Impact on Intestinal Mucosa-associated Microbiota. PMID:27092122
Coral-Associated Bacterial Diversity Is Conserved across Two Deep-Sea Anthothela Species. PMID:27092120
In Search of Alternative Antibiotic Drugs: Quorum-Quenching Activity in Sponges and their Bacterial Isolates. PMID:27092109
Olfactory epithelium changes in germfree mice. PMID:27089944
Body Site Is a More Determinant Factor than Human Population Diversity in the Healthy Skin Microbiome. PMID:27088867
Recurrent Clostridium difficile infection associates with distinct bile acid and microbiome profiles. PMID:27086647
Geochemical and Temporal Influences on the Enrichment of Acidophilic Iron-Oxidizing Bacterial Communities. PMID:27084004
Psyllium Fiber Reduces Abdominal Pain in Children With Irritable Bowel Syndrome in a Randomized, Double-Blind Trial. PMID:27080737
Bacterial communities of the cotton aphid Aphis gossypii associated with Bt cotton in northern China. PMID:27079679
Quantifying the Relative Importance of Phylogeny and Environmental Preferences As Drivers of Gene Content in Prokaryotic Microorganisms. PMID:27065987
The Features of Fecal and Ileal Mucosa-Associated Microbiota in Dairy Calves during Early Infection with Mycobacterium avium Subspecies paratuberculosis. PMID:27065983
Associations between Ectomycorrhizal Fungi and Bacterial Needle Endophytes in Pinus radiata: Implications for Biotic Selection of Microbial Communities. PMID:27065966
Understanding the Impact of Omega-3 Rich Diet on the Gut Microbiota. PMID:27065349
Temperature and Redox Effect on Mineral Colonization in Juan de Fuca Ridge Flank Subsurface Crustal Fluids. PMID:27064928
The Chthonomonas calidirosea Genome Is Highly Conserved across Geographic Locations and Distinct Chemical and Microbial Environments in New Zealand's Taupō Volcanic Zone. PMID:27060125
Restructuring of the Aquatic Bacterial Community by Hydric Dynamics Associated with Superstorm Sandy. PMID:27060115
Potential use of bacterial community succession for estimating post-mortem interval as revealed by high-throughput sequencing. PMID:27052375
Diversity and Metabolic Potentials of Subsurface Crustal Microorganisms from the Western Flank of the Mid-Atlantic Ridge. PMID:27047476
Composition and Interactions among Bacterial, Microeukaryotic, and T4-like Viral Assemblages in Lakes from Both Polar Zones. PMID:27047459
Biogeochemical and Microbial Variation across 5500 km of Antarctic Surface Sediment Implicates Organic Matter as a Driver of Benthic Community Structure. PMID:27047451
Recent and emerging innovations in Salmonella detection: a food and environmental perspective. PMID:27041363
Characterization of the gut microbiome in epidemiologic studies: the multiethnic cohort experience. PMID:27039047
Short-Term Exposure to Coal Combustion Waste Has Little Impact on the Skin Microbiome of Adult Spring Peepers (Pseudacris crucifer). PMID:27037118
Colony Location and Captivity Influence the Gut Microbial Community Composition of the Australian Sea Lion (Neophoca cinerea). PMID:27037116
Distinctly altered gut microbiota in the progression of liver disease. PMID:27036035
Birth mode-dependent association between pre-pregnancy maternal weight status and the neonatal intestinal microbiome. PMID:27033998
The Truffle Microbiome: Species and Geography Effects on Bacteria Associated with Fruiting Bodies of Hypogeous Pezizales. PMID:27026101
Microbial Diversity and Parasitic Load in Tropical Fish of Different Environmental Conditions. PMID:27018789
Comparison of Fermentation and Wines Produced by Inoculation of Hanseniaspora vineae and Saccharomyces cerevisiae. PMID:27014252
Vertebrate Hosts as Islands: Dynamics of Selection, Immigration, Loss, Persistence, and Potential Function of Bacteria on Salamander Skin. PMID:27014249
The microbiota-derived metabolite indole decreases mucosal inflammation and injury in a murine model of NSAID enteropathy. PMID:27007819
Absence of MHC class II on cDCs results in microbial-dependent intestinal inflammation. PMID:27001748
Presence of pathogenic Escherichia coli is correlated with bacterial community diversity and composition on pre-harvest cattle hides. PMID:27000779
Gut microbiome-derived metabolites modulate intestinal epithelial cell damage and mitigate graft-versus-host disease. PMID:26998764
Microbial community structure analysis of a benzoate-degrading halophilic archaeal enrichment. PMID:26995683
Variability of the Sheep Lung Microbiota. PMID:26994083
Helicobacter pylori Eradication Causes Perturbation of the Human Gut Microbiome in Young Adults. PMID:26991500
H2-saturation of high affinity H2-oxidizing bacteria alters the ecological niche of soil microorganisms unevenly among taxonomic groups. PMID:26989620
Metagenomic Analysis from the Interior of a Speleothem in Tjuv-Ante's Cave, Northern Sweden. PMID:26985997
RiboFR-Seq: a novel approach to linking 16S rRNA amplicon profiles to metagenomes. PMID:26984526
Heat-treated high-fat diet modifies gut microbiota and metabolic markers in apoe-/- mice. PMID:26973703
Epimural Indicator Phylotypes of Transiently-Induced Subacute Ruminal Acidosis in Dairy Cattle. PMID:26973642
Effect of Biostimulation Using Sewage Sludge, Soybean Meal, and Wheat Straw on Oil Degradation and Bacterial Community Composition in a Contaminated Desert Soil. PMID:26973618
Biological Phosphorus Removal During High-Rate, Low-Temperature, Anaerobic Digestion of Wastewater. PMID:26973608
MiSeq HV4 16S rRNA gene analysis of bacterial community composition among the cave sediments of Indo-Burma biodiversity hotspot. PMID:26971799
Discovery of a Novel Seminal Fluid Microbiome and Influence of Estrogen Receptor Alpha Genetic Status. PMID:26971397
A metabarcoding framework for facilitated survey of endolithic phototrophs with tufA. PMID:26965054
Longitudinal Analysis of Microbiota in Microalga Nannochloropsis salina Cultures. PMID:26956183
Investigation of Microbial Diversity in Geothermal Hot Springs in Unkeshwar, India, Based on 16S rRNA Amplicon Metagenome Sequencing. PMID:26950332
Airborne Bacterial Diversity from the Low Atmosphere of Greater Mexico City. PMID:26944561
Capturing the most wanted taxa through cross-sample correlations. PMID:26943627
Seasonal Dynamics of the Airborne Bacterial Community and Selected Viruses in a Children's Daycare Center. PMID:26942410
Rearing Room Affects the Non-dominant Chicken Cecum Microbiota, While Diet Affects the Dominant Microbiota. PMID:26942187
Effects of Fecal Microbial Transplantation on Microbiome and Immunity in Simian Immunodeficiency Virus-Infected Macaques. PMID:26937040
Responses of microbial community from tropical pristine coastal soil to crude oil contamination. PMID:26925341
Influence of whole-wheat consumption on fecal microbial community structure of obese diabetic mice. PMID:26925326
Bacteria within the Gastrointestinal Tract Microbiota Correlated with Improved Growth and Feed Conversion: Challenges Presented for the Identification of Performance Enhancing Probiotic Bacteria. PMID:26925052
Characterization of the Core and Caste-Specific Microbiota in the Termite, Reticulitermes flavipes. PMID:26925043
Expansion of Microbial Forensics. PMID:26912746
Intestinal microbiome disruption in patients in a long-term acute care hospital: A case for development of microbiome disruption indices to improve infection prevention. PMID:26905790
High Molecular Weight Barley β-Glucan Alters Gut Microbiota Toward Reduced Cardiovascular Disease Risk. PMID:26904005
Composition of fecal microbiota of laboratory mice derived from Japanese commercial breeders using 16S rRNA gene clone libraries. PMID:26902692
Research Techniques Made Simple: Bacterial 16S Ribosomal RNA Gene Sequencing in Cutaneous Research. PMID:26902128
Diversity, Productivity, and Stability of an Industrial Microbial Ecosystem. PMID:26896141
Estimates of Soil Bacterial Ribosome Content and Diversity Are Significantly Affected by the Nucleic Acid Extraction Method Employed. PMID:26896137
Bacterial ecology of abattoir wastewater treated by an anaerobic digestor. PMID:26887229
Gut Microbiota Predict Pulmonary Infiltrates after Allogeneic Hematopoietic Cell Transplantation. PMID:26886180
Microbial Community Profile and Water Quality in a Protected Area of the Caatinga Biome. PMID:26881432
Obesity-Dependent Increases in Oocyte mRNAs Are Associated With Increases in Proinflammatory Signaling and Gut Microbial Abundance of Lachnospiraceae in Female Mice. PMID:26881311
FN-Identify: Novel Restriction Enzymes-Based Method for Bacterial Identification in Absence of Genome Sequencing. PMID:26880910
Effects of neutrophils peptide-1 transgenic Chlorella ellipsoidea on the gut microbiota of male Sprague-Dawley rats, as revealed by high-throughput 16S rRNA sequencing. PMID:26873554
Risperidone-induced weight gain is mediated through shifts in the gut microbiome and suppression of energy expenditure. PMID:26870798
Microbiome of the paranasal sinuses: Update and literature review. PMID:26867525
The Effects of Bowel Preparation on Microbiota-Related Metrics Differ in Health and in Inflammatory Bowel Disease and for the Mucosal and Luminal Microbiota Compartments. PMID:26866392
Lower Neighborhood Socioeconomic Status Associated with Reduced Diversity of the Colonic Microbiota in Healthy Adults. PMID:26859894
High-resolution phylogenetic microbial community profiling. PMID:26859772
Assessment of the Microbial Constituents of the Home Environment of Individuals with Cystic Fibrosis (CF) and Their Association with Lower Airways Infections. PMID:26859493
The Metagenome of Utricularia gibba's Traps: Into the Microbial Input to a Carnivorous Plant. PMID:26859489
Bacterioplankton Dynamics within a Large Anthropogenically Impacted Urban Estuary. PMID:26858690
High-throughput sequencing reveals the core gut microbiome of Bar-headed goose (Anser indicus) in different wintering areas in Tibet. PMID:26842811
Grain-rich diets altered the colonic fermentation and mucosa-associated bacterial communities and induced mucosal injuries in goats. PMID:26841945
Evolution of the microbial community of the biofilm in a methane-based membrane biofilm reactor reducing multiple electron acceptors. PMID:26841777
Marine mammals harbor unique microbiotas shaped by and yet distinct from the sea. PMID:26839246
Immunogenicity and protective efficacy of recombinant Clostridium difficile flagellar protein FliC. PMID:26839147
Responses of Soil Bacterial Communities to Nitrogen Deposition and Precipitation Increment Are Closely Linked with Aboveground Community Variation. PMID:26838999
New multi-scale perspectives on the stromatolites of Shark Bay, Western Australia. PMID:26838605
Spatial isolation and environmental factors drive distinct bacterial and archaeal communities in different types of petroleum reservoirs in China. PMID:26838035
Development of the Chick Microbiome: How Early Exposure Influences Future Microbial Diversity. PMID:26835461
Comparative studies of the composition of bacterial microbiota associated with the ruminal content, ruminal epithelium and in the faeces of lactating dairy cows. PMID:26833450
Skin Microbiome Surveys Are Strongly Influenced by Experimental Design. PMID:26829039
Ecological Genomics of the Uncultivated Marine Roseobacter Lineage CHAB-I-5. PMID:26826224
Species-level resolution of 16S rRNA gene amplicons sequenced through the MinION™ portable nanopore sequencer. PMID:26823973
Depletion of regulatory T cells leads to an exacerbation of delayed-type hypersensitivity arthritis in C57BL/6 mice that can be counteracted by IL-17 blockade. PMID:26822477
Stochastic neutral modelling of the Gut Microbiota's relative species abundance from next generation sequencing data. PMID:26821617
The impact of freeze-drying infant fecal samples on measures of their bacterial community profiles and milk-derived oligosaccharide content. PMID:26819854
Microbial diversity drives multifunctionality in terrestrial ecosystems. PMID:26817514
Transition from freshwater to seawater reshapes the skin-associated microbiota of Atlantic salmon. PMID:26806545
Detecting Microbial Dysbiosis Associated with Pediatric Crohn Disease Despite the High Variability of the Gut Microbiota. PMID:26804920
Effect of organic carbon and metal accumulation on the bacterial communities in sulphidogenic sediments. PMID:26780045
Distribution of Root-Associated Bacterial Communities Along a Salt-Marsh Primary Succession. PMID:26779222
An evaluation of the accuracy and speed of metagenome analysis tools. PMID:26778510
REPRODUCIBLE RESEARCH WORKFLOW IN R FOR THE ANALYSIS OF PERSONALIZED HUMAN MICROBIOME DATA. PMID:26776185
Shifts in diversity and function of lake bacterial communities upon glacier retreat. PMID:26771929
Increased water contamination and grow-out Pekin duck mortality when raised with water troughs compared to pin-metered water lines using a United States management system. PMID:26769272
Diversity and evolution of the primate skin microbiome. PMID:26763711
Culex pipiens and Culex restuans mosquitoes harbor distinct microbiota dominated by few bacterial taxa. PMID:26762514
Host-associated coral reef microbes respond to the cumulative pressures of ocean warming and ocean acidification. PMID:26758800
Bacterial microbiome of breast milk and child saliva from low-income Mexican-American women and children. PMID:26756784
Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome. PMID:26755604
Surfactant-associated bacteria in the near-surface layer of the ocean. PMID:26753514
Intestinal Microbiota in Patients with Spinal Cord Injury. PMID:26752409
Microbial and Functional Diversity within the Phyllosphere of Espeletia Species in an Andean High-Mountain Ecosystem. PMID:26746719
Resistant Starch Alters the Microbiota-Gut Brain Axis: Implications for Dietary Modulation of Behavior. PMID:26745269
The Impact of Dietary Energy Intake Early in Life on the Colonic Microbiota of Adult Mice. PMID:26744222
The Road to Metagenomics: From Microbiology to DNA Sequencing Technologies and Bioinformatics. PMID:26734060
Transplanting Soil Microbiomes Leads to Lasting Effects on Willow Growth, but not on the Rhizosphere Microbiome. PMID:26733977
The role of the intestinal microbiota in type 1 diabetes mellitus. PMID:26729037
Probiotic treatment reduces appetite and glucose level in the zebrafish model. PMID:26727958
Pglyrp-Regulated Gut Microflora Prevotella falsenii, Parabacteroides distasonis and Bacteroides eggerthii Enhance and Alistipes finegoldii Attenuates Colitis in Mice. PMID:26727498
Lactobacilli with probiotic potential in the prairie vole (Microtus ochrogaster). PMID:26719773
The Effect of Lactobacillus casei 32G on the Mouse Cecum Microbiota and Innate Immune Response Is Dose and Time Dependent. PMID:26714177
BioDry: An Inexpensive, Low-Power Method to Preserve Aquatic Microbial Biomass at Room Temperature. PMID:26710122
Selective Spectrum Antibiotic Modulation of the Gut Microbiome in Obesity and Diabetes Rodent Models. PMID:26709835
Bacterial Profiling Reveals Novel "Ca. Neoehrlichia", Ehrlichia, and Anaplasma Species in Australian Human-Biting Ticks. PMID:26709826
Development of gut inflammation in mice colonized with mucosa-associated bacteria from patients with ulcerative colitis. PMID:26697117
Bacterial Exchange in Household Washing Machines. PMID:26696989
The Metabolically Active Bacterial Microbiome of Tonsils and Mandibular Lymph Nodes of Slaughter Pigs. PMID:26696976
Potential association of vacuum cleaning frequency with an altered gut microbiota in pregnant women and their 2-year-old children. PMID:26687338
Comparative Analysis of Prokaryotic Communities Associated with Organic and Conventional Farming Systems. PMID:26684619
Gut Microbiome Diversity among Cheyenne and Arapaho Individuals from Western Oklahoma. PMID:26671671
Salmonella enterica Serovars Enteritidis Infection Alters the Indigenous Microbiota Diversity in Young Layer Chicks. PMID:26664988
Metagenomics: Retrospect and Prospects in High Throughput Age. PMID:26664751
Buccal administration of human colostrum: impact on the oral microbiota of premature infants. PMID:26658119
Impact of oil spills on coral reefs can be reduced by bioremediation using probiotic microbiota. PMID:26658023
A New N-Acyl Homoserine Lactone Synthase in an Uncultured Symbiont of the Red Sea Sponge Theonella swinhoei. PMID:26655754
Relative and contextual contribution of different sources to the composition and abundance of indoor air bacteria in residences. PMID:26653310
Improved taxonomic assignment of human intestinal 16S rRNA sequences by a dedicated reference database. PMID:26651617
Increasing aridity reduces soil microbial diversity and abundance in global drylands. PMID:26647180
Oral Microbiota and Risk for Esophageal Squamous Cell Carcinoma in a High-Risk Area of China. PMID:26641451
Microbial communities reflect temporal changes in cyanobacterial composition in a shallow ephemeral freshwater lake. PMID:26636552
riboFrame: An Improved Method for Microbial Taxonomy Profiling from Non-Targeted Metagenomics. PMID:26635865
Integrated 'Omics', Targeted Metabolite and Single-cell Analyses of Arctic Snow Algae Functionality and Adaptability. PMID:26635781
Differences in Intertidal Microbial Assemblages on Urban Structures and Natural Rocky Reef. PMID:26635747
Functional overlap of the Arabidopsis leaf and root microbiota. PMID:26633631
Functional Metagenomics of the Bronchial Microbiome in COPD. PMID:26632844
Pyrosequencing reveals bacterial diversity in Korean traditional wheat-based nuruk. PMID:26626351
Metagenomic Classification Using an Abstraction Augmented Markov Model. PMID:26618474
Peptidomic analysis reveals proteolytic activity of kefir microorganisms on bovine milk proteins. PMID:26616950
Influence of Flaxseed Oil on Fecal Microbiota, Egg Quality and Fatty Acid Composition of Egg Yolks in Laying Hens. PMID:26613617
Aflatoxin B1 Induced Compositional Changes in Gut Microbial Communities of Male F344 Rats. PMID:26612839
Potential applications of next generation DNA sequencing of 16S rRNA gene amplicons in microbial water quality monitoring. PMID:26606090
Antepartum Antibiotic Treatment Increases Offspring Susceptibility to Experimental Colitis: A Role of the Gut Microbiota. PMID:26605545
Collecting Fecal Samples for Microbiome Analyses in Epidemiology Studies. PMID:26604270
Gravidas with class III obesity: evaluating the abdominal skin microbiota above and below the panniculus (.). PMID:26600277
Comparative Evaluation of DNA Extraction Methods from Feces of Multiple Host Species for Downstream Next-Generation Sequencing. PMID:26599606
Geospatial Resolution of Human and Bacterial Diversity with City-Scale Metagenomics. PMID:26594662
Characterizing the fecal microbiota of infants with botulism. PMID:26593441
Establishment of Bacterial Herbicide Degraders in a Rapid Sand Filter for Bioremediation of Phenoxypropionate-Polluted Groundwater. PMID:26590282
Microbiome composition and geochemical characteristics of deep subsurface high-pressure environment, Pyhäsalmi mine Finland. PMID:26579109
Cross-biome comparison of microbial association networks. PMID:26579106
Panamanian frog species host unique skin bacterial communities. PMID:26579083
Iron Modulates Butyrate Production by a Child Gut Microbiota In Vitro. PMID:26578675
Host Genetic Control of the Microbiota Mediates the Drosophila Nutritional Phenotype. PMID:26567306
Decreases in average bacterial community rRNA operon copy number during succession. PMID:26565722
Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification. PMID:26563586
Methanosarcina Play an Important Role in Anaerobic Co-Digestion of the Seaweed Ulva lactuca: Taxonomy and Predicted Metabolism of Functional Microbial Communities. PMID:26555136
Chemostat culture systems support diverse bacteriophage communities from human feces. PMID:26549756
Endometrial microbiome at the time of embryo transfer: next-generation sequencing of the 16S ribosomal subunit. PMID:26547201
Probiotic Administration in Infants With Gastroschisis: A Pilot Randomized Placebo-Controlled Trial. PMID:26545203
Lung Microbiota Changes Associated with Chronic Pseudomonas aeruginosa Lung Infection and the Impact of Intravenous Colistimethate Sodium. PMID:26544950
Key Edaphic Properties Largely Explain Temporal and Geographic Variation in Soil Microbial Communities across Four Biomes. PMID:26536666
Arsenic induces structural and compositional colonic microbiome change and promotes host nitrogen and amino acid metabolism. PMID:26529668
Effects of sludge inoculum and organic feedstock on active microbial communities and methane yield during anaerobic digestion. PMID:26528262
Patterns of benthic bacterial diversity in coastal areas contaminated by heavy metals, polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs). PMID:26528247
Characterising the bacterial microbiota across the gastrointestinal tracts of dairy cattle: membership and potential function. PMID:26527325
The commensal infant gut meta-mobilome as a potential reservoir for persistent multidrug resistance integrons. PMID:26507767
Plant Invasions Associated with Change in Root-Zone Microbial Community Structure and Diversity. PMID:26505627
Microbiomes of the dust particles collected from the International Space Station and Spacecraft Assembly Facilities. PMID:26502721
Niche differentiation of bacterial communities at a millimeter scale in Shark Bay microbial mats. PMID:26499760
Microbiome shifts and the inhibition of quorum sensing by Black Band Disease cyanobacteria. PMID:26495995
The rumen microbial metagenome associated with high methane production in cattle. PMID:26494241
Illumina-based analysis of bacterial community in Khuangcherapuk cave of Mizoram, Northeast India. PMID:26484212
Investigations on microbial diversity of Jakrem hot spring, Meghalaya, India using cultivation-independent approach. PMID:26484205
First report of bacterial community from a Bat Guano using Illumina next-generation sequencing. PMID:26484190
TNFR2 Deficiency Acts in Concert with Gut Microbiota To Precipitate Spontaneous Sex-Biased Central Nervous System Demyelinating Autoimmune Disease. PMID:26475926
Microbial Community Analysis with Ribosomal Gene Fragments from Shotgun Metagenomes. PMID:26475107
The development and application of a molecular community profiling strategy to identify polymicrobial bacterial DNA in the whole blood of septic patients. PMID:26474751
Characterization of the stromatolite microbiome from Little Darby Island, The Bahamas using predictive and whole shotgun metagenomic analysis. PMID:26471001
The relationship between microbial community evenness and function in slow sand filters. PMID:26463159
Harnessing the landscape of microbial culture media to predict new organism-media pairings. PMID:26460590
Microbiota of the indoor environment: a meta-analysis. PMID:26459172
Comprehensive Meta-analysis of Ontology Annotated 16S rRNA Profiles Identifies Beta Diversity Clusters of Environmental Bacterial Communities. PMID:26458130
Intestinal microbiota modulates gluten-induced immunopathology in humanized mice. PMID:26456581
Longitudinal analysis reveals characteristically high proportions of bacterial vaginosis-associated bacteria and temporal variability of vaginal microbiota in northern pig-tailed macaques (Macaca leonina). PMID:26452693
SPINGO: a rapid species-classifier for microbial amplicon sequences. PMID:26450747
Draft Genome Sequence of Bacteroidales Strain TBC1, a Novel Isolate from a Methanogenic Wastewater Treatment System. PMID:26450737
Draft Genome Sequence of Bacteroidales Strain 6E, Isolated from a Rice Paddy Field in Japan. PMID:26450736
DectICO: an alignment-free supervised metagenomic classification method based on feature extraction and dynamic selection. PMID:26446672
Community Structure and Function of Amphibian Skin Microbes: An Experiment with Bullfrogs Exposed to a Chytrid Fungus. PMID:26445500
Habitat fragmentation is associated to gut microbiota diversity of an endangered primate: implications for conservation. PMID:26445280
Profiling the Succession of Bacterial Communities throughout the Life Stages of a Higher Termite Nasutitermes arborum (Termitidae, Nasutitermitinae) Using 16S rRNA Gene Pyrosequencing. PMID:26444989
Bacterial endophyte communities in the foliage of coast redwood and giant sequoia. PMID:26441933
Co-occurrence of Methanosarcina mazei and Geobacteraceae in an iron (III)-reducing enrichment culture. PMID:26441876
Phylogenetic approaches to microbial community classification. PMID:26437943
An accurate and efficient experimental approach for characterization of the complex oral microbiota. PMID:26437933
Passive dust collectors for assessing airborne microbial material. PMID:26434807
Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering. PMID:26434730
Landscape position influences microbial composition and function via redistribution of soil water across a watershed. PMID:26431971
Robust species taxonomy assignment algorithm for 16S rRNA NGS reads: application to oral carcinoma samples. PMID:26426306
Active Microbial Communities Inhabit Sulphate-Methane Interphase in Deep Bedrock Fracture Fluids in Olkiluoto, Finland. PMID:26425566
Humans differ in their personal microbial cloud. PMID:26417541
Massively parallel sequencing of single cells by epicPCR links functional genes with phylogenetic markers. PMID:26394010
Growth rates and rRNA content of four marine bacteria in pure cultures and in the Delaware estuary. PMID:26394004
Baleen whales host a unique gut microbiome with similarities to both carnivores and herbivores. PMID:26393325
High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7(T), and emended description of the genus Halotalea. PMID:26380640
Abundant Atribacteria in deep marine sediment from the Adélie Basin, Antarctica. PMID:26379647
Co-Administration of Cholesterol-Lowering Probiotics and Anthraquinone from Cassia obtusifolia L. Ameliorate Non-Alcoholic Fatty Liver. PMID:26375281
Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning. PMID:26368049
The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids. PMID:26358192
Characterization of the In Situ Ecophysiology of Novel Phylotypes in Nutrient Removal Activated Sludge Treatment Plants. PMID:26340564
Magnetotactic bacteria population in a pristine French Atlantic lagoon. PMID:26335530
Distinct but Spatially Overlapping Intestinal Niches for Vancomycin-Resistant Enterococcus faecium and Carbapenem-Resistant Klebsiella pneumoniae. PMID:26334306
Shifts in the Midgut/Pyloric Microbiota Composition within a Honey Bee Apiary throughout a Season. PMID:26330094
Dynamics of an experimental microbial invasion. PMID:26324928
Gut Microbial Dysbiosis Due to Helicobacter Drives an Increase in Marginal Zone B Cells in the Absence of IL-10 Signaling in Macrophages. PMID:26324769
Metagenomic Analysis of Chicken Gut Microbiota for Improving Metabolism and Health of Chickens - A Review. PMID:26323514
Pregnancy-related changes in the maternal gut microbiota are dependent upon the mother's periconceptional diet. PMID:26322500
Human milk oligosaccharides in premature infants: absorption, excretion, and influence on the intestinal microbiota. PMID:26322410
Microbial community profiles of the colon from steers differing in feed efficiency. PMID:26322260
Cohort profile: LifeLines DEEP, a prospective, general population cohort study in the northern Netherlands: study design and baseline characteristics. PMID:26319774
Rapid Change of Microbiota Diversity in the Gut but Not the Hepatopancreas During Gonadal Development of the New Shrimp Model Neocaridina denticulata. PMID:26319409
Effects of Long Term Antibiotic Therapy on Human Oral and Fecal Viromes. PMID:26309137
Composition and Diversity of the Fecal Microbiome and Inferred Fecal Metagenome Does Not Predict Subsequent Pneumonia Caused by Rhodococcus equi in Foals. PMID:26305682
Physical Activity Differentially Affects the Cecal Microbiota of Ovariectomized Female Rats Selectively Bred for High and Low Aerobic Capacity. PMID:26301712
Primer and platform effects on 16S rRNA tag sequencing. PMID:26300854
Xylooligosaccharide supplementation alters gut bacteria in both healthy and prediabetic adults: a pilot study. PMID:26300782
Microbial Communities Can Be Described by Metabolic Structure: A General Framework and Application to a Seasonally Variable, Depth-Stratified Microbial Community from the Coastal West Antarctic Peninsula. PMID:26285202
A Comparison between Transcriptome Sequencing and 16S Metagenomics for Detection of Bacterial Pathogens in Wildlife. PMID:26284930
Diet- and Genetically-Induced Obesity Differentially Affect the Fecal Microbiome and Metabolome in Apc1638N Mice. PMID:26284788
Bacterial Diversity Associated with the Coccolithophorid Algae Emiliania huxleyi and Coccolithus pelagicus f. braarudii. PMID:26273594
The activated sludge ecosystem contains a core community of abundant organisms. PMID:26262816
Marine bacterial community structure resilience to changes in protist predation under phytoplankton bloom conditions. PMID:26262814
Bacterial diversity differences along an epigenic cave stream reveal evidence of community dynamics, succession, and stability. PMID:26257715
Glycomacropeptide is a prebiotic that reduces Desulfovibrio bacteria, increases cecal short-chain fatty acids, and is anti-inflammatory in mice. PMID:26251473
Multiple Opportunistic Pathogens, but Not Pre-existing Inflammation, May Be Associated with Necrotizing Enterocolitis. PMID:26250832
Rescue of Fructose-Induced Metabolic Syndrome by Antibiotics or Faecal Transplantation in a Rat Model of Obesity. PMID:26244577
Identification of Candidate Coral Pathogens on White Band Disease-Infected Staghorn Coral. PMID:26241853
Meat Processing Plant Microbiome and Contamination Patterns of Cold-Tolerant Bacteria Causing Food Safety and Spoilage Risks in the Manufacture of Vacuum-Packaged Cooked Sausages. PMID:26231646
Illumina MiSeq Phylogenetic Amplicon Sequencing Shows a Large Reduction of an Uncharacterised Succinivibrionaceae and an Increase of the Methanobrevibacter gottschalkii Clade in Feed Restricted Cattle. PMID:26226343
MetaBoot: a machine learning framework of taxonomical biomarker discovery for different microbial communities based on metagenomic data. PMID:26213658
Characterization of para-Nitrophenol-Degrading Bacterial Communities in River Water by Using Functional Markers and Stable Isotope Probing. PMID:26209677
Topographical Mapping of the Rainbow Trout (Oncorhynchus mykiss) Microbiome Reveals a Diverse Bacterial Community with Antifungal Properties in the Skin. PMID:26209676
Complex coupled metabolic and prokaryotic community responses to increasing temperatures in anaerobic marine sediments: critical temperatures and substrate changes. PMID:26207045
Genome sequence of the Roseovarius mucosus type strain (DSM 17069(T)), a bacteriochlorophyll a-containing representative of the marine Roseobacter group isolated from the dinoflagellate Alexandrium ostenfeldii. PMID:26203330
High quality draft genome sequence and analysis of Pontibacter roseus type strain SRC-1(T) (DSM 17521(T)) isolated from muddy waters of a drainage system in Chandigarh, India. PMID:26203325
An insight into the functional role of thioredoxin reductase, a selenoprotein, in maintaining normal native microbiota in the Gulf Coast tick (Amblyomma maculatum). PMID:26184979
Genome Diversity of Spore-Forming Firmicutes. PMID:26184964
Gut microbiota mediate caffeine detoxification in the primary insect pest of coffee. PMID:26173063
Sedimentation Pulse in the NE Gulf of Mexico following the 2010 DWH Blowout. PMID:26172639
Virulence genes are a signature of the microbiome in the colorectal tumor microenvironment. PMID:26170900
Potassium permanganate elicits a shift of the external fish microbiome and increases host susceptibility to columnaris disease. PMID:26170019
Most of the Dominant Members of Amphibian Skin Bacterial Communities Can Be Readily Cultured. PMID:26162880
Attenuation of Colitis by Lactobacillus casei BL23 Is Dependent on the Dairy Delivery Matrix. PMID:26162873
Deep Characterization of the Microbiomes of Calophya spp. (Hemiptera: Calophyidae) Gall-Inducing Psyllids Reveals the Absence of Plant Pathogenic Bacteria and Three Dominant Endosymbionts. PMID:26161659
Analyzing the antagonistic potential of the lichen microbiome against pathogens by bridging metagenomic with culture studies. PMID:26157431
Interactions between multiple helminths and the gut microbiota in wild rodents. PMID:26150661
Variation in the Microbiota of Ixodes Ticks with Regard to Geography, Species, and Sex. PMID:26150449
Functional environmental proteomics: elucidating the role of a c-type cytochrome abundant during uranium bioremediation. PMID:26140532
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Identifying novel sequence variants of RNA 3D motifs. PMID:26130723
BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS. PMID:26130132
The immunotranscriptome of the Caribbean reef-building coral Pseudodiploria strigosa. PMID:26123975
Cultivation-Based and Molecular Assessment of Bacterial Diversity in the Rhizosheath of Wheat under Different Crop Rotations. PMID:26121588
Composition of Bacterial Communities Associated with Aurelia aurita Changes with Compartment, Life Stage, and Population. PMID:26116680
Inhibition of the endosymbiont "Candidatus Midichloria mitochondrii" during 16S rRNA gene profiling reveals potential pathogens in Ixodes ticks from Australia. PMID:26108374
Randomised clinical trial: gut microbiome biomarkers are associated with clinical response to a low FODMAP diet in children with the irritable bowel syndrome. PMID:26104013
Litter Breakdown and Microbial Succession on Two Submerged Leaf Species in a Small Forested Stream. PMID:26098687
A multidimensional approach to the management of severe asthma: Inflammometry, molecular microbiology and bronchial thermoplasty. PMID:26083543
Standard filtration practices may significantly distort planktonic microbial diversity estimates. PMID:26082766
Insight into Dominant Cellulolytic Bacteria from Two Biogas Digesters and Their Glycoside Hydrolase Genes. PMID:26070087
Metagenome Sequencing Reveals Rhodococcus Dominance in Farpuk Cave, Mizoram, India, an Eastern Himalayan Biodiversity Hot Spot Region. PMID:26067958
Insights into Diversity and Imputed Metabolic Potential of Bacterial Communities in the Continental Shelf of Agatti Island. PMID:26066038
Prebiotics Modulate the Effects of Antibiotics on Gut Microbial Diversity and Functioning in Vitro. PMID:26053617
Pyrosequencing-Based Assessment of the Microbial Community Structure of Pastoruri Glacier Area (Huascarán National Park, Perú), a Natural Extreme Acidic Environment. PMID:26045157
Seasonal variation of bacterial endophytes in urban trees. PMID:26042095
Rumen microbiome from steers differing in feed efficiency. PMID:26030887
Analysis of composition of microbiomes: a novel method for studying microbial composition. PMID:26028277
Chamber bioaerosol study: outdoor air and human occupants as sources of indoor airborne microbes. PMID:26024222
Marked seasonal variation in the wild mouse gut microbiota. PMID:26023870
Early life microbial colonization of the gut and intestinal development differ between genetically divergent broiler lines. PMID:26017153
Gut microbial succession follows acute secretory diarrhea in humans. PMID:25991682
Using the taxon-specific genes for the taxonomic classification of bacterial genomes. PMID:25990029
MICCA: a complete and accurate software for taxonomic profiling of metagenomic data. PMID:25988396
Distinct summer and winter bacterial communities in the active layer of Svalbard permafrost revealed by DNA- and RNA-based analyses. PMID:25983731
Metagenomics: tools and insights for analyzing next-generation sequencing data derived from biodiversity studies. PMID:25983555
Microbial Diversity in Engineered Haloalkaline Environments Shaped by Shared Geochemical Drivers Observed in Natural Analogues. PMID:25979895
Temporal variation overshadows the response of leaf litter microbial communities to simulated global change. PMID:25978544
Intestinal Blautia Is Associated with Reduced Death from Graft-versus-Host Disease. PMID:25977230
Bacterial and fungal communities in a degraded ombrotrophic peatland undergoing natural and managed re-vegetation. PMID:25969988
Natural bacterial communities serve as quantitative geochemical biosensors. PMID:25968645
Microbiota—implications for immunity and transplantation. PMID:25963591
Response of the Rumen Microbiota of Sika Deer (Cervus nippon) Fed Different Concentrations of Tannin Rich Plants. PMID:25955033
Do you kiss your mother with that mouth? An authentic large-scale undergraduate research experience in mapping the human oral microbiome. PMID:25949757
Oral Microbiota Shift after 12-Week Supplementation with Lactobacillus reuteri DSM 17938 and PTA 5289; A Randomized Control Trial. PMID:25946126
Chronic Trichuris muris Infection Decreases Diversity of the Intestinal Microbiota and Concomitantly Increases the Abundance of Lactobacilli. PMID:25942314
Microbial diversity on Icelandic glaciers and ice caps. PMID:25941518
Ruminal Bacterial Community Composition in Dairy Cows Is Dynamic over the Course of Two Lactations and Correlates with Feed Efficiency. PMID:25934629
Targeted disruption of CD1d prevents NKT cell development in pigs. PMID:25930071
Biochar in co-contaminated soil manipulates arsenic solubility and microbiological community structure, and promotes organochlorine degradation. PMID:25923541
Maternal fucosyltransferase 2 status affects the gut bifidobacterial communities of breastfed infants. PMID:25922665
Loss of Microbiota-Mediated Colonization Resistance to Clostridium difficile Infection With Oral Vancomycin Compared With Metronidazole. PMID:25920320
Crustose coralline algal species host distinct bacterial assemblages on their surfaces. PMID:25918832
Microbial diversity in a permanently cold and alkaline environment in Greenland. PMID:25915866
Dietary input of microbes and host genetic variation shape among-population differences in stickleback gut microbiota. PMID:25909977
Bacterial symbiont sharing in Megalomyrmex social parasites and their fungus-growing ant hosts. PMID:25907143
Comparison of Bacterial Community Composition of Primary and Persistent Endodontic Infections Using Pyrosequencing. PMID:25906920
Resistant starch diet induces change in the swine microbiome and a predominance of beneficial bacterial populations. PMID:25905018
Composition of soil microbiome along elevation gradients in southwestern highlands of Saudi Arabia. PMID:25888310
Highly diversified fungi are associated with the achlorophyllous orchid Gastrodia flavilabella. PMID:25886817
The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts. PMID:25885563
Molecular survey of bacterial communities associated with bacterial chondronecrosis with osteomyelitis (BCO) in broilers. PMID:25881241
Shifts in bacterial communities of eggshells and antimicrobial activities in eggs during incubation in a ground-nesting passerine. PMID:25880684
The Impact of Injections of Different Nutrients on the Bacterial Community and Its Dechlorination Activity in Chloroethene-Contaminated Groundwater. PMID:25877696
Sinonasal microbiome sampling: a comparison of techniques. PMID:25876035
Similar PAH fate in anaerobic digesters inoculated with three microbial communities accumulating either volatile fatty acids or methane. PMID:25874750
Dominance of sulfur-fueled iron oxide reduction in low-sulfate freshwater sediments. PMID:25871933
Structure, mineralogy, and microbial diversity of geothermal spring microbialites associated with a deep oil drilling in Romania. PMID:25870594
Microbial methane formation in deep aquifers of a coal-bearing sedimentary basin, Germany. PMID:25852663
Stable microbial community composition on the Greenland Ice Sheet. PMID:25852658
Exoelectrogenic capacity of host microbiota predicts lymphocyte recruitment to the gut. PMID:25852170
Size-fraction partitioning of community gene transcription and nitrogen metabolism in a marine oxygen minimum zone. PMID:25848875
Local-global overlap in diversity informs mechanisms of bacterial biogeography. PMID:25848869
Dietary Polyphenols Promote Growth of the Gut Bacterium Akkermansia muciniphila and Attenuate High-Fat Diet-Induced Metabolic Syndrome. PMID:25845659
Grazing livestock are exposed to terrestrial cyanobacteria. PMID:25828258
Lactobacillus rhamnosus lowers zebrafish lipid content by changing gut microbiota and host transcription of genes involved in lipid metabolism. PMID:25822072
Influence of a non-hospital medical care facility on antimicrobial resistance in wastewater. PMID:25821977
Explaining diversity in metagenomic datasets by phylogenetic-based feature weighting. PMID:25815895
Perturbation and restoration of the fathead minnow gut microbiome after low-level triclosan exposure. PMID:25815185
Bacterial diversity and Clostridia abundance decrease with increasing severity of necrotizing enterocolitis. PMID:25810906
Bacterial communities associated with host-adapted populations of pea aphids revealed by deep sequencing of 16S ribosomal DNA. PMID:25807173
Subsistence strategies in traditional societies distinguish gut microbiomes. PMID:25807110
Plant genotype-specific archaeal and bacterial endophytes but similar Bacillus antagonists colonize Mediterranean olive trees. PMID:25784898
Multivariate and phylogenetic analyses assessing the response of bacterial mat communities from an ancient oligotrophic aquatic ecosystem to different scenarios of long-term environmental disturbance. PMID:25781013
The perinatal microbiome and pregnancy: moving beyond the vaginal microbiome. PMID:25775922
Gut microbiota in multiple sclerosis: possible influence of immunomodulators. PMID:25775034
Social networks predict gut microbiome composition in wild baboons. PMID:25774601
Analysis of a population of magnetotactic bacteria of the Gulf of Gabès, Tunisia. PMID:25772882
Taxonomic Identification of Ruminal Epithelial Bacterial Diversity during Rumen Development in Goats. PMID:25769827
Archaeal community diversity and abundance changes along a natural salinity gradient in estuarine sediments. PMID:25764553
Microbial community composition and diversity in Caspian Sea sediments. PMID:25764536
Long-term forest soil warming alters microbial communities in temperate forest soils. PMID:25762989
Study of the diversity and short-chain fatty acids production by the bacterial community in overweight and obese Mexican children. PMID:25761741
A comprehensive analysis of the microbial communities of healthy and diseased marine macroalgae and the detection of known and potential bacterial pathogens. PMID:25759688
Oligofructose protects against arsenic-induced liver injury in a model of environment/obesity interaction. PMID:25759243
Wild plant species growing closely connected in a subalpine meadow host distinct root-associated bacterial communities. PMID:25755932
The Gut Microbiota of Workers of the Litter-Feeding Termite Syntermes wheeleri (Termitidae: Syntermitinae): Archaeal, Bacterial, and Fungal Communities. PMID:25749937
Out of the dark: transitional subsurface-to-surface microbial diversity in a terrestrial serpentinizing seep (Manleluag, Pangasinan, the Philippines). PMID:25745416
Evaluating variation in human gut microbiota profiles due to DNA extraction method and inter-subject differences. PMID:25741335
Dynamics of marine bacterial community diversity of the coastal waters of the reefs, inlets, and wastewater outfalls of southeast Florida. PMID:25740409
Mesophilic versus thermophilic anaerobic digestion of cattle manure: methane productivity and microbial ecology. PMID:25737010
A laboratory investigation of interactions between denitrifying anaerobic methane oxidation (DAMO) and anammox processes in anoxic environments. PMID:25732131
Functional characterization of IgA-targeted bacterial taxa from undernourished Malawian children that produce diet-dependent enteropathy. PMID:25717097
Exploring Actinobacteria assemblages in coastal marine sediments under contrasted Human influences in the West Istria Sea, Croatia. PMID:25712885
Complementary amplicon-based genomic approaches for the study of fungal communities in humans. PMID:25706290
Community Structure of Skin Microbiome of Gulf Killifish, Fundulus grandis, Is Driven by Seasonality and Not Exposure to Oiled Sediments in a Louisiana Salt Marsh. PMID:25704317
Diversity in gut bacterial community of school-age children in Asia. PMID:25703686
Impact of dietary deviation on disease progression and gut microbiome composition in lupus-prone SNF1 mice. PMID:25703185
Rumen bacterial diversity of 80 to 110-day-old goats using 16S rRNA sequencing. PMID:25700157
Field-based evidence for consistent responses of bacterial communities to copper contamination in two contrasting agricultural soils. PMID:25699026
Microbiota disbiosis is associated with colorectal cancer. PMID:25699023
No difference in small bowel microbiota between patients with irritable bowel syndrome and healthy controls. PMID:25687743
The hidden 'mycobacteriome' of the human healthy oral cavity and upper respiratory tract. PMID:25683180
Draft genome sequence of Halomonas lutea strain YIM 91125(T) (DSM 23508(T)) isolated from the alkaline Lake Ebinur in Northwest China. PMID:25678942
Effects of vendor and genetic background on the composition of the fecal microbiota of inbred mice. PMID:25675094
Environmental genes and genomes: understanding the differences and challenges in the approaches and software for their analyses. PMID:25673291
Habitat-specific environmental conditions primarily control the microbiomes of the coral Seriatopora hystrix. PMID:25668159
Polar front associated variation in prokaryotic community structure in Arctic shelf seafloor. PMID:25667586
The human urine virome in association with urinary tract infections. PMID:25667584
The Microbiome of Field-Caught and Laboratory-Adapted Australian Tephritid Fruit Fly Species with Different Host Plant Use and Specialisation. PMID:25666536
Use of 16S rRNA gene for identification of a broad range of clinically relevant bacterial pathogens. PMID:25658760
Evaluation of the Performances of Ribosomal Database Project (RDP) Classifier for Taxonomic Assignment of 16S rRNA Metabarcoding Sequences Generated from Illumina-Solexa NGS. PMID:25653722
Fecal microbiota composition of breast-fed infants is correlated with human milk oligosaccharides consumed. PMID:25651488
16S classifier: a tool for fast and accurate taxonomic classification of 16S rRNA hypervariable regions in metagenomic datasets. PMID:25646627
Nitric oxide treatment for the control of reverse osmosis membrane biofouling. PMID:25636842
No evidence for a culturable bacterial tetrodotoxin producer in Pleurobranchaea maculata (Gastropoda: Pleurobranchidae) and Stylochoplana sp. (Platyhelminthes: Polycladida). PMID:25635464
Dental plaque development on a hydroxyapatite disk in young adults observed by using a barcoded pyrosequencing approach. PMID:25633431
A Coxiella-like endosymbiont is a potential vitamin source for the Lone Star tick. PMID:25618142
Pyrosequencing analysis of a bacterial community associated with lava-formed soil from the Gotjawal forest in Jeju, Korea. PMID:25604185
Effect of exclusive enteral nutrition on the microbiota of children with newly diagnosed Crohn's disease. PMID:25588524
The cutaneous microbiome in outpatients presenting with acute skin abscesses. PMID:25583170
Pyruvic oxime nitrification and copper and nickel resistance by a Cupriavidus pauculus, an active heterotrophic nitrifier-denitrifier. PMID:25580463
Temporal stability of the microbial community in sewage-polluted seawater exposed to natural sunlight cycles and marine microbiota. PMID:25576619
Culture and molecular-based profiles show shifts in bacterial communities of the upper respiratory tract that occur with age. PMID:25575312
Divergence across diet, time and populations rules out parallel evolution in the gut microbiomes of Trinidadian guppies. PMID:25575311
Selection of models for the analysis of risk-factor trees: leveraging biological knowledge to mine large sets of risk factors with application to microbiome data. PMID:25568281
Soil bacterial community structure remains stable over a 5-year chronosequence of insect-induced tree mortality. PMID:25566204
Comparisons of the composition and biogeographic distribution of the bacterial communities occupying South African thermal springs with those inhabiting deep subsurface fracture water. PMID:25566203
Biodiversity hot spot on a hot spot: novel extremophile diversity in Hawaiian fumaroles. PMID:25565172
Molecular analysis of the benthos microbial community in Zavarzin thermal spring (Uzon Caldera, Kamchatka, Russia). PMID:25563397
Detailed investigation of the microbial community in foaming activated sludge reveals novel foam formers. PMID:25560234
A hybrid DNA extraction method for the qualitative and quantitative assessment of bacterial communities from poultry production samples. PMID:25548939
Bacteroides dorei dominates gut microbiome prior to autoimmunity in Finnish children at high risk for type 1 diabetes. PMID:25540641
Bacterial communities in the rumen of Holstein heifers differ when fed orchardgrass as pasture vs. hay. PMID:25538699
The structures of the colonic mucosa-associated and luminal microbial communities are distinct and differentially affected by a prolonged murine stressor. PMID:25536463
CATCh, an ensemble classifier for chimera detection in 16S rRNA sequencing studies. PMID:25527546
The microbial community of the cystic fibrosis airway is disrupted in early life. PMID:25526264
The feline oral microbiome: a provisional 16S rRNA gene based taxonomy with full-length reference sequences. PMID:25523504
Diversity, distribution and hydrocarbon biodegradation capabilities of microbial communities in oil-contaminated cyanobacterial mats from a constructed wetland. PMID:25514025
Comparison of environmental and isolate Sulfobacillus genomes reveals diverse carbon, sulfur, nitrogen, and hydrogen metabolisms. PMID:25511286
IM-TORNADO: a tool for comparison of 16S reads from paired-end libraries. PMID:25506826
Growth of anaerobic methane-oxidizing archaea and sulfate-reducing bacteria in a high-pressure membrane capsule bioreactor. PMID:25501484
Geochemical niches of iron-oxidizing acidophiles in acidic coal mine drainage. PMID:25501473
Investigation of a new acetogen isolated from an enrichment of the tammar wallaby forestomach. PMID:25495654
The gut microbiota of Colombians differs from that of Americans, Europeans and Asians. PMID:25495462
PTPN2 controls differentiation of CD4⁺ T cells and limits intestinal inflammation and intestinal dysbiosis. PMID:25492475
Bacteria and methanogens differ along the gastrointestinal tract of Chinese roe deer (Capreolus pygargus). PMID:25490208
Microbiome changes in healthy volunteers treated with GSK1322322, a novel antibiotic targeting bacterial peptide deformylase. PMID:25487798
Correlation between nasal microbiome composition and remote purulent skin and soft tissue infections. PMID:25486991
Diversity of bacterial communities of fitness center surfaces in a U.S. metropolitan area. PMID:25479039
Integrative workflows for metagenomic analysis. PMID:25478562
Dietary iron depletion at weaning imprints low microbiome diversity and this is not recovered with oral Nano Fe(III). PMID:25461615
Gut microbiome composition is associated with temperament during early childhood. PMID:25449582
High-Throughput Sequencing, a VersatileWeapon to Support Genome-Based Diagnosis in Infectious Diseases: Applications to Clinical Bacteriology. PMID:25437800
Evaluation of automated ribosomal intergenic spacer analysis for bacterial fingerprinting of rumen microbiome compared to pyrosequencing technology. PMID:25437610
Altered microbiota associated with abnormal humoral immune responses to commensal organisms in enthesitis-related arthritis. PMID:25434931
Prolonged use of a proton pump inhibitor reduces microbial diversity: implications for Clostridium difficile susceptibility. PMID:25426290
rrnDB: improved tools for interpreting rRNA gene abundance in bacteria and archaea and a new foundation for future development. PMID:25414355
Maternal obesity is associated with alterations in the gut microbiome in toddlers. PMID:25409177
Progressive degradation of crude oil n-alkanes coupled to methane production under mesophilic and thermophilic conditions. PMID:25409013
Assessing impacts of unconventional natural gas extraction on microbial communities in headwater stream ecosystems in Northwestern Pennsylvania. PMID:25408683
Distinct composition of the oral indigenous microbiota in South Korean and Japanese adults. PMID:25384884
Microbial and genetic ecology of tropical Vertisols under intensive chemical farming. PMID:25384370
Electron donors and co-contaminants affect microbial community composition and activity in perchlorate degradation. PMID:25382499
Pyrosequencing of mcrA and archaeal 16S rRNA genes reveals diversity and substrate preferences of methanogen communities in anaerobic digesters. PMID:25381241
Relationships between bacterial community composition, functional trait composition and functioning are context dependent--but what is the context? PMID:25380200
Parent material and vegetation influence soil microbial community structure following 30-years of rock weathering and pedogenesis. PMID:25370885
Phylogenetic signal in the community structure of host-specific microbiomes of tropical marine sponges. PMID:25368606
Site- and horizon-specific patterns of microbial community structure and enzyme activities in permafrost-affected soils of Greenland. PMID:25360132
Spatial distribution of microbial communities associated with dune landform in the Gurbantunggut Desert, China. PMID:25359267
Distinct soil microbial diversity under long-term organic and conventional farming. PMID:25350160
Bacterial communities in semen from men of infertile couples: metagenomic sequencing reveals relationships of seminal microbiota to semen quality. PMID:25340531
Thermophilic microbial cellulose decomposition and methanogenesis pathways recharacterized by metatranscriptomic and metagenomic analysis. PMID:25330991
Antibiotic resistance in Aeromonas upstream and downstream of a water resource recovery facility. PMID:25327024
Regulatory B cells are induced by gut microbiota-driven interleukin-1β and interleukin-6 production. PMID:25326801
Response of bacterioplankton communities to cadmium exposure in coastal water microcosms with high temporal variability. PMID:25326310
Minimum entropy decomposition: unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences. PMID:25325381
Natural volcanic CO2 seeps reveal future trajectories for host-microbial associations in corals and sponges. PMID:25325380
Fe-oxide grain coatings support bacterial Fe-reducing metabolisms in 1.7-2.0 km-deep subsurface quartz arenite sandstone reservoirs of the Illinois Basin (USA). PMID:25324834
Host-associated bacterial taxa from Chlorobi, Chloroflexi, GN02, Synergistetes, SR1, TM7, and WPS-2 Phyla/candidate divisions. PMID:25317252
Soil Acidobacterial 16S rRNA Gene Sequences Reveal Subgroup Level Differences between Savanna-Like Cerrado and Atlantic Forest Brazilian Biomes. PMID:25309599
Intraindividual variation in core microbiota in peri-implantitis and periodontitis. PMID:25308100
Meta-analyses of human gut microbes associated with obesity and IBD. PMID:25307765
Human milk glycomics and gut microbial genomics in infant feces show a correlation between human milk oligosaccharides and gut microbiota: a proof-of-concept study. PMID:25300177
A hidden pitfall in the preparation of agar media undermines microorganism cultivability. PMID:25281372
Rapid fucosylation of intestinal epithelium sustains host-commensal symbiosis in sickness. PMID:25274297
Temperature-dependent variations in sulfate-reducing communities associated with a terrestrial hydrocarbon seep. PMID:25273230
DNA extraction protocols cause differences in 16S rRNA amplicon sequencing efficiency but not in community profile composition or structure. PMID:25257543
Severity-related changes of bronchial microbiome in chronic obstructive pulmonary disease. PMID:25253795
Bacterial community composition and fermentation patterns in the rumen of sika deer (Cervus nippon) fed three different diets. PMID:25252928
Diversity and community composition of methanogenic archaea in the rumen of Scottish upland sheep assessed by different methods. PMID:25250654
Intestinal anastomotic injury alters spatially defined microbiome composition and function. PMID:25250176
Membership and behavior of ultra-low-diversity pathogen communities present in the gut of humans during prolonged critical illness. PMID:25249279
Alterations in ileal mucosa bacteria related to diet complexity and growth performance in young pigs. PMID:25247930
Seasonal dynamics of active SAR11 ecotypes in the oligotrophic Northwest Mediterranean Sea. PMID:25238399
Artificial sweeteners induce glucose intolerance by altering the gut microbiota. PMID:25231862
Members of the human gut microbiota involved in recovery from Vibrio cholerae infection. PMID:25231861
Rapid comparison and correlation analysis among massive number of microbial community samples based on MDV data model. PMID:25227622
Bacterial community composition of chronic periodontitis and novel oral sampling sites for detecting disease indicators. PMID:25225610
Respiratory tract clinical sample selection for microbiota analysis in patients with pulmonary tuberculosis. PMID:25225609
Bacterial population succession and adaptation affected by insecticide application and soil spraying history. PMID:25221549
Diet and exercise orthogonally alter the gut microbiome and reveal independent associations with anxiety and cognition. PMID:25217888
Free-Living and Particle-Associated Bacterioplankton in Large Rivers of the Mississippi River Basin Demonstrate Biogeographic Patterns. PMID:25217018
Differences between the rhizosphere microbiome of Beta vulgaris ssp. maritima-ancestor of all beet crops-and modern sugar beets. PMID:25206350
Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years. PMID:25203836
Genome sequence of the Thermotoga thermarum type strain (LA3(T)) from an African solfataric spring. PMID:25197486
High quality draft genome sequence of the slightly halophilic bacterium Halomonas zhanjiangensis type strain JSM 078169(T) (DSM 21076(T)) from a sea urchin in southern China. PMID:25197480
Complete genome sequence of the bacteriochlorophyll a-containing Roseibacterium elongatum type strain (DSM 19469(T)), a representative of the Roseobacter group isolated from Australian coast sand. PMID:25197467
High quality draft genome sequence of Olivibacter sitiensis type strain (AW-6(T)), a diphenol degrader with genes involved in the catechol pathway. PMID:25197463
Genome sequence of the anaerobic bacterium Bacillus sp. strain ZYK, a selenite and nitrate reducer from paddy soil. PMID:25197451
Internal porosity of mineral coating supports microbial activity in rapid sand filters for groundwater treatment. PMID:25192987
The effect of omeprazole on the development of experimental autoimmune encephalomyelitis in C57BL/6J and SJL/J mice. PMID:25190469
Subsampled open-reference clustering creates consistent, comprehensive OTU definitions and scales to billions of sequences. PMID:25177538
High-fat-diet-mediated dysbiosis promotes intestinal carcinogenesis independently of obesity. PMID:25174708
Illuminating microbial dark matter in meromictic Sakinaw Lake. PMID:25172853
Species specificity of symbiosis and secondary metabolism in ascidians. PMID:25171330
Responsiveness of cardiometabolic-related microbiota to diet is influenced by host genetics. PMID:25159725
Comparative assessment of the bacterial communities associated with Aedes aegypti larvae and water from domestic water storage containers. PMID:25151134
Biotic interactions and temporal dynamics of the human gastrointestinal microbiota. PMID:25148482
Characterization of wastewater treatment plant microbial communities and the effects of carbon sources on diversity in laboratory models. PMID:25148472
Biogeography of anaerobic ammonia-oxidizing (anammox) bacteria. PMID:25147546
Seasonal effects in a lake sediment archaeal community of the Brazilian Savanna. PMID:25147480
Host lifestyle affects human microbiota on daily timescales. PMID:25146375
Impact of next generation sequencing techniques in food microbiology. PMID:25132799
Characterization of novel polycyclic aromatic hydrocarbon dioxygenases from the bacterial metagenomic DNA of a contaminated soil. PMID:25128340
Native microbiome impedes vertical transmission of Wolbachia in Anopheles mosquitoes. PMID:25114252
Oral microbiota and host innate immune response in bisphosphonate-related osteonecrosis of the jaw. PMID:25105817
Identification of bacterial community composition in freshwater aquaculture system farming of Litopenaeus vannamei reveals distinct temperature-driven patterns. PMID:25105725
Phylogenetics and the human microbiome. PMID:25102857
Identification of the microbiota in carious dentin lesions using 16S rRNA gene sequencing. PMID:25083880
Archaeal abundance in post-mortem ruminal digesta may help predict methane emissions from beef cattle. PMID:25081098
Altitudinal distribution patterns of soil bacterial and archaeal communities along mt. Shegyla on the Tibetan Plateau. PMID:25074792
Individual diet has sex-dependent effects on vertebrate gut microbiota. PMID:25072318
Directly sampling the lung of a young child with cystic fibrosis reveals diverse microbiota. PMID:25072206
Pinus flexilis and Picea engelmannii share a simple and consistent needle endophyte microbiota with a potential role in nitrogen fixation. PMID:25071746
Effects of high hydrostatic pressure on coastal bacterial community abundance and diversity. PMID:25063663
Microbial degradation of isosaccharinic acid at high pH. PMID:25062127
Effect of chemotherapy on the microbiota and metabolome of human milk, a case report. PMID:25061513
Getting started with microbiome analysis: sample acquisition to bioinformatics. PMID:25042718
Evidence of environmental and vertical transmission of Burkholderia symbionts in the oriental chinch bug, Cavelerius saccharivorus (Heteroptera: Blissidae). PMID:25038101
Primate vaginal microbiomes exhibit species specificity without universal Lactobacillus dominance. PMID:25036926
An in vitro culture model to study the dynamics of colonic microbiota in Syrian golden hamsters and their susceptibility to infection with Clostridium difficile. PMID:25036923
Improved resolution of bacteria by high throughput sequence analysis of the rRNA internal transcribed spacer. PMID:25034229
A novel nutritional predictor links microbial fastidiousness with lowered ubiquity, growth rate, and cooperativeness. PMID:25033033
Characterization of the nasopharyngeal microbiota in health and during rhinovirus challenge. PMID:25028608
Exposure to a social stressor disrupts the community structure of the colonic mucosa-associated microbiota. PMID:25028050
Mobile phones carry the personal microbiome of their owners. PMID:25024916
Characterization of bacterial community shift in human Ulcerative Colitis patients revealed by Illumina based 16S rRNA gene amplicon sequencing. PMID:25018784
The subgingival microbiome of clinically healthy current and never smokers. PMID:25012901
Dynamic succession of soil bacterial community during continuous cropping of peanut (Arachis hypogaea L.). PMID:25010658
Effects of farmhouse hotel and paper mill effluents on bacterial community structures in sediment and surface water of Nanxi River, China. PMID:25008983
Effects of season and host physiological state on the diversity, density, and activity of the arctic ground squirrel cecal microbiota. PMID:25002417
Bifidobacterium longum subsp. infantis in experimental necrotizing enterocolitis: alterations in inflammation, innate immune response, and the microbiota. PMID:25000347
Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition. PMID:24995464
Novel gut-based pharmacology of metformin in patients with type 2 diabetes mellitus. PMID:24988476
Rhodoluna lacicola gen. nov., sp. nov., a planktonic freshwater bacterium with stream-lined genome. PMID:24984700
Characterization of bacteriophage communities and CRISPR profiles from dental plaque. PMID:24981669
Genome sequence of Phaeobacter inhibens type strain (T5(T)), a secondary metabolite producing representative of the marine Roseobacter clade, and emendation of the species description of Phaeobacter inhibens. PMID:24976890
Coupling genetic and chemical microbiome profiling reveals heterogeneity of archaeome and bacteriome in subsurface biofilms that are dominated by the same archaeal species. PMID:24971452
Functional divergence in gastrointestinal microbiota in physically-separated genetically identical mice. PMID:24961643
Incorporation of therapeutically modified bacteria into gut microbiota inhibits obesity. PMID:24960158
Exercise induction of gut microbiota modifications in obese, non-obese and hypertensive rats. PMID:24952588
Bacterial diversity in snow on North Pole ice floes. PMID:24951969
Wastewater irrigation increases the abundance of potentially harmful gammaproteobacteria in soils in Mezquital Valley, Mexico. PMID:24951788
Draft Genome Sequence of the Lignin-Degrading Burkholderia sp. Strain LIG30, Isolated from Wet Tropical Forest Soil. PMID:24948777
The interplay between Campylobacter and Helicobacter species and other gastrointestinal microbiota of commercial broiler chickens. PMID:24940386
The effects of intestinal tract bacterial diversity on mortality following allogeneic hematopoietic stem cell transplantation. PMID:24939656
DegePrime, a program for degenerate primer design for broad-taxonomic-range PCR in microbial ecology studies. PMID:24928874
Structure, composition and metagenomic profile of soil microbiomes associated to agricultural land use and tillage systems in Argentine Pampas. PMID:24923965
Saccharomyces boulardii administration changes gut microbiota and reduces hepatic steatosis, low-grade inflammation, and fat mass in obese and type 2 diabetic db/db mice. PMID:24917595
Time-resolved DNA stable isotope probing links Desulfobacterales- and Coriobacteriaceae-related bacteria to anaerobic degradation of benzene under methanogenic conditions. PMID:24909708
Methane yield phenotypes linked to differential gene expression in the sheep rumen microbiome. PMID:24907284
Characterizing the avian gut microbiota: membership, driving influences, and potential function. PMID:24904538
Conservation of streptococcal CRISPRs on human skin and saliva. PMID:24903519
Changes in abundance of oral microbiota associated with oral cancer. PMID:24887397
Bacterial diversity assessment in Antarctic terrestrial and aquatic microbial mats: a comparison between bidirectional pyrosequencing and cultivation. PMID:24887330
Discovery of novel enzymes with industrial potential from a cold and alkaline environment by a combination of functional metagenomics and culturing. PMID:24886068
Processing faecal samples: a step forward for standards in microbial community analysis. PMID:24884524
Mining seasonal marine microbial pattern with greedy heuristic clustering and symmetrical nonnegative matrix factorization. PMID:24877065
Deep sequencing analysis reveals temporal microbiota changes associated with development of bovine digital dermatitis. PMID:24866801
Pioneer microbial communities of the Fimmvörðuháls lava flow, Eyjafjallajökull, Iceland. PMID:24863128
Depth-dependent geochemical and microbiological gradients in Fe(III) deposits resulting from coal mine-derived acid mine drainage. PMID:24860562
Amphibian skin may select for rare environmental microbes. PMID:24858782
Escherichia coli O157:H7 super-shedder and non-shedder feedlot steers harbour distinct fecal bacterial communities. PMID:24858731
Individuals' diet diversity influences gut microbial diversity in two freshwater fish (threespine stickleback and Eurasian perch). PMID:24847735
Altered oral viral ecology in association with periodontal disease. PMID:24846382
Dynamic microbe and molecule networks in a mouse model of colitis-associated colorectal cancer. PMID:24828543
Patterns of bacterial diversity along a long-term mercury-contaminated gradient in the paddy soils. PMID:24827389
Immersing undergraduate students into research on the metagenomics of the plant rhizosphere: a pedagogical strategy to engage civic-mindedness and retain undergraduates in STEM. PMID:24817868
Prevalence of unclassified bacteria in tropical coastal waters of malaysia revealed by metagenomic approach. PMID:24812226
Microbial communities in sunken wood are structured by wood-boring bivalves and location in a submarine canyon. PMID:24805961
Novel PCR primers for the archaeal phylum Thaumarchaeota designed based on the comparative analysis of 16S rRNA gene sequences. PMID:24805255
An antimethanogenic nutritional intervention in early life of ruminants modifies ruminal colonization by Archaea. PMID:24803846
Temporal dynamics of the cecal gut microbiota of juvenile arctic ground squirrels: a strong litter effect across the first active season. PMID:24795380
Characterization of growing bacterial populations in McMurdo Dry Valley soils through stable isotope probing with (18) O-water. PMID:24785369
Reprograming of gut microbiome energy metabolism by the FUT2 Crohn's disease risk polymorphism. PMID:24781901
rCAD: A Novel Database Schema for the Comparative Analysis of RNA. PMID:24772454
An Accurate Scalable Template-based Alignment Algorithm. PMID:24772376
Assessment of the Deepwater Horizon oil spill impact on Gulf coast microbial communities. PMID:24772107
PhylOPDb: a 16S rRNA oligonucleotide probe database for prokaryotic identification. PMID:24771669
Mosquitoes rely on their gut microbiota for development. PMID:24766707
Ecological consistency of SSU rRNA-based operational taxonomic units at a global scale. PMID:24763141
Lactobacillus rhamnosus HN001 decreases the severity of necrotizing enterocolitis in neonatal mice and preterm piglets: evidence in mice for a role of TLR9. PMID:24742987
Deterministic processes guide long-term synchronised population dynamics in replicate anaerobic digesters. PMID:24739627
Dynamics of bacterial community succession in a salt marsh chronosequence: evidences for temporal niche partitioning. PMID:24739625
Variations in 16S rRNA-based microbiome profiling between pyrosequencing runs and between pyrosequencing facilities. PMID:24723104
Analysis, optimization and verification of Illumina-generated 16S rRNA gene amplicon surveys. PMID:24722003
Strengths and limitations of 16S rRNA gene amplicon sequencing in revealing temporal microbial community dynamics. PMID:24714158
Identification of carbohydrate metabolism genes in the metagenome of a marine biofilm community shown to be dominated by gammaproteobacteria and bacteroidetes. PMID:24710093
454-pyrosequencing: a molecular battiscope for freshwater viral ecology. PMID:24710042
An expanded genomic representation of the phylum cyanobacteria. PMID:24709563
mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities. PMID:24694284
Metatranscriptomics of the human oral microbiome during health and disease. PMID:24692635
Spatial and temporal variations of microbial community in a mixed plug-flow loop reactor fed with dairy manure. PMID:24690147
Correlation between viral production and carbon mineralization under nitrate-reducing conditions in aquifer sediment. PMID:24671088
Exercise prevents weight gain and alters the gut microbiota in a mouse model of high fat diet-induced obesity. PMID:24670791
Evidence of a putative deep sea specific microbiome in marine sponges. PMID:24670421
Gastrointestinal Bacterial and Methanogenic Archaea Diversity Dynamics Associated with Condensed Tannin-Containing Pine Bark Diet in Goats Using 16S rDNA Amplicon Pyrosequencing. PMID:24669219
High concentrations of methyl fluoride affect the bacterial community in a thermophilic methanogenic sludge. PMID:24658656
Microbial community dynamics and stability during an ammonia-induced shift to syntrophic acetate oxidation. PMID:24657858
Human oral viruses are personal, persistent and gender-consistent. PMID:24646696
Broad scope method for creating humanized animal models for animal health and disease research through antibiotic treatment and human fecal transfer. PMID:24637796
A phylogenomic view of ecological specialization in the Lachnospiraceae, a family of digestive tract-associated bacteria. PMID:24625961
Investigation of the microbial metabolism of carbon dioxide and hydrogen in the kangaroo foregut by stable isotope probing. PMID:24621520
First evidence for the presence of iron oxidizing zetaproteobacteria at the Levantine continental margins. PMID:24614177
Soil microbial responses to increased moisture and organic resources along a salinity gradient in a polar desert. PMID:24610850
Microbiota of human breast tissue. PMID:24610844
History and impact of RDP: a legacy from Carl Woese to microbiology. PMID:24607969
An insight into the microbiome of the Amblyomma maculatum (Acari: Ixodidae). PMID:24605461
Airborne bacterial communities in residences: similarities and differences with fungi. PMID:24603548
Bacterial communities on classroom surfaces vary with human contact. PMID:24602274
The lung microbiome after lung transplantation. PMID:24601662
Parallel-META 2.0: enhanced metagenomic data analysis with functional annotation, high performance computing and advanced visualization. PMID:24595159
MyTaxa: an advanced taxonomic classifier for genomic and metagenomic sequences. PMID:24589583
The effects of Mary Rose conservation treatment on iron oxidation processes and microbial communities contributing to acid production in marine archaeological timbers. PMID:24586230
Phylogenetic and functional analysis of gut microbiota of a fungus-growing higher termite: Bacteroidetes from higher termites are a rich source of β-glucosidase genes. PMID:24584416
Metabolic alterations to the mucosal microbiota in inflammatory bowel disease. PMID:24583479
Benchmarking of methods for genomic taxonomy. PMID:24574292
Two accurate sequence, structure, and phylogenetic template-based RNA alignment systems. PMID:24565058
Divergent responses of soil fungi functional groups to short-term warming. PMID:24553914
Restricted streptomycin use in apple orchards did not adversely alter the soil bacteria communities. PMID:24550889
Detecting the nonviable and heat-tolerant bacteria in activated sludge by minimizing DNA from dead cells. PMID:24535161
Genome sequence of the Litoreibacter arenae type strain (DSM 19593(T)), a member of the Roseobacter clade isolated from sea sand. PMID:24501650
Genome sequence of Frateuria aurantia type strain (Kondô 67(T)), a xanthomonade isolated from Lilium auratium Lindl. PMID:24501647
Genome sequence of the moderately thermophilic sulfur-reducing bacterium Thermanaerovibrio velox type strain (Z-9701(T)) and emended description of the genus Thermanaerovibrio. PMID:24501645
Genome sequence of the chemoheterotrophic soil bacterium Saccharomonospora cyanea type strain (NA-134(T)). PMID:24501643
Genome sequence of the reddish-pigmented Rubellimicrobium thermophilum type strain (DSM 16684(T)), a member of the Roseobacter clade. PMID:24501632
Genome sequence of the phage-gene rich marine Phaeobacter arcticus type strain DSM 23566(T.). PMID:24501630
Genome sequence of Phaeobacter caeruleus type strain (DSM 24564(T)), a surface-associated member of the marine Roseobacter clade. PMID:24501626
Genome sequence of the Leisingera aquimarina type strain (DSM 24565(T)), a member of the marine Roseobacter clade rich in extrachromosomal elements. PMID:24501625
A comprehensive aligned nifH gene database: a multipurpose tool for studies of nitrogen-fixing bacteria. PMID:24501396
Bacterial communities of surface mixed layer in the Pacific sector of the western Arctic Ocean during sea-ice melting. PMID:24497990
Insights into the distribution and abundance of the ubiquitous candidatus Saccharibacteria phylum following tag pyrosequencing. PMID:24492458
Architectural design drives the biogeography of indoor bacterial communities. PMID:24489843
Characterization of bacterial communities in sediments receiving various wastewater effluents with high-throughput sequencing analysis. PMID:24477925
MetaMetaDB: a database and analytic system for investigating microbial habitability. PMID:24475242
Microbes in the neonatal intensive care unit resemble those found in the gut of premature infants. PMID:24468033
Stool substitute transplant therapy for the eradication of Clostridium difficile infection: 'RePOOPulating' the gut. PMID:24467987
A systematic search for discriminating sites in the 16S ribosomal RNA gene. PMID:24467869
Application of microarray and functional-based screening methods for the detection of antimicrobial resistance genes in the microbiomes of healthy humans. PMID:24466089
Niches, population structure and genome reduction in Ochrobactrum intermedium: clues to technology-driven emergence of pathogens. PMID:24465379
Metabolic profiles of prokaryotic and eukaryotic communities in deep-sea sponge Neamphius huxleyi [corrected]. indicated by metagenomics. PMID:24463735
Inhalable microorganisms in Beijing's PM2.5 and PM10 pollutants during a severe smog event. PMID:24456276
Genome resolved analysis of a premature infant gut microbial community reveals a Varibaculum cambriense genome and a shift towards fermentation-based metabolism during the third week of life. PMID:24451181
Colonization patterns of soil microbial communities in the Atacama Desert. PMID:24451153
Microbial dysbiosis is associated with human breast cancer. PMID:24421902
Clinical detection of human probiotics and human pathogenic bacteria by using a novel high-throughput platform based on next generation sequencing. PMID:24418497
A taxonomic signature of obesity in the microbiome? Getting to the guts of the matter. PMID:24416266
Intestinal microbiota and species diversity of Campylobacter and Helicobacter spp. in migrating shorebirds in Delaware Bay. PMID:24413599
Highly variable microbiota development in the chicken gastrointestinal tract. PMID:24391931
Fe-phyllosilicate redox cycling organisms from a redox transition zone in Hanford 300 Area sediments. PMID:24379809
Soil microbial community responses to a decade of warming as revealed by comparative metagenomics. PMID:24375144
Microbial diversity and methanogenic activity of Antrim Shale formation waters from recently fractured wells. PMID:24367357
Validation of IMP dehydrogenase inhibitors in a mouse model of cryptosporidiosis. PMID:24366728
Microbial ecology of the hive and pollination landscape: bacterial associates from floral nectar, the alimentary tract and stored food of honey bees (Apis mellifera). PMID:24358254
A new species of Burkholderia isolated from sugarcane roots promotes plant growth. PMID:24350979
Diet rapidly and reproducibly alters the human gut microbiome. PMID:24336217
Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community. PMID:24335829
Bacterial communities in pigmented biofilms formed on the sandstone bas-relief walls of the Bayon Temple, Angkor Thom, Cambodia. PMID:24334526
Different bacterial communities in ectomycorrhizae and surrounding soil. PMID:24326907
Muc5b is required for airway defence. PMID:24317696
The temporal scaling of bacterioplankton composition: high turnover and predictability during shrimp cultivation. PMID:24306831
Comparative analysis of gingival tissue antigen presentation pathways in ageing and periodontitis. PMID:24304139
Culture dependent and independent analysis of bacterial communities associated with commercial salad leaf vegetables. PMID:24289725
Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate. PMID:24277822
Evidence of unique and generalist microbes in distantly related sympatric intertidal marine sponges (Porifera: Demospongiae). PMID:24265835
A modular organization of the human intestinal mucosal microbiota and its association with inflammatory bowel disease. PMID:24260458
The Gut Microbiotassay: a high-throughput qPCR approach combinable with next generation sequencing to study gut microbial diversity. PMID:24225361
Distinct phyllosphere bacterial communities on Arabidopsis wax mutant leaves. PMID:24223831
Discovery of microorganisms and enzymes involved in high-solids decomposition of rice straw using metagenomic analyses. PMID:24205054
Deep sequencing identifies ethnicity-specific bacterial signatures in the oral microbiome. PMID:24194878
pH of drinking water influences the composition of gut microbiome and type 1 diabetes incidence. PMID:24194504
Evolving concepts: how diet and the intestinal microbiome act as modulators of breast malignancy. PMID:24187630
The role of the human microbiome in otolaryngology-head and neck surgery: a contemporary review. PMID:24178066
Microbiome assembly across multiple body sites in low-birthweight infants. PMID:24169577
EBI metagenomics--a new resource for the analysis and archiving of metagenomic data. PMID:24165880
16S rRNA gene-based identification of microbiota associated with the parthenogenetic troglobiont sand fly Deanemyia maruaga (Diptera, Psychodidae) from central Amazon, Brazil. PMID:24159323
Patient-specific analysis of periodontal and peri-implant microbiomes. PMID:24158341
Systematic identification of gene families for use as "markers" for phylogenetic and phylogeny-driven ecological studies of bacteria and archaea and their major subgroups. PMID:24146954
Soil-borne bacterial structure and diversity does not reflect community activity in Pampa biome. PMID:24146873
A multifactor analysis of fungal and bacterial community structure in the root microbiome of mature Populus deltoides trees. PMID:24146861
Taxonomic precision of different hypervariable regions of 16S rRNA gene and annotation methods for functional bacterial groups in biological wastewater treatment. PMID:24146837
Isosteric and nonisosteric base pairs in RNA motifs: molecular dynamics and bioinformatics study of the sarcin-ricin internal loop. PMID:24144333
A microbial clock provides an accurate estimate of the postmortem interval in a mouse model system. PMID:24137541
The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria. PMID:24137540
Analytical tools and databases for metagenomics in the next-generation sequencing era. PMID:24124405
Sequentially aerated membrane biofilm reactors for autotrophic nitrogen removal: microbial community composition and dynamics. PMID:24112350
An in vitro model of the horse gut microbiome enables identification of lactate-utilizing bacteria that differentially respond to starch induction. PMID:24098591
The choice of PCR primers has great impact on assessments of bacterial community diversity and dynamics in a wastewater treatment plant. PMID:24098498
Assessing the human gut microbiota in metabolic diseases. PMID:24065795
Advancing our understanding of the human microbiome using QIIME. PMID:24060131
Alignment-free supervised classification of metagenomes by recursive SVM. PMID:24053649
SIV-induced instability of the chimpanzee gut microbiome. PMID:24034619
Alterations in the gut microbiota associated with HIV-1 infection. PMID:24034618
Genomic properties of Marine Group A bacteria indicate a role in the marine sulfur cycle. PMID:24030600
Resistance and resilience of the forest soil microbiome to logging-associated compaction. PMID:24030594
Genome of the marine alphaproteobacterium Hoeflea phototrophica type strain (DFL-43(T)). PMID:24019991
Genome of the R-body producing marine alphaproteobacterium Labrenzia alexandrii type strain (DFL-11(T)). PMID:24019989
Microbial life in a fjord: metagenomic analysis of a microbial mat in Chilean patagonia. PMID:24015199
Gut microbiota from twins discordant for obesity modulate metabolism in mice. PMID:24009397
Microbial diversity in The Cedars, an ultrabasic, ultrareducing, and low salinity serpentinizing ecosystem. PMID:24003156
Phylogeny-driven target selection for large-scale genome-sequencing (and other) projects. PMID:23991265
Genome sequence of the free-living aerobic spirochete Turneriella parva type strain (H(T)), and emendation of the species Turneriella parva. PMID:23991255
Genome sequence of the phylogenetically isolated spirochete Leptonema illini type strain (3055(T)). PMID:23991250
Complete genome sequence of the halophilic bacterium Spirochaeta africana type strain (Z-7692(T)) from the alkaline Lake Magadi in the East African Rift. PMID:23991249
Antibiotic resistance of bacteria isolated from the internal organs of edible snow crabs. PMID:23990916
Host-specific adaptation governs the interaction of the marine diatom, Pseudo-nitzschia and their microbiota. PMID:23985747
Archaeal assemblages inhabiting temperate mixed forest soil fluctuate in taxon composition and spatial distribution over time. PMID:23983618
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences. PMID:23975157
Short communication: Evidence that microbial translocation occurs in HIV-infected children in the United Kingdom. PMID:23972017
Bacterial diversity of surface sand samples from the Gobi and Taklamaken deserts. PMID:23963222
The role of the gastrointestinal microbiome in Helicobacter pylori pathogenesis. PMID:23962822
Genome sequence of the thermophilic fresh-water bacterium Spirochaeta caldaria type strain (H1(T)), reclassification of Spirochaeta caldaria, Spirochaeta stenostrepta, and Spirochaeta zuelzerae in the genus Treponema as Treponema caldaria comb. nov., Treponema stenostrepta comb. nov., and Treponema zuelzerae comb. nov., and emendation of the genus Treponema. PMID:23961314
Complete genome sequence of the moderate thermophile Anaerobaculum mobile type strain (NGA(T)). PMID:23961311
High-quality-draft genome sequence of the yellow-pigmented flavobacterium Joostella marina type strain (En5(T)). PMID:23961310
Complete genome sequence of the bile-resistant pigment-producing anaerobe Alistipes finegoldii type strain (AHN2437(T)). PMID:23961309
Complete genome sequence of Coriobacterium glomerans type strain (PW2(T)) from the midgut of Pyrrhocoris apterus L. (red soldier bug). PMID:23961308
Probiotic dosing of Ruminococcus flavefaciens affects rumen microbiome structure and function in reindeer. PMID:23959114
UPARSE: highly accurate OTU sequences from microbial amplicon reads. PMID:23955772
Taxonomically and functionally diverse microbial communities in deep crystalline rocks of the Fennoscandian shield. PMID:23949662
PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes. PMID:23942190
Novel cultivation-based approach to understanding the miscellaneous crenarchaeotic group (MCG) archaea from sedimentary ecosystems. PMID:23934495
Interactions in the microbiome: communities of organisms and communities of genes. PMID:23909933
Transcriptional response of bathypelagic marine bacterioplankton to the Deepwater Horizon oil spill. PMID:23902988
Diffuse flow environments within basalt- and sediment-based hydrothermal vent ecosystems harbor specialized microbial communities. PMID:23898323
Light structures phototroph, bacterial and fungal communities at the soil surface. PMID:23894406
Culture-independent investigation of the microbiome associated with the nematode Acrobeloides maximus. PMID:23894287
Romance of the three domains: how cladistics transformed the classification of cellular organisms. PMID:23873078
Bacterial community response to petroleum hydrocarbon amendments in freshwater, marine, and hypersaline water-containing microcosms. PMID:23872573
Transcriptional activation of c3 and hsp70 as part of the immune response of Acropora millepora to bacterial challenges. PMID:23861754
Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules. PMID:23858463
Assessment of bacterial and structural dynamics in aerobic granular biofilms. PMID:23847600
Alignment-free genome tree inference by learning group-specific distance metrics. PMID:23843191
DNA-SIP reveals that Syntrophaceae play an important role in methanogenic hexadecane degradation. PMID:23840866
Transcriptomic and phylogenetic analysis of a bacterial cell cycle reveals strong associations between gene co-expression and evolution. PMID:23829427
Factors Controlling Soil Microbial Biomass and Bacterial Diversity and Community Composition in a Cold Desert Ecosystem: Role of Geographic Scale. PMID:23824063
Altered enteric microbiota ecology in interleukin 10-deficient mice during development and progression of intestinal inflammation. PMID:23822920
The DNA60IFX contest. PMID:23809492
Nitrite oxidation in the upper water column and oxygen minimum zone of the eastern tropical North Pacific Ocean. PMID:23804152
Multilocus sequence analysis of Thermoanaerobacter isolates reveals recombining, but differentiated, populations from geothermal springs of the Uzon Caldera, Kamchatka, Russia. PMID:23801987
Functional microbial diversity explains groundwater chemistry in a pristine aquifer. PMID:23800252
MetaPathways: a modular pipeline for constructing pathway/genome databases from environmental sequence information. PMID:23800136
Skin microbiome imbalance in patients with STAT1/STAT3 defects impairs innate host defense responses. PMID:23796786
The culturable soil antibiotic resistome: a community of multi-drug resistant bacteria. PMID:23776501
Phylogenetic analysis of a microbialite-forming microbial mat from a hypersaline lake of the Kiritimati atoll, Central Pacific. PMID:23762495
Differential response of the cynomolgus macaque gut microbiota to Shigella infection. PMID:23755118
Metagenome sequence analysis of filamentous microbial communities obtained from geochemically distinct geothermal channels reveals specialization of three aquificales lineages. PMID:23755042
Dysbiosis signature of fecal microbiota in colorectal cancer patients. PMID:23733170
Diversity of the vaginal microbiome correlates with preterm birth. PMID:23715799
Community transcriptomic assembly reveals microbes that contribute to deep-sea carbon and nitrogen cycling. PMID:23702516
The human gut chip "HuGChip", an explorative phylogenetic microarray for determining gut microbiome diversity at family level. PMID:23690942
Significant changes in the skin microbiome mediated by the sport of roller derby. PMID:23638391
Microbial secondary succession in soil microcosms of a desert oasis in the Cuatro Cienegas Basin, Mexico. PMID:23638384
Impact of oral typhoid vaccination on the human gut microbiota and correlations with s. Typhi-specific immunological responses. PMID:23637957
Metagenomic identification of bacterioplankton taxa and pathways involved in microcystin degradation in lake erie. PMID:23637924
Assembly-driven community genomics of a hypersaline microbial ecosystem. PMID:23637883
phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PMID:23630581
Shedding light on the microbial community of the macropod foregut using 454-amplicon pyrosequencing. PMID:23626688
Metagenomic evidence for sulfur lithotrophy by Epsilonproteobacteria as the major energy source for primary productivity in a sub-aerial arctic glacial deposit, Borup Fiord Pass. PMID:23626586
Indoor airborne bacterial communities are influenced by ventilation, occupancy, and outdoor air source. PMID:23621155
Genomes of the class Erysipelotrichia clarify the firmicute origin of the class Mollicutes. PMID:23606477
Dynamics of cathode-associated microbial communities and metabolite profiles in a glycerol-fed bioelectrochemical system. PMID:23603684
Species identification and profiling of complex microbial communities using shotgun Illumina sequencing of 16S rRNA amplicon sequences. PMID:23579286
Effect of antimicrobial growth promoter administration on the intestinal microbiota of beef cattle. PMID:23578222
Integrating niche-based process and spatial process in biogeography of magnetotactic bacteria. PMID:23571508
Temperature-driven shifts in the epibiotic bacterial community composition of the brown macroalga Fucus vesiculosus. PMID:23568841
QC-Chain: fast and holistic quality control method for next-generation sequencing data. PMID:23565205
Pyrosequencing reveals high-temperature cellulolytic microbial consortia in Great Boiling Spring after in situ lignocellulose enrichment. PMID:23555835
Probabilistic inference of biochemical reactions in microbial communities from metagenomic sequences. PMID:23555216
Temporal variability in soil microbial communities across land-use types. PMID:23552625
Low temperature geomicrobiology follows host rock composition along a geochemical gradient in lau basin. PMID:23543862
Transcriptional response of nitrifying communities to wetting of dry soil. PMID:23524666
Ocean acidification reduces induction of coral settlement by crustose coralline algae. PMID:23504741
Evidence for a persistent microbial seed bank throughout the global ocean. PMID:23487761
From molecules to dynamic biological communities. PMID:23483075
Unique vaginal microbiota that includes an unknown Mycoplasma-like organism is associated with Trichomonas vaginalis infection. PMID:23482642
Overview of organohalide-respiring bacteria and a proposal for a classification system for reductive dehalogenases. PMID:23479752
Bacterial DNA sifted from the Trichoplax adhaerens (Animalia: Placozoa) genome project reveals a putative rickettsial endosymbiont. PMID:23475938
High-throughput sequencing and metagenomics: moving forward in the culture-independent analysis of food microbial ecology. PMID:23475615
Genome sequence of the orange-pigmented seawater bacterium Owenweeksia hongkongensis type strain (UST20020801(T)). PMID:23450211
Genome sequence of the Antarctic rhodopsins-containing flavobacterium Gillisia limnaea type strain (R-8282(T)). PMID:23450183
Complete genome sequence of the facultatively chemolithoautotrophic and methylotrophic alpha Proteobacterium Starkeya novella type strain (ATCC 8093(T)). PMID:23450099
Sewage reflects the distribution of human faecal Lachnospiraceae. PMID:23438335
Characterisation of gut microbiota in Ossabaw and Göttingen minipigs as models of obesity and metabolic syndrome. PMID:23437186
Optimization of routine identification of clinically relevant Gram-negative bacteria by use of matrix-assisted laser desorption ionization-time of flight mass spectrometry and the Bruker Biotyper. PMID:23426923
Analysis of the bacterial communities associated with two ant-plant symbioses. PMID:23417898
Complete genome sequence of the sulfate-reducing firmicute Desulfotomaculum ruminis type strain (DL(T)). PMID:23408247
Genome sequence of the flexirubin-pigmented soil bacterium Niabella soli type strain (JS13-8(T)). PMID:23408178
Complete genome sequence of the moderately thermophilic mineral-sulfide-oxidizing firmicute Sulfobacillus acidophilus type strain (NAL(T)). PMID:23407703
Short-read assembly of full-length 16S amplicons reveals bacterial diversity in subsurface sediments. PMID:23405248
Free-living bacterial communities associated with tubeworm (Ridgeia piscesae) aggregations in contrasting diffuse flow hydrothermal vent habitats at the Main Endeavour Field, Juan de Fuca Ridge. PMID:23401293
M-pick, a modularity-based method for OTU picking of 16S rRNA sequences. PMID:23387433
Base-calling algorithm with vocabulary (BCV) method for analyzing population sequencing chromatograms. PMID:23382983
Sputum microbiota in tuberculosis as revealed by 16S rRNA pyrosequencing. PMID:23365674
Evolution of a pathogen: a comparative genomics analysis identifies a genetic pathway to pathogenesis in Acinetobacter. PMID:23365658
Maximum likelihood estimation of frequencies of known haplotypes from pooled sequence data. PMID:23364324
Microbiome of the upper troposphere: species composition and prevalence, effects of tropical storms, and atmospheric implications. PMID:23359712
Distinct distal gut microbiome diversity and composition in healthy children from Bangladesh and the United States. PMID:23349750
Same, same but different: symbiotic bacterial associations in GBR sponges. PMID:23346080
Thermodesulfobacterium geofontis sp. nov., a hyperthermophilic, sulfate-reducing bacterium isolated from Obsidian Pool, Yellowstone National Park. PMID:23345010
Stimulatory effect of xenobiotics on oxidative electron transport of chemolithotrophic nitrifying bacteria used as biosensing element. PMID:23326438
Comparative genomic analysis of the microbiome [corrected] of herbivorous insects reveals eco-environmental adaptations: biotechnology applications. PMID:23326236
Chapter 12: Human microbiome analysis. PMID:23300406
Species-level classification of the vaginal microbiome. PMID:23282177
Improving the coverage of the cyanobacterial phylum using diversity-driven genome sequencing. PMID:23277585
Use of bifidobacterial specific terminal restriction fragment length polymorphisms to complement next generation sequence profiling of infant gut communities. PMID:23261904
Methanotrophic bacteria in oilsands tailings ponds of northern Alberta. PMID:23254511
Insights from characterizing extinct human gut microbiomes. PMID:23251439
Commensal bacteria and MAMPs are necessary for stress-induced increases in IL-1β and IL-18 but not IL-6, IL-10 or MCP-1. PMID:23236381
Sediment microbial communities in Great Boiling Spring are controlled by temperature and distinct from water communities. PMID:23235293
The bacterial composition within the Sarracenia purpurea model system: local scale differences and the relationship with the other members of the food web. PMID:23227224
Metagenomic analysis of a southern maritime antarctic soil. PMID:23227023
Microbial communities associated with wet flue gas desulfurization systems. PMID:23226147
Profiling bacterial diversity and taxonomic composition on speleothem surfaces in Kartchner Caverns, AZ. PMID:23224253
Bioinformatics for the Human Microbiome Project. PMID:23209389
Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing. PMID:23202435
RNA-based assessment of diversity and composition of active archaeal communities in the German Bight. PMID:23197941
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. PMID:23193283
The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote small sub-unit rRNA sequences with curated taxonomy. PMID:23193267
Comparative genomic and phylogenetic approaches to characterize the role of genetic recombination in mycobacterial evolution. PMID:23189179
OTU analysis using metagenomic shotgun sequencing data. PMID:23189163
Tackling the minority: sulfate-reducing bacteria in an archaea-dominated subsurface biofilm. PMID:23178669
Bioinformatic approaches for functional annotation and pathway inference in metagenomics data. PMID:23175748
Diversity, distribution and sources of bacteria in residential kitchens. PMID:23171378
Molecular diversity of Bacteroidales in fecal and environmental samples and swine-associated subpopulations. PMID:23160126
Statistical object data analysis of taxonomic trees from human microbiome data. PMID:23152838
Diversity and population structure of Marine Group A bacteria in the Northeast subarctic Pacific Ocean. PMID:23151638
CREST--classification resources for environmental sequence tags. PMID:23145153
Next generation sequencing to define prokaryotic and fungal diversity in the bovine rumen. PMID:23144861
Impact of long-term diesel contamination on soil microbial community structure. PMID:23144139
Phylogenetic analysis of microbial communities in different regions of the gastrointestinal tract in Panaque nigrolineatus, a wood-eating fish. PMID:23133540
Incorporating 16S gene copy number information improves estimates of microbial diversity and abundance. PMID:23133348
Comparing metabolic functionalities, community structures, and dynamics of herbicide-degrading communities cultivated with different substrate concentrations. PMID:23124226
Antagonism influences assembly of a Bacillus guild in a local community and is depicted as a food-chain network. PMID:23096405
Collaborative cloud-enabled tools allow rapid, reproducible biological insights. PMID:23096404
Co-occurrence patterns of plants and soil bacteria in the high-alpine subnival zone track environmental harshness. PMID:23087675
Routine habitat change: a source of unrecognized transient alteration of intestinal microbiota in laboratory mice. PMID:23082164
Geodermatophilus arenarius sp. nov., a xerophilic actinomycete isolated from Saharan desert sand in Chad. PMID:23081798
Species-level analysis of DNA sequence data from the NIH Human Microbiome Project. PMID:23071716
A bacterial sulfonolipid triggers multicellular development in the closest living relatives of animals. PMID:23066504
Nurture trumps nature in a longitudinal survey of salivary bacterial communities in twins from early adolescence to early adulthood. PMID:23064750
The transcription factor T-bet regulates intestinal inflammation mediated by interleukin-7 receptor+ innate lymphoid cells. PMID:23063332
Shifts in human skin and nares microbiota of healthy children and adults. PMID:23050952
Parallel-META: efficient metagenomic data analysis based on high-performance computation. PMID:23046922
Cellulolytic bacteria in the foregut of the dromedary camel (Camelus dromedarius). PMID:23042173
Comparative metagenomic analysis of soil microbial communities across three hexachlorocyclohexane contamination levels. PMID:23029440
PHYMYCO-DB: a curated database for analyses of fungal diversity and evolution. PMID:23028445
Novel bacterial community associated with 500-year-old unpreserved archaeological wood from King Henry VIII's Tudor Warship the Mary Rose. PMID:23023757
Secondary structure improves OTU assignments of 16S rRNA gene sequences. PMID:23018771
Culture-dependent and -independent investigations of microbial diversity on urinary catheters. PMID:23015674
The effect of training set on the classification of honey bee gut microbiota using the Naïve Bayesian Classifier. PMID:23013113
Electrosynthesis of commodity chemicals by an autotrophic microbial community. PMID:23001672
Microbial communities in the subglacial waters of the Vatnajökull ice cap, Iceland. PMID:22975882
The role of coral-associated bacterial communities in Australian Subtropical White Syndrome of Turbinaria mesenterina. PMID:22970188
Metagenomic analysis reveals a functional signature for biomass degradation by cecal microbiota in the leaf-eating flying squirrel (Petaurista alborufus lena). PMID:22963241
A direct PCR approach to accelerate analyses of human-associated microbial communities. PMID:22962617
Exploring bacterial diversity in hospital environments by GS-FLX Titanium pyrosequencing. PMID:22952889
Modeling formamide denaturation of probe-target hybrids for improved microarray probe design in microbial diagnostics. PMID:22952791
Phylogenetic and functional metagenomic profiling for assessing microbial biodiversity in environmental monitoring. PMID:22952724
Diversity of Bacteria and Archaea in hypersaline sediment from Death Valley National Park, California. PMID:22950020
Short-term effects of temperature on the abundance and diversity of magnetotactic cocci. PMID:22950012
Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies. PMID:22933715
Bacterial communities and the nitrogen cycle in the gypsum soils of Cuatro Ciénegas Basin, coahuila: a Mars analogue. PMID:22920518
Comparative metagenomics of two microbial mats at Cuatro Ciénegas Basin II: community structure and composition in oligotrophic environments. PMID:22920516
Compositional stability of a salivary bacterial population against supragingival microbiota shift following periodontal therapy. PMID:22916162
Detection of autotrophic verrucomicrobial methanotrophs in a geothermal environment using stable isotope probing. PMID:22912630
Stimulated bacterioplankton growth and selection for certain bacterial taxa in the vicinity of the ctenophore Mnemiopsis leidyi. PMID:22912629
Millimeter-scale patterns of phylogenetic and trait diversity in a salt marsh microbial mat. PMID:22908010
The gut microbiota in IBD. PMID:22907164
Analysis of the gut microbiota in the old order Amish and its relation to the metabolic syndrome. PMID:22905200
Intergenerational transfer of specific bacteria in corals and possible implications for offspring fitness. PMID:22895828
Bacterial diversity, community structure and potential growth rates along an estuarine salinity gradient. PMID:22895159
The influence of in situ chemical oxidation on microbial community composition in groundwater contaminated with chlorinated solvents. PMID:22864851
Defining the core Arabidopsis thaliana root microbiome. PMID:22859206
Significant and persistent impact of timber harvesting on soil microbial communities in Northern coniferous forests. PMID:22855212
Isolation of biosurfactant-producing bacteria from the Rancho La Brea Tar Pits. PMID:22851192
Distinct soil bacterial communities revealed under a diversely managed agroecosystem. PMID:22844402
Microbial dysbiosis in pediatric patients with Crohn's disease. PMID:22837318
Phylogenetic stratigraphy in the Guerrero Negro hypersaline microbial mat. PMID:22832344
Testing the limits of 454 pyrotag sequencing: reproducibility, quantitative assessment and comparison to T-RFLP fingerprinting of aquifer microbes. PMID:22808168
Microbiological and environmental issues in show caves. PMID:22806150
Global biogeography of SAR11 marine bacteria. PMID:22806143
Microbial interactions: from networks to models. PMID:22796884
Targeted recovery of novel phylogenetic diversity from next-generation sequence data. PMID:22791239
Extraction of bacterial RNA from soil: challenges and solutions. PMID:22791042
Polytomy identification in microbial phylogenetic reconstruction. PMID:22784621
Ultrafast clustering algorithms for metagenomic sequence analysis. PMID:22772836
Genome sequence of the ocean sediment bacterium Saccharomonospora marina type strain (XMU15(T)). PMID:22768369
Complete genome sequence of the orange-red pigmented, radioresistant Deinococcus proteolyticus type strain (MRP(T)). PMID:22768367
Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314(T)). PMID:22768366
Genome sequence of the soil bacterium Saccharomonospora azurea type strain (NA-128(T)). PMID:22768365
Permanent draft genome sequence of the gliding predator Saprospira grandis strain Sa g1 (= HR1). PMID:22768364
Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1(T)), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaerochaeta. PMID:22768363
Complete genome sequence of the facultatively anaerobic, appendaged bacterium Muricauda ruestringensis type strain (B1(T)). PMID:22768362
Genome sequence of the homoacetogenic bacterium Holophaga foetida type strain (TMBS4(T)). PMID:22768361
Complete genome sequence of the thermophilic sulfate-reducing ocean bacterium Thermodesulfatator indicus type strain (CIR29812(T)). PMID:22768359
Complete genome sequence of the aquatic bacterium Runella slithyformis type strain (LSU 4(T)). PMID:22768358
Oral and airway microbiota in HIV-infected pneumonia patients. PMID:22760045
Microbial communities at the borehole observatory on the Costa Rica Rift flank (Ocean Drilling Program Hole 896A). PMID:22754551
Consumption of lysozyme-rich milk can alter microbial fecal populations. PMID:22752159
Thermal and sedimentation stress are unlikely causes of brown spot syndrome in the coral reef sponge, Ianthella basta. PMID:22745827
Molecular analysis of meso- and thermophilic microbiota associated with anaerobic biowaste degradation. PMID:22727142
Bacterial communities in women with bacterial vaginosis: high resolution phylogenetic analyses reveal relationships of microbiota to clinical criteria. PMID:22719852
Host genes related to paneth cells and xenobiotic metabolism are associated with shifts in human ileum-associated microbial composition. PMID:22719822
Inflammatory bowel diseases phenotype, C. difficile and NOD2 genotype are associated with shifts in human ileum associated microbial composition. PMID:22719818
Metagenome, metatranscriptome and single-cell sequencing reveal microbial response to Deepwater Horizon oil spill. PMID:22717885
Archaeal diversity: temporal variation in the arsenic-rich creek sediments of Carnoulès Mine, France. PMID:22714283
Comparative survey of rumen microbial communities and metabolites across one caprine and three bovine groups, using bar-coded pyrosequencing and ¹H nuclear magnetic resonance spectroscopy. PMID:22706048
Metagenomics of the Svalbard reindeer rumen microbiome reveals abundance of polysaccharide utilization loci. PMID:22701672
Geographic distance and pH drive bacterial distribution in alkaline lake sediments across Tibetan Plateau. PMID:22676420
Complete genome sequence of the sulfur compounds oxidizing chemolithoautotroph Sulfuricurvum kujiense type strain (YK-1(T)). PMID:22675602
Complete genome sequence of Polynucleobacter necessarius subsp. asymbioticus type strain (QLW-P1DMWA-1(T)). PMID:22675600
Complete genome sequence of the aerobic, heterotroph Marinithermus hydrothermalis type strain (T1(T)) from a deep-sea hydrothermal vent chimney. PMID:22675595
Complete genome sequence of the thermophilic sulfur-reducer Desulfurobacterium thermolithotrophum type strain (BSA(T)) from a deep-sea hydrothermal vent. PMID:22675590
Genome sequence of the filamentous, gliding Thiothrix nivea neotype strain (JP2(T)). PMID:22675589
Complete genome sequence of the halophilic and highly halotolerant Chromohalobacter salexigens type strain (1H11(T)). PMID:22675587
Complete genome sequence of the filamentous gliding predatory bacterium Herpetosiphon aurantiacus type strain (114-95(T)). PMID:22675585
Complete genome sequence of Hirschia baltica type strain (IFAM 1418(T)). PMID:22675580
Characterization of a biogas-producing microbial community by short-read next generation DNA sequencing. PMID:22673110
Office space bacterial abundance and diversity in three metropolitan areas. PMID:22666400
Bacterial communities in the sediments of Dianchi Lake, a partitioned eutrophic waterbody in China. PMID:22666393
Archaea in organic-lean and organic-rich marine subsurface sediments: an environmental gradient reflected in distinct phylogenetic lineages. PMID:22666218
Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts. PMID:22665442
Denaturing gradient gel electrophoresis and barcoded pyrosequencing reveal unprecedented archaeal diversity in mangrove sediment and rhizosphere samples. PMID:22660713
Coral-bacterial communities before and after a coral mass spawning event on Ningaloo Reef. PMID:22629343
The metagenome of an anaerobic microbial community decomposing poplar wood chips. PMID:22629327
Bacterial communities associated with production facilities of two newly drilled thermogenic natural gas wells in the Barnett Shale (Texas, USA). PMID:22622766
TaxMan: a server to trim rRNA reference databases and inspect taxonomic coverage. PMID:22618877
Bacterial communities of the coronal sulcus and distal urethra of adolescent males. PMID:22606251
Metagenomics - a guide from sampling to data analysis. PMID:22587947
Microbial ecology of expanding oxygen minimum zones. PMID:22580367
A comparative evaluation of sequence classification programs. PMID:22574964
Convergent development of anodic bacterial communities in microbial fuel cells. PMID:22572637
The canine oral microbiome. PMID:22558330
Factors that affect large subunit ribosomal DNA amplicon sequencing studies of fungal communities: classification method, primer choice, and error. PMID:22558215
SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. PMID:22556368
Bacterial communities in different sections of a municipal wastewater treatment plant revealed by 16S rDNA 454 pyrosequencing. PMID:22555912
Coverage evaluation of universal bacterial primers using the metagenomic datasets. PMID:22554309
A metagenomic study of diet-dependent interaction between gut microbiota and host in infants reveals differences in immune response. PMID:22546241
The interpersonal and intrapersonal diversity of human-associated microbiota in key body sites. PMID:22541361
Human occupancy as a source of indoor airborne bacteria. PMID:22529946
Long-term characterization of free-living and particle-associated bacterial communities in Lake Tiefwaren reveals distinct seasonal patterns. PMID:22526401
Comparison of DNA extraction methods for microbial community profiling with an application to pediatric bronchoalveolar lavage samples. PMID:22514642
BactQuant: an enhanced broad-coverage bacterial quantitative real-time PCR assay. PMID:22510143
A Streamlined Strategy for Biohydrogen Production with Halanaerobium hydrogeniformans, an Alkaliphilic Bacterium. PMID:22509174
Diversity and partitioning of bacterial populations within the accessory nidamental gland of the squid Euprymna scolopes. PMID:22504817
Vertical segregation and phylogenetic characterization of ammonia-oxidizing Archaea in a deep oligotrophic lake. PMID:22495069
Development and evaluation of a quantitative PCR assay targeting sandhill crane (Grus canadensis) fecal pollution. PMID:22492437
Carbon, metals, and grain size correlate with bacterial community structure in sediments of a high arsenic aquifer. PMID:22470368
Predatory Bacteriovorax communities ordered by various prey species. PMID:22461907
Increased levels of multiresistant bacteria and resistance genes after wastewater treatment and their dissemination into lake geneva, Switzerland. PMID:22461783
Spatial and temporal dynamics of the microbial community in the Hanford unconfined aquifer. PMID:22456444
Molecular profiling of oral microbiota in jawbone samples of bisphosphonate-related osteonecrosis of the jaw. PMID:22443347
Grinder: a versatile amplicon and shotgun sequence simulator. PMID:22434876
In situ TCE degradation mediated by complex dehalorespiring communities during biostimulation processes. PMID:22432919
Early life antibiotic-driven changes in microbiota enhance susceptibility to allergic asthma. PMID:22422004
Pyrosequencing reveals unique microbial signatures associated with healthy and failing dental implants. PMID:22417294
Central role of dynamic tidal biofilms dominated by aerobic hydrocarbonoclastic bacteria and diatoms in the biodegradation of hydrocarbons in coastal mudflats. PMID:22407688
Evaluation of the GenBank, EzTaxon, and BIBI services for molecular identification of clinical blood culture isolates that were unidentifiable or misidentified by conventional methods. PMID:22403421
Microbial and geochemical assessment of bauxitic un-mined and post-mined chronosequence soils from Mocho Mountains, Jamaica. PMID:22391797
Methanogen colonisation does not significantly alter acetogen diversity in lambs isolated 17 h after birth and raised aseptically. PMID:22383121
Identification of novel positive-strand RNA viruses by metagenomic analysis of archaea-dominated Yellowstone hot springs. PMID:22379100
i-rDNA: alignment-free algorithm for rapid in silico detection of ribosomal gene fragments from metagenomic sequence data sets. PMID:22369265
Discrimination of the oral microbiota associated with high hydrogen sulfide and methyl mercaptan production. PMID:22355729
Bacterial biogeography of the human digestive tract. PMID:22355685
Anaerobic decomposition of switchgrass by tropical soil-derived feedstock-adapted consortia. PMID:22354956
Molecular methods for pathogen and microbial community detection and characterization: current and potential application in diagnostic microbiology. PMID:22342514
Measuring the microbiome: perspectives on advances in DNA-based techniques for exploring microbial life. PMID:22308073
Novel high-rank phylogenetic lineages within a sulfur spring (Zodletone Spring, Oklahoma), revealed using a combined pyrosequencing-sanger approach. PMID:22307312
Pyrosequencing as a tool for better understanding of human microbiomes. PMID:22279602
Life and death of deep-sea vents: bacterial diversity and ecosystem succession on inactive hydrothermal sulfides. PMID:22275502
Size-resolved emission rates of airborne bacteria and fungi in an occupied classroom. PMID:22257156
Unexpected stability of Bacteroidetes and Firmicutes communities in laboratory biogas reactors fed with different defined substrates. PMID:22247168
Wide distribution of closely related, antibiotic-producing Arthrobacter strains throughout the Arctic Ocean. PMID:22247128
Sequencing our way towards understanding global eukaryotic biodiversity. PMID:22244672
Selection of primers for optimal taxonomic classification of environmental 16S rRNA gene sequences. PMID:22237546
Comparison of gull feces-specific assays targeting the 16S rRNA genes of Catellicoccus marimammalium and Streptococcus spp. PMID:22226950
Branched chain fatty acids reduce the incidence of necrotizing enterocolitis and alter gastrointestinal microbial ecology in a neonatal rat model. PMID:22194981
Recruitment of members from the rare biosphere of marine bacterioplankton communities after an environmental disturbance. PMID:22194288
Human microbiome and HIV/AIDS. PMID:22193889
Genotypic distribution of a specialist model microorganism, Methanosaeta, along an estuarine gradient: does metabolic restriction limit niche differentiation potential? PMID:22183047
Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family Alicyclobacillaceae da Costa and Rainey, 2010. PMID:22180816
Complete genome sequence of Tolumonas auensis type strain (TA 4). PMID:22180815
Non-contiguous finished genome sequence and contextual data of the filamentous soil bacterium Ktedonobacter racemifer type strain (SOSP1-21). PMID:22180814
Genome sequence of the moderately thermophilic halophile Flexistipes sinusarabici strain (MAS10). PMID:22180813
Non-contiguous finished genome sequence of the opportunistic oral pathogen Prevotella multisaccharivorax type strain (PPPA20). PMID:22180809
Complete genome sequence of the gliding, heparinolytic Pedobacter saltans type strain (113). PMID:22180808
Complete genome sequence of the gliding freshwater bacterium Fluviicola taffensis type strain (RW262). PMID:22180807
Experimental and analytical tools for studying the human microbiome. PMID:22179717
Phylogenetic diversities and community structure of members of the extremely halophilic Archaea (order Halobacteriales) in multiple saline sediment habitats. PMID:22179255
Denitrifying bacteria from the genus Rhodanobacter dominate bacterial communities in the highly contaminated subsurface of a nuclear legacy waste site. PMID:22179233
A suite of citrate-derived siderophores from a marine Vibrio species isolated following the Deepwater Horizon oil spill. PMID:22178670
Phyloseq: a bioconductor package for handling and analysis of high-throughput phylogenetic sequence data. PMID:22174279
Comparison of Illumina paired-end and single-direction sequencing for microbial 16S rRNA gene amplicon surveys. PMID:22170427
The Inter-Valley Soil Comparative Survey: the ecology of Dry Valley edaphic microbial communities. PMID:22170424
High-throughput isotopic analysis of RNA microarrays to quantify microbial resource use. PMID:22158395
Evidence of a robust resident bacteriophage population revealed through analysis of the human salivary virome. PMID:22158393
Identification and removal of ribosomal RNA sequences from metatranscriptomes. PMID:22155869
Preliminary characterization of the oral microbiota of Chinese adults with and without gingivitis. PMID:22152152
An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea. PMID:22134646
Microbial biogeography of public restroom surfaces. PMID:22132229
Analysis of gut microbial regulation of host gene expression along the length of the gut and regulation of gut microbial ecology through MyD88. PMID:22115825
Identification and Quantification of Abundant Species from Pyrosequences of 16S rRNA by Consensus Alignment. PMID:22102981
DECIPHER, a search-based approach to chimera identification for 16S rRNA sequences. PMID:22101057
Phylogenetic microarray analysis of a microbial community performing reductive dechlorination at a TCE-contaminated site. PMID:22091783
Vaginal microbiome and epithelial gene array in post-menopausal women with moderate to severe dryness. PMID:22073175
The Western English Channel contains a persistent microbial seed bank. PMID:22071345
Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw. PMID:22056985
Exploring the diversity of Gardnerella vaginalis in the genitourinary tract microbiota of monogamous couples through subtle nucleotide variation. PMID:22046340
Ecology drives a global network of gene exchange connecting the human microbiome. PMID:22037308
Hydrogen production in photosynthetic microbial mats in the Elkhorn Slough estuary, Monterey Bay. PMID:22011721
Resistance to thermal stress in corals without changes in symbiont composition. PMID:21976690
Tidying up international nucleotide sequence databases: ecological, geographical and sequence quality annotation of its sequences of mycorrhizal fungi. PMID:21949797
Hydrocarbon-degrading bacteria and the bacterial community response in gulf of Mexico beach sands impacted by the deepwater horizon oil spill. PMID:21948834
In-depth characterization via complementing culture-independent approaches of the microbial community in an acidic hot spring of the Colombian Andes. PMID:21947461
Dynamics of microbial community structure of and enhanced biological phosphorus removal by aerobic granules cultivated on propionate or acetate. PMID:21926195
Partial genome assembly for a candidate division OP11 single cell from an anoxic spring (Zodletone Spring, Oklahoma). PMID:21908640
TheViral MetaGenome Annotation Pipeline(VMGAP):an automated tool for the functional annotation of viral Metagenomic shotgun sequencing data. PMID:21886867
Complete genome sequence of the acetate-degrading sulfate reducer Desulfobacca acetoxidans type strain (ASRB2). PMID:21886866
Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1A). PMID:21886865
Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyR). PMID:21886864
Complete genome sequence of Treponema succinifaciens type strain (6091). PMID:21886863
Complete genome sequence of Haliscomenobacter hydrossis type strain (O). PMID:21886862
Complete genome sequence of Tsukamurella paurometabola type strain (no. 33). PMID:21886861
Complete genome sequence of Mahella australiensis type strain (50-1 BON). PMID:21886860
Complete genome sequence of Nitratifractor salsuginis type strain (E9I37-1). PMID:21886859
Complete genome sequence of the extremely halophilic Halanaerobium praevalens type strain (GSL). PMID:21886858
Complete genome sequence of the thermophilic sulfur-reducer Hippea maritima type strain (MH(2)). PMID:21886857
Complete genome sequence of Rhodospirillum rubrum type strain (S1). PMID:21886856
Antibiotic effects on bacterial profile in osteonecrosis of the jaw. PMID:21883710
Bacterial community comparisons by taxonomy-supervised analysis independent of sequence alignment and clustering. PMID:21873204
Tobacco smoking affects bacterial acquisition and colonization in oral biofilms. PMID:21859855
Effect of sodium bisulfite injection on the microbial community composition in a brackish-water-transporting pipeline. PMID:21856836
Defining seasonal marine microbial community dynamics. PMID:21850055
Differential growth responses of soil bacterial taxa to carbon substrates of varying chemical recalcitrance. PMID:21833332
Enteral tube feeding alters the oral indigenous microbiota in elderly adults. PMID:21821752
Sources of bacteria in outdoor air across cities in the midwestern United States. PMID:21803902
Studying the Enteric Microbiome in Inflammatory Bowel Diseases: Getting through the Growing Pains and Moving Forward. PMID:21772835
A limited microbial consortium is responsible for extended bioreduction of uranium in a contaminated aquifer. PMID:21764967
PCR amplification-independent methods for detection of microbial communities by the high-density microarray PhyloChip. PMID:21764955
The gut as reservoir of antibiotic resistance: microbial diversity of tetracycline resistance in mother and infant. PMID:21738748
Target region selection is a critical determinant of community fingerprints generated by 16S pyrosequencing. PMID:21738596
Analyses of bacterial communities in meju, a Korean traditional fermented soybean bricks, by cultivation-based and pyrosequencing methods. PMID:21717316
Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys. PMID:21716311
Microbial community structure of Arctic multiyear sea ice and surface seawater by 454 sequencing of the 16S RNA gene. PMID:21716307
Ammonia-oxidizing archaea and ammonia-oxidizing bacteria in six full-scale wastewater treatment bioreactors. PMID:21706171
Isolation and characterization of Methanothermobacter crinale sp. nov., a novel hydrogenotrophic methanogen from the Shengli oil field. PMID:21705537
Non-contiguous finished genome sequence of Bacteroides coprosuis type strain (PC139). PMID:21677860
Complete genome sequence of Cellulophaga lytica type strain (LIM-21). PMID:21677859
Complete genome sequence of Oceanithermus profundus type strain (506). PMID:21677858
Complete genome sequence of Odoribacter splanchnicus type strain (1651/6). PMID:21677857
Complete genome sequence of Bacteroides salanitronis type strain (BL78). PMID:21677856
Complete genome sequence of Desulfurococcus mucosus type strain (O7/1). PMID:21677854
Complete genome sequence of Deinococcus maricopensis type strain (LB-34). PMID:21677853
Complete genome sequence of Marivirga tractuosa type strain (H-43). PMID:21677852
Complete genome sequence of Riemerella anatipestifer type strain (ATCC 11845). PMID:21677851
Complete genome sequence of Hydrogenobacter thermophilus type strain (TK-6). PMID:21677850
Microbial ecology of the dark ocean above, at, and below the seafloor. PMID:21646433
Application of two-part statistics for comparison of sequence variant counts. PMID:21629788
Moving pictures of the human microbiome. PMID:21624126
Influence of the drilling mud formulation process on the bacterial communities in thermogenic natural gas wells of the Barnett Shale. PMID:21602366
EMIRGE: reconstruction of full-length ribosomal genes from microbial community short read sequencing data. PMID:21595876
Comparative fecal metagenomics unveils unique functional capacity of the swine gut. PMID:21575148
Characterization of trapped lignin-degrading microbes in tropical forest soil. PMID:21559391
Validation of heavy-water stable isotope probing for the characterization of rapidly responding soil bacteria. PMID:21551285
Archaea in Yellowstone Lake. PMID:21544103
Simrank: Rapid and sensitive general-purpose k-mer search tool. PMID:21524302
Variance adjusted weighted UniFrac: a powerful beta diversity measure for comparing communities based on phylogeny. PMID:21518444
A novel method for determining microflora composition using dynamic phylogenetic analysis of 16S ribosomal RNA deep sequencing data. PMID:21515358
Evidence for an evolutionary antagonism between Mrr and Type III modification systems. PMID:21504983
Novel biphenyl-oxidizing bacteria and dioxygenase genes from a korean tidal mudflat. PMID:21498748
Complete genome sequence of Desulfobulbus propionicus type strain (1pr3). PMID:21475592
Complete genome sequence of Truepera radiovictrix type strain (RQ-24). PMID:21475591
Complete genome sequence of Weeksella virosa type strain (9751). PMID:21475590
Complete genome sequence of Cellulophaga algicola type strain (IC166). PMID:21475589
Complete genome sequence of Isosphaera pallida type strain (IS1B). PMID:21475588
Complete genome sequence of Calditerrivibrio nitroreducens type strain (Yu37-1). PMID:21475587
Complete genome sequence of Bacteroides helcogenes type strain (P 36-108). PMID:21475586
Complete genome sequence of Paludibacter propionicigenes type strain (WB4). PMID:21475585
Complete genome sequence of Thermomonospora curvata type strain (B9). PMID:21475583
Complete genome sequence of Leadbetterella byssophila type strain (4M15). PMID:21475582
Transitions in bacterial communities along the 2000 km salinity gradient of the Baltic Sea. PMID:21472016
Effect of warming and drought on grassland microbial communities. PMID:21451582
Stalking the fourth domain in metagenomic data: searching for, discovering, and interpreting novel, deep branches in marker gene phylogenetic trees. PMID:21437252
Ovine pedomics: the first study of the ovine foot 16S rRNA-based microbiome. PMID:21430786
Assessing and improving methods used in operational taxonomic unit-based approaches for 16S rRNA gene sequence analysis. PMID:21421784
Depleted dissolved organic carbon and distinct bacterial communities in the water column of a rapid-flushing coral reef ecosystem. PMID:21390080
A guide to the natural history of freshwater lake bacteria. PMID:21372319
Chemolithotrophic acetogenic H2/CO2 utilization in Italian rice field soil. PMID:21368906
Bacterial community structures are unique and resilient in full-scale bioenergy systems. PMID:21368115
Genome of a low-salinity ammonia-oxidizing archaeon determined by single-cell and metagenomic analysis. PMID:21364937
PrimerProspector: de novo design and taxonomic analysis of barcoded polymerase chain reaction primers. PMID:21349862
Comparison of the bacterial symbiont composition of the formosan subterranean termite from its native and introduced range. PMID:21347207
Black Box Chimera Check (B2C2): a Windows-Based Software for Batch Depletion of Chimeras from Bacterial 16S rRNA Gene Datasets. PMID:21339894
Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins. PMID:21317366
Complete genome sequence of 'Thermobaculum terrenum' type strain (YNP1). PMID:21304745
Complete genome sequence of Spirochaeta smaragdinae type strain (SEBR 4228). PMID:21304743
Complete genome sequence of Arcanobacterium haemolyticum type strain (11018). PMID:21304742
Complete genome sequence of Thermaerobacter marianensis type strain (7p75a). PMID:21304738
Complete genome sequence of Nocardiopsis dassonvillei type strain (IMRU 509). PMID:21304737
Complete genome sequence of Methanothermus fervidus type strain (V24S). PMID:21304736
Complete genome sequence of Ilyobacter polytropus type strain (CuHbu1). PMID:21304735
Complete genome sequence of Intrasporangium calvum type strain (7 KIP). PMID:21304734
Non-contiguous finished genome sequence of Aminomonas paucivorans type strain (GLU-3). PMID:21304733
Complete genome sequence of Desulfarculus baarsii type strain (2st14). PMID:21304732
Complete genome sequence of Syntrophothermus lipocalidus type strain (TGB-C1). PMID:21304731
Studies on monitoring and tracking genetic resources: an executive summary. PMID:21304641
Microbial communities of the upper respiratory tract and otitis media in children. PMID:21285435
PhylOTU: a high-throughput procedure quantifies microbial community diversity and resolves novel taxa from metagenomic data. PMID:21283775
Fecal bacteroidales diversity and decay in response to variations in temperature and salinity. PMID:21278280
Viral metagenome analysis to guide human pathogen monitoring in environmental samples. PMID:21272046
Chemical basis of the synergism and antagonism in microbial communities in the nests of leaf-cutting ants. PMID:21245311
Seasonal changes of freshwater ammonia-oxidizing archaeal assemblages and nitrogen species in oligotrophic alpine lakes. PMID:21239556
High-throughput clone library analysis of the mucosa-associated microbiota reveals dysbiosis and differences between inflamed and non-inflamed regions of the intestine in inflammatory bowel disease. PMID:21219646
Robust computational analysis of rRNA hypervariable tag datasets. PMID:21217830
Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. PMID:21212162
Global patterns in the biogeography of bacterial taxa. PMID:21199253
Airway microbiota and bronchial hyperresponsiveness in patients with suboptimally controlled asthma. PMID:21194740
Aquatic microbial habitats within a neotropical rainforest: bromeliads and pH-associated trends in bacterial diversity and composition. PMID:21174086
Metagenomic analyses: past and future trends. PMID:21169428
Integrated metatranscriptomic and metagenomic analyses of stratified microbial assemblages in the open ocean. PMID:21151004
Partitioning core and satellite taxa from within cystic fibrosis lung bacterial communities. PMID:21151003
Analysis of streptococcal CRISPRs from human saliva reveals substantial sequence diversity within and between subjects over time. PMID:21149389
Phylogenomic analysis of the uracil-DNA glycosylase superfamily. PMID:21135150
Characteristic male urine microbiomes associate with asymptomatic sexually transmitted infection. PMID:21124791
STITCH: algorithm to splice, trim, identify, track, and capture the uniqueness of 16S rRNAs sequence pairs using public or in-house database. PMID:21113709
Identification of sulfur-cycle prokaryotes in a low-sulfate lake (Lake Pavin) using aprA and 16S rRNA gene markers. PMID:21107833
Spatial variability in airborne bacterial communities across land-use types and their relationship to the bacterial communities of potential source environments. PMID:21048802
Ecophysiology of Fe-cycling bacteria in acidic sediments. PMID:20971876
Microbial biodegradation of aromatic alkanoic naphthenic acids is affected by the degree of alkyl side chain branching. PMID:20962873
Planctomycetes dominate biofilms on surfaces of the kelp Laminaria hyperborea. PMID:20950420
Phylometrics: a pipeline for inferring phylogenetic trees from a sequence relationship network perspective. PMID:20946601
Human oral, gut, and plaque microbiota in patients with atherosclerosis. PMID:20937873
Advanced computational algorithms for microbial community analysis using massive 16S rRNA sequence data. PMID:20929878
Structure of the human gastric bacterial community in relation to Helicobacter pylori status. PMID:20927139
Identification of species by multiplex analysis of variable-length sequences. PMID:20923781
An insect herbivore microbiome with high plant biomass-degrading capacity. PMID:20885794
Fine-scale bacterial beta diversity within a complex ecosystem (Zodletone Spring, OK, USA): the role of the rare biosphere. PMID:20865128
Characterization of bacterial community structure in a drinking water distribution system during an occurrence of red water. PMID:20851995
Comparative analysis of microbial diversity in Longitarsus flea beetles (Coleoptera: Chrysomelidae). PMID:20844936
The microbiota mediates pathogen clearance from the gut lumen after non-typhoidal Salmonella diarrhea. PMID:20844578
Disease phenotype and genotype are associated with shifts in intestinal-associated microbiota in inflammatory bowel diseases. PMID:20839241
Molecular studies of microbial community structure on stained pages of Leonardo da Vinci's Atlantic Codex. PMID:20811884
Annual and seasonal variation in the phyllosphere bacterial community associated with leaves of the southern Magnolia (Magnolia grandiflora). PMID:20809288
Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea. PMID:20807744
From structure to function: the ecology of host-associated microbial communities. PMID:20805407
Comparative analyses of the bacterial microbiota of the human nostril and oropharynx. PMID:20802827
Vertical distribution of ammonia-oxidizing crenarchaeota and methanogens in the epipelagic waters of Lake Kivu (Rwanda-Democratic Republic of the Congo). PMID:20802065
Reshaping the gut microbiome with bacterial transplantation and antibiotic intake. PMID:20736229
Assessing gut microbial diversity from feces and rectal mucosa. PMID:20734040
Sea-land transitions in isopods: pattern of symbiont distribution in two species of intertidal isopods Ligia pallasii and Ligia occidentalis in the Eastern Pacific. PMID:20730112
Analysis of human and animal fecal microbiota for microbial source tracking. PMID:20686512
Comparative metagenomics of bathypelagic plankton and bottom sediment from the Sea of Marmara. PMID:20668488
Adaptation to herbivory by the Tammar wallaby includes bacterial and glycoside hydrolase profiles different from other herbivores. PMID:20668243
Phylogenetic evidence of noteworthy microflora from the subsurface of the former Homestake gold mine, Lead, South Dakota. PMID:20662386
The human oral microbiome. PMID:20656903
Community structure of subsurface biofilms in the thermal sulfidic caves ofAcquasanta Terme, Italy. PMID:20639361
The effects of alignment quality, distance calculation method, sequence filtering, and region on the analysis of 16S rRNA gene-based studies. PMID:20628621
Exploring the role of microorganisms in the disease-like syndrome affecting the sponge Ianthella basta. PMID:20622129
Characterization of coastal urban watershed bacterial communities leads to alternative community-based indicators. PMID:20585654
Airway microbiota and pathogen abundance in age-stratified cystic fibrosis patients. PMID:20585638
Delivery mode shapes the acquisition and structure of the initial microbiota across multiple body habitats in newborns. PMID:20566857
VITCOMIC: visualization tool for taxonomic compositions of microbial communities based on 16S rRNA gene sequences. PMID:20565810
The bacteriology of pouchitis: a molecular phylogenetic analysis using 16S rRNA gene cloning and sequencing. PMID:20562611
Introducing W.A.T.E.R.S.: a workflow for the alignment, taxonomy, and ecology of ribosomal sequences. PMID:20540779
Expansion of the protein repertoire in newly explored environments: human gut microbiome specific protein families. PMID:20532204
Postprandial remodeling of the gut microbiota in Burmese pythons. PMID:20520652
A global network of coexisting microbes from environmental and whole-genome sequence data. PMID:20458099
Effect of storage conditions on the assessment of bacterial community structure in soil and human-associated samples. PMID:20412303
Streptococcus gallolyticus subspecies pasteurianus (biotype II/2), a newly reported cause of adult meningitis. PMID:20357211
Bacterial diversity in the oral cavity of 10 healthy individuals. PMID:20336157
Alignment and clustering of phylogenetic markers--implications for microbial diversity studies. PMID:20334679
Comparative metagenomics and population dynamics of the gut microbiota in mother and infant. PMID:20333224
Prevalence and diversity of microbes in the amniotic fluid, the fetal inflammatory response, and pregnancy outcome in women with preterm pre-labor rupture of membranes. PMID:20331587
Application of molecular techniques to elucidate the influence of cellulosic waste on the bacterial community structure at a simulated low-level-radioactive-waste site. PMID:20305022
Forensic identification using skin bacterial communities. PMID:20231444
FastTree 2--approximately maximum-likelihood trees for large alignments. PMID:20224823
Microbial community response to a simulated hydrocarbon spill in mangrove sediments. PMID:20221723
Threatened corals provide underexplored microbial habitats. PMID:20221265
The influence of different land uses on the structure of archaeal communities in Amazonian anthrosols based on 16S rRNA and amoA genes. PMID:20204349
Ribosomal RNA diversity predicts genome diversity in gut bacteria and their relatives. PMID:20197316
A primer on metagenomics. PMID:20195499
A persistent and diverse airway microbiota present during chronic obstructive pulmonary disease exacerbations. PMID:20141328
Functional shifts in unvegetated, perhumid, recently-deglaciated soils do not correlate with shifts in soil bacterial community composition. PMID:20127458
Reclassification of the polyphyletic genus Prosthecomicrobium to form two novel genera, Vasilyevaea gen. nov. and Bauldia gen. nov. with four new combinations: Vasilyevaea enhydra comb. nov., Vasilyevaea mishustinii comb. nov., Bauldia consociata comb. nov. and Bauldia litoralis comb. nov. PMID:20118292
Biodiversity of air-borne microorganisms at Halley Station, Antarctica. PMID:20091326
Like will to like: abundances of closely related species can predict susceptibility to intestinal colonization by pathogenic and commensal bacteria. PMID:20062525
A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea. PMID:20033048
A high-throughput DNA sequence aligner for microbial ecology studies. PMID:20011594
The oligonucleotide frequency derived error gradient and its application to the binning of metagenome fragments. PMID:19958473
Archaeal and bacterial communities respond differently to environmental gradients in anoxic sediments of a California hypersaline lake, the Salton Sea. PMID:19948847
Microbial population and activity in wetland microcosms constructed for improving treated municipal wastewater. PMID:19946683
Mapping the tree of life: progress and prospects. PMID:19946133
Diverse archaeal community of a bat guano pile in Domica Cave (Slovak Karst, Slovakia). PMID:19937217
Robustness of the bacterial community in the cabbage white butterfly larval midgut. PMID:19924467
PyNAST: a flexible tool for aligning sequences to a template alignment. PMID:19914921
Culture-independent microbiological analysis of foley urinary catheter biofilms. PMID:19907661
Microbial diversity in uranium mining-impacted soils as revealed by high-density 16S microarray and clone library. PMID:19888627
Stratification of co-evolving genomic groups using ranked phylogenetic profiles. PMID:19860884
Metagenomic approaches to natural products from free-living and symbiotic organisms. PMID:19844642
Photolysis of iron-siderophore chelates promotes bacterial-algal mutualism. PMID:19805106
Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. PMID:19801464
Metagenomic study of the oral microbiota by Illumina high-throughput sequencing. PMID:19796657
Distribution and phylogeny of light-oxygen-voltage-blue-light-signaling proteins in the three kingdoms of life. PMID:19783626
Achievements and new knowledge unraveled by metagenomic approaches. PMID:19760178
Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data. PMID:19710709
Vegetation affects the relative abundances of dominant soil bacterial taxa and soil respiration rates in an upland grassland soil. PMID:19705192
Comparative analysis of pyrosequencing and a phylogenetic microarray for exploring microbial community structures in the human distal intestine. PMID:19693277
GenGIS: A geospatial information system for genomic data. PMID:19635847
Evaluation of swine-specific PCR assays used for fecal source tracking and analysis of molecular diversity of swine-specific "bacteroidales" populations. PMID:19633126
Microbial activity and diversity during extreme freeze-thaw cycles in periglacial soils, 5400 m elevation, Cordillera Vilcanota, Perú. PMID:19597697
Potentially pathogenic bacteria in shower water and air of a stem cell transplant unit. PMID:19581474
Antibiotic treatment of clostridium difficile carrier mice triggers a supershedder state, spore-mediated transmission, and severe disease in immunocompromised hosts. PMID:19564382
Comparison of species richness estimates obtained using nearly complete fragments and simulated pyrosequencing-generated fragments in 16S rRNA gene-based environmental surveys. PMID:19561178
Molecular biological detection and quantification of novel Fibrobacter populations in freshwater lakes. PMID:19502438
Characterization of airborne microbial communities at a high-elevation site and their potential to act as atmospheric ice nuclei. PMID:19502432
Fast statistical alignment. PMID:19478997
Characterisation of the effect of a simulated hydrocarbon spill on diazotrophs in mangrove sediment mesocosm. PMID:19468855
Diversity of 23S rRNA genes within individual prokaryotic genomes. PMID:19415112
Approaches to analyse dynamic microbial communities such as those seen in cystic fibrosis lung. PMID:19403459
Assessment of the diversity, abundance, and ecological distribution of members of candidate division SR1 reveals a high level of phylogenetic diversity but limited morphotypic diversity. PMID:19395567
Integron gene cassettes and degradation of compounds associated with industrial waste: the case of the Sydney tar ponds. PMID:19390587
Matriptase-deficient mice exhibit ichthyotic skin with a selective shift in skin microbiota. PMID:19387477
Microbial community profiling for human microbiome projects: Tools, techniques, and challenges. PMID:19383763
FastTree: computing large minimum evolution trees with profiles instead of a distance matrix. PMID:19377059
Statistical methods for detecting differentially abundant features in clinical metagenomic samples. PMID:19360128
The human vaginal bacterial biota and bacterial vaginosis. PMID:19282975
Effects of experimental choices and analysis noise on surveys of the "rare biosphere". PMID:19270149
Metagenomic pyrosequencing and microbial identification. PMID:19264858
Culture-independent characterization of bacterial communities associated with the cold-water coral Lophelia pertusa in the northeastern Gulf of Mexico. PMID:19233949
RAMI: a tool for identification and characterization of phylogenetic clusters in microbial communities. PMID:19223450
Bacterial succession on the leaf surface: a novel system for studying successional dynamics. PMID:19221834
Effect of biowaste sludge maturation on the diversity of thermophilic bacteria and archaea in an anaerobic reactor. PMID:19218417
Filamentous bacterium Eikelboom type 0092 in activated sludge plants in Australia is a member of the phylum Chloroflexi. PMID:19218415
The diverse bacterial community in intertidal, anaerobic sediments at Sapelo Island, Georgia. PMID:19212699
Prokaryotic genomes and diversity in surface ocean waters: interrogating the global ocean sampling metagenome. PMID:19201952
Diversity and stratification of archaea in a hypersaline microbial mat. PMID:19114531
Fumarole-supported islands of biodiversity within a hyperarid, high-elevation landscape on Socompa Volcano, Puna de Atacama, Andes. PMID:19074608
Characterization of microbial pathogens by DNA microarrays. PMID:19061975
A bioinformatician's guide to metagenomics. PMID:19052320
Use of pyrosequencing and DNA barcodes to monitor variations in Firmicutes and Bacteroidetes communities in the gut microbiota of obese humans. PMID:19046425
A core gut microbiome in obese and lean twins. PMID:19043404
Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing. PMID:19023400
The pervasive effects of an antibiotic on the human gut microbiota, as revealed by deep 16S rRNA sequencing. PMID:19018661
Extensive phylogenetic analysis of a soil bacterial community illustrates extreme taxon evenness and the effects of amplicon length, degree of coverage, and DNA fractionation on classification and ecological parameters. PMID:19011079
The influence of sex, handedness, and washing on the diversity of hand surface bacteria. PMID:19004758
Case report: Paenibacillus thiaminolyticus: a new cause of human infection, inducing bacteremia in a patient on hemodialysis. PMID:18988935
rrnDB: documenting the number of rRNA and tRNA genes in bacteria and archaea. PMID:18948294
Cross-kingdom amplification using bacteria-specific primers: complications for studies of coral microbial ecology. PMID:18931299
The most conserved genome segments for life detection on Earth and other planets. PMID:18853276
Distribution of Crenarchaeota representatives in terrestrial hot springs of Russia and Iceland. PMID:18849450
ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes. PMID:18845571
Photoferrotrophs thrive in an Archean Ocean analogue. PMID:18838679
Comparative characterization of the microbial diversities of an artificial microbialite model and a natural stromatolite. PMID:18836014
Accumulation of trans C18:1 fatty acids in the rumen after dietary algal supplementation is associated with changes in the Butyrivibrio community. PMID:18820074
The genome of Rhodobacter sphaeroides strain 2.4.1 encodes functional cobinamide salvaging systems of archaeal and bacterial origins. PMID:18808385
The metagenomics RAST server - a public resource for the automatic phylogenetic and functional analysis of metagenomes. PMID:18803844
Worlds within worlds: evolution of the vertebrate gut microbiota. PMID:18794915
Molecular signatures of ribosomal evolution. PMID:18768810
Accurate taxonomy assignments from 16S rRNA sequences produced by highly parallel pyrosequencers. PMID:18723574
Colloquium paper: microbes on mountainsides: contrasting elevational patterns of bacterial and plant diversity. PMID:18695215
probeCheck--a central resource for evaluating oligonucleotide probe coverage and specificity. PMID:18647333
Novelty and uniqueness patterns of rare members of the soil biosphere. PMID:18606799
An automated phylogenetic tree-based small subunit rRNA taxonomy and alignment pipeline (STAP). PMID:18596968
Influence of particle size on bacterial community structure in aquatic sediments as revealed by 16S rRNA gene sequence analysis. PMID:18567685
Metagenomic approaches for defining the pathogenesis of inflammatory bowel diseases. PMID:18541218
Insights and inferences about integron evolution from genomic data. PMID:18513439
A diversity profile of the human skin microbiota. PMID:18502944
Evolution of mammals and their gut microbes. PMID:18497261
Diversity of human vaginal bacterial communities and associations with clinically defined bacterial vaginosis. PMID:18487399
Discovery and characterization of a new bacterial candidate division by an anaerobic sludge digester metagenomic approach. PMID:18459975
Characterization of a bacterial community in an abandoned semiarid lead-zinc mine tailing site. PMID:18424534
The airborne metagenome in an indoor urban environment. PMID:18382653
"Candidatus Cloacamonas acidaminovorans": genome sequence reconstruction provides a first glimpse of a new bacterial division. PMID:18245282
Metagenomics: read length matters. PMID:18192407
Miniprimer PCR, a new lens for viewing the microbial world. PMID:18083877
Pyrosequencing enumerates and contrasts soil microbial diversity. PMID:18043639
Subsurface microbial diversity in deep-granitic-fracture water in Colorado. PMID:17981950
Short-term temporal variability in airborne bacterial and fungal populations. PMID:17981945
The Genomes On Line Database (GOLD) in 2007: status of genomic and metagenomic projects and their associated metadata. PMID:17981842
AxPcoords & parallel AxParafit: statistical co-phylogenetic analyses on thousands of taxa. PMID:17953748
Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool. PMID:17949484
SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. PMID:17947321
Short pyrosequencing reads suffice for accurate microbial community analysis. PMID:17881377
The termite group I phylum is highly diverse and widespread in the environment. PMID:17704269
Molecular-phylogenetic characterization of microbial community imbalances in human inflammatory bowel diseases. PMID:17699621
Microbial community biofabrics in a geothermal mine adit. PMID:17693567
Isolation of polymer-degrading bacteria and characterization of the hindgut bacterial community from the detritus-feeding larvae of Tipula abdominalis (Diptera: Tipulidae). PMID:17630316
"Candidatus Bacilloplasma," a novel lineage of Mollicutes associated with the hindgut wall of the terrestrial isopod Porcellio scaber (Crustacea: Isopoda). PMID:17630315
Identification and isolation of a Castellaniella species important during biostimulation of an acidic nitrate- and uranium-contaminated aquifer. PMID:17557842
Microbial diversity in natural asphalts of the Rancho La Brea Tar Pits. PMID:17416692
Loss of bacterial diversity during antibiotic treatment of intubated patients colonized with Pseudomonas aeruginosa. PMID:17409203
Targeted access to the genomes of low-abundance organisms in complex microbial communities. PMID:17369337
Unravelling microbial communities with DNA-microarrays: challenges and future directions. PMID:17345135
High-density universal 16S rRNA microarray analysis reveals broader diversity than typical clone library when sampling the environment. PMID:17334858
Ecology of the microbial community removing phosphate from wastewater under continuously aerobic conditions in a sequencing batch reactor. PMID:17293509
Urban aerosols harbor diverse and dynamic bacterial populations. PMID:17182744
probeBase--an online resource for rRNA-targeted oligonucleotide probes: new features 2007. PMID:17099228
NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. PMID:16845035

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More detailed information about this field from each metasource.

16s rrna
metasource: Fairsharing.org
version: FAIRsharing.org: Greengenes; Greengenes; DOI: https://doi.org/10.25504/FAIRsharing.bpxgb6; Last edited: April 26, 2021, 11:32 a.m.; Last accessed: Jan 03 2022 7:07 p.m.

recombinant dna
metasource: Fairsharing.org
version: FAIRsharing.org: Greengenes; Greengenes; DOI: https://doi.org/10.25504/FAIRsharing.bpxgb6; Last edited: April 26, 2021, 11:32 a.m.; Last accessed: Jan 03 2022 7:07 p.m.

ribonucleic acid
metasource: Fairsharing.org
version: FAIRsharing.org: Greengenes; Greengenes; DOI: https://doi.org/10.25504/FAIRsharing.bpxgb6; Last edited: April 26, 2021, 11:32 a.m.; Last accessed: Jan 03 2022 7:07 p.m.

sequence alignment
metasource: Fairsharing.org
version: FAIRsharing.org: Greengenes; Greengenes; DOI: https://doi.org/10.25504/FAIRsharing.bpxgb6; Last edited: April 26, 2021, 11:32 a.m.; Last accessed: Jan 03 2022 7:07 p.m.

rna sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657

dna
metasource: re3data.org
version: re3data.org: Greengenes; editing status 2021-12-15; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R36C8G last accessed: 2022-11-04

bacteria
metasource: re3data.org
version: re3data.org: Greengenes; editing status 2021-12-15; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R36C8G last accessed: 2022-11-04

ecology
metasource: re3data.org
version: re3data.org: Greengenes; editing status 2021-12-15; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R36C8G last accessed: 2022-11-04

microorganism
metasource: re3data.org
version: re3data.org: Greengenes; editing status 2021-12-15; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R36C8G last accessed: 2022-11-04

soil
metasource: re3data.org
version: re3data.org: Greengenes; editing status 2021-12-15; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R36C8G last accessed: 2022-11-04

water
metasource: re3data.org
version: re3data.org: Greengenes; editing status 2021-12-15; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R36C8G last accessed: 2022-11-04

16s rrna recombinant dna rna sequence alignment rna sequence dna bacteria ecology microorganism soil water

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16S and 23S Ribosomal RNA Mutation Database

European rRNA database

SILVA

The Small Subunit rRNA Modification Database

Ribosomal Database Project (RDP-II)

probeBase

Multiple Alignment using Fast Fourier Transform

Multiple Alignment Format

BAliBASE

MMDB_Mouse

GenBank

3D rRNA modification maps

SCOPe

UniMES

SYSTERS

PANDIT

Sequence Alignment Map

cpnDB

MulPSSM

MGnify