FAIRsharing.q04phv; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

Other names: HMP

The NIH Common Fund Human Microbiome Project (HMP) was established in 2008, with the mission of generating resources that would enable the comprehensive characterization of the human microbiome and analysis of its role in human health and disease. The HMP has characterized the microbial communities found at several different sites on the human body: nasal passages, oral cavity, skin, gastrointestinal tract, and urogenital tract.

Webpage:

http://hmpdacc.org/

Licence:

Name: NIH HMP Web Policies and Notices
URL: http://hmpdacc.org/policy.php

Publications:

Publications
More detailed information about this field from each metasource.

Structure, function and diversity of the healthy human microbiome
PMID: 22699609
metasource: Fairsharing.org
version: FAIRsharing.org: HMP; NIH Human Microbiome Project; DOI: https://doi.org/10.25504/FAIRsharing.q04phv; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

A framework for human microbiome research
PMID: 22699610
metasource: Fairsharing.org
version: FAIRsharing.org: HMP; NIH Human Microbiome Project; DOI: https://doi.org/10.25504/FAIRsharing.q04phv; Last edited: Jan. 8, 2019, 1:22 p.m.; Last accessed: Jan 03 2022 7:08 p.m.

Structure, function and diversity of the healthy human microbiome PubMed citations: 3999.

3999 articles citing: Structure, function and diversity of the healthy human microbiome

Tourmaline: A containerized workflow for rapid and iterable amplicon sequence analysis using QIIME 2 and Snakemake. PMID:35902092
Molecular networking-based lipid profiling and multi-omics approaches reveal new contributions of functional vanilloids to gut microbiota and lipometabolism changes. PMID:35898333
Effects of Probiotic Supplementation during Pregnancy on the Future Maternal Risk of Metabolic Syndrome. PMID:35897822
A Pilot Study: Favorable Effects of Clostridium butyricum on Intestinal Microbiota for Adjuvant Therapy of Lung Cancer. PMID:35892858
Unraveling the Antibiofilm Activity of a New Nanogold Resin for Dentures and Epithesis. PMID:35890413
Alteration in Gut Microbiota Associated with Zinc Deficiency in School-Age Children. PMID:35889856
The Core Human Microbiome: Does It Exist and How Can We Find It? A Critical Review of the Concept. PMID:35889831
The Gut Microbiota of Obese Children Releases Lower Antioxidant Capacity from Food than That of Lean Children. PMID:35889785
Current Techniques to Study Beneficial Plant-Microbe Interactions. PMID:35889099
Fecal Microbiota Transplantation as New Therapeutic Avenue for Human Diseases. PMID:35887883
Reproductive Hormones Mediate Intestinal Microbiota Shifts during Estrus Synchronization in Grazing Simmental Cows. PMID:35883298
Gut Fungal Microbiome Responses to Natural Cryptosporidium Infection in Horses. PMID:35875530
Microbiome Heritability and Its Role in Adaptation of Hosts to Novel Resources. PMID:35865927
Historical contingencies and phage induction diversify bacterioplankton communities at the microscale. PMID:35862452
Bacterial composition and colony structure of the lower respiratory tract in infants and children with recurrent wheezing: a case-control study. PMID:35854266
Gut Microbiota and Immunotherapy. PMID:35847121
Alterations of Gut Microbiome and Fecal Fatty Acids in Patients With Polycystic Ovary Syndrome in Central China. PMID:35847083
Gut microbiota is associated with dietary intake and metabolic markers in healthy individuals. PMID:35844956
Gut microbiome in gastrointestinal cancer: a friend or foe? PMID:35844804
Ecosystem-specific microbiota and microbiome databases in the era of big data. PMID:35842686
Seminal Microbiota of Idiopathic Infertile Patients and Its Relationship With Sperm DNA Integrity. PMID:35837328
Fusobacterium is enriched in oral cancer and promotes induction of programmed death-ligand 1 (PD-L1). PMID:35834946
Statistical challenges in longitudinal microbiome data analysis. PMID:35830875
Testability of high-dimensional linear models with nonsparse structures. PMID:35814863
Evolutionary Insights Into Microbiota Transplantation in Inflammatory Bowel Disease. PMID:35811664
Oral ecological environment modifications by hard-cheese: from pH to microbiome: a prospective cohort study based on 16S rRNA metabarcoding approach. PMID:35810305
Dietary Fatty Acid Intake and the Colonic Gut Microbiota in Humans. PMID:35807903
Differential Responses of Digesta- and Mucosa-Associated Jejunal Microbiota of Hu Sheep to Pelleted and Non-Pelleted High-Grain Diets. PMID:35804593
Valuing the Diversity of Research Methods to Advance Nutrition Science. PMID:35802522
Comparison of the Oral Microbiota Structure among People from the Same Ethnic Group Living in Different Environments. PMID:35800217
Nasal microbiota evolution within the congregate setting imposed by military training. PMID:35798805
Trends in insulin resistance: insights into mechanisms and therapeutic strategy. PMID:35794109
Emergent evolutionary forces in spatial models of luminal growth and their application to the human gut microbiota. PMID:35787046
Exploring the patient-microbiome interaction patterns for pan-cancer. PMID:35782745
The impact of mass drug administration of antibiotics on the gut microbiota of target populations. PMID:35773678
A Platform for Co-Culture of Primary Human Colonic Epithelium With Anaerobic Probiotic Bacteria. PMID:35757791
Predicting microbiome compositions from species assemblages through deep learning. PMID:35757098
Microbiome-associated human genetic variants impact phenome-wide disease risk. PMID:35749358
Gastrointestinal Involvement in SARS-CoV-2 Infection. PMID:35746659
The Role of Early Life Microbiota Composition in the Development of Allergic Diseases. PMID:35744708
Respiratory and Intestinal Microbiota in Pediatric Lung Diseases-Current Evidence of the Gut-Lung Axis. PMID:35743234
Chitosan and Chitooligosaccharide: The Promising Non-Plant-Derived Prebiotics with Multiple Biological Activities. PMID:35743209
Implications of Gut Microbiota in Epithelial-Mesenchymal Transition and Cancer Progression: A Concise Review. PMID:35740629
The Role of Gut Microbiota in the Skeletal Muscle Development and Fat Deposition in Pigs. PMID:35740199
Intestinal Barrier Dysfunction in Fatty Liver Disease: Roles of Microbiota, Mucosal Immune System, and Bile Acids. PMID:35738255
Colon Cancer: From Epidemiology to Prevention. PMID:35736432
Putative Mechanisms Underlying the Beneficial Effects of Polyphenols in Murine Models of Metabolic Disorders in Relation to Gut Microbiota. PMID:35723314
Advances and Challenges in Fluorescence in situ Hybridization for Visualizing Fungal Endobacteria. PMID:35722318
Metapath Aggregated Graph Neural Network and Tripartite Heterogeneous Networks for Microbe-Disease Prediction. PMID:35711758
Association of human gut microbiota with rare diseases: A close peep through. PMID:35702576
Alterations in co-abundant bacteriome in colorectal cancer and its persistence after surgery: a pilot study. PMID:35701595
Short-Term Dairy Product Elimination and Reintroduction Minimally Perturbs the Gut Microbiota in Self-Reported Lactose-Intolerant Adults. PMID:35695459
Patients With Inflammatory Bowel Disease Show IgG Immune Responses Towards Specific Intestinal Bacterial Genera. PMID:35693832
Novel Potassium-Competitive Acid Blocker, Tegoprazan, Protects Against Colitis by Improving Gut Barrier Function. PMID:35693794
Diurnal and eating-associated microbial patterns revealed via high-frequency saliva sampling. PMID:35688483
Polymer-based chemical-nose systems for optical-pattern recognition of gut microbiota. PMID:35685788
Interaction between Bacteria and the Immune System for Cancer Immunotherapy: The α-GalCer Alliance. PMID:35682578
Genetic drift and host-adaptive features likely underlie cladogenesis of insect-associated Lachnospiraceae. PMID:35679131
The Role of the Microbiome in Gastroentero-Pancreatic Neuroendocrine Neoplasms (GEP-NENs). PMID:35678665
Short- and long-read metagenomics expand individualized structural variations in gut microbiomes. PMID:35676264
Biotechnological potentials of halophilic microorganisms and their impact on mankind. PMID:35669848
Beta-diversity distance matrices for microbiome sample size and power calculations - How to obtain good estimates. PMID:35664226
Machine Learning Based Microbiome Signature to Predict Inflammatory Bowel Disease Subtypes. PMID:35663898
Metabolomic Analysis of Lactobacillus acidophilus, L. gasseri, L. crispatus, and Lacticaseibacillus rhamnosus Strains in the Presence of Pomegranate Extract. PMID:35663851
The Role of the Cervicovaginal and Gut Microbiome in Cervical Intraepithelial Neoplasia and Cervical Cancer. PMID:35663536
A catalog of 48,425 nonredundant viruses from oral metagenomes expands the horizon of the human oral virome. PMID:35663034
Unraveling function and diversity of bacterial lectins in the human microbiome. PMID:35661736
Machine learning aided construction of the quorum sensing communication network for human gut microbiota. PMID:35654892
Adaptation to simulated microgravity in Streptococcus mutans. PMID:35654802
Gut microbiome profiles and associated metabolic pathways in patients of adult-onset immunodeficiency with anti-interferon-gamma autoantibodies. PMID:35650243
Crosstalk between Body Microbiota and the Regulation of Immunity. PMID:35647199
Subgingival Microbiome in Pregnancy and a Potential Relationship to Early Term Birth. PMID:35646730
The lung microbiome in HIV-positive patients with active pulmonary tuberculosis. PMID:35643931
Impact of a 7-day homogeneous diet on interpersonal variation in human gut microbiomes and metabolomes. PMID:35643079
Prevotella species in the human gut is primarily comprised of Prevotella copri, Prevotella stercorea and related lineages. PMID:35641510
High-Resolution Metagenomics of Human Gut Microbiota Generated by Nanopore and Illumina Hybrid Metagenome Assembly. PMID:35633679
A Resistome Roadmap: From the Human Body to Pristine Environments. PMID:35633673
An Advanced Bioreactor Simulating Dynamic Physiological Conditions in the Human Ascending Colon: MimiCol3. PMID:35631635
Prebiotics and the Human Gut Microbiota: From Breakdown Mechanisms to the Impact on Metabolic Health. PMID:35631237
Changes in Lake Sturgeon Gut Microbiomes Relative to Founding Origin and in Response to Chemotherapeutant Treatments. PMID:35630448
Molecular Regulatory Mechanisms Drive Emergent Pathogenetic Properties of Neisseria gonorrhoeae. PMID:35630366
A Potential Predictive Role of the Scalp Microbiome Profiling in Patients with Alopecia Areata: Staphylococcus caprae, Corynebacterium, and Cutibacterium Species. PMID:35630309
Any Future for Faecal Microbiota Transplantation as a Novel Strategy for Gut Microbiota Modulation in Human and Veterinary Medicine? PMID:35629390
MegaD: Deep Learning for Rapid and Accurate Disease Status Prediction of Metagenomic Samples. PMID:35629336
Do Oral Pathogens Inhabit the Eye and Play a Role in Ocular Diseases? PMID:35629064
Lifelong Exposure to a Low-Dose of the Glyphosate-Based Herbicide RoundUp® Causes Intestinal Damage, Gut Dysbiosis, and Behavioral Changes in Mice. PMID:35628394
Gut-Skin Axis: Unravelling the Connection between the Gut Microbiome and Psoriasis. PMID:35625774
Oral Microbiome Research on Oral Lichen Planus: Current Findings and Perspectives. PMID:35625451
Evaluation of Antioxidant Capacity and Gut Microbiota Modulatory Effects of Different Kinds of Berries. PMID:35624885
Effects of broad-spectrum antibiotics on the colonisation of probiotic yeast Saccharomyces boulardii in the murine gastrointestinal tract. PMID:35614092
Competence shut-off by intracellular pheromone degradation in salivarius streptococci. PMID:35613247
Unveiling microbiome profiles in human inner body fluids and tumor tissues with pancreatic or biliary tract cancer. PMID:35610303
Fine scale transitions of the microbiota and metabolome along the gastrointestinal tract of herbivorous fishes. PMID:35606844
Correlation Between Salivary Microbiome of Parotid Glands and Clinical Features in Primary Sjögren's Syndrome and Non-Sjögren's Sicca Subjects. PMID:35603219
Role of Insect Gut Microbiota in Pesticide Degradation: A Review. PMID:35591988
Glioma and the gut-brain axis: opportunities and future perspectives. PMID:35591978
Large Comparative Analyses of Primate Body Site Microbiomes Indicate that the Oral Microbiome Is Unique among All Body Sites and Conserved among Nonhuman Primates. PMID:35587638
CBEA: Competitive balances for taxonomic enrichment analysis. PMID:35584140
AMR-meta: a k-mer and metafeature approach to classify antimicrobial resistance from high-throughput short-read metagenomics data. PMID:35583675
Gut microbiota and diabetic kidney diseases: Pathogenesis and therapeutic perspectives. PMID:35582668
Generation and application of pseudo-long reads for metagenome assembly. PMID:35579554
Gut Microbial Stability is Associated with Greater Endurance Performance in Athletes Undertaking Dietary Periodization. PMID:35579384
Taxonomic and Functional Fecal Microbiota Signatures Associated With Insulin Resistance in Non-Diabetic Subjects With Overweight/Obesity Within the Frame of the PREDIMED-Plus Study. PMID:35574036
Hepatocellular Carcinoma: How the Gut Microbiota Contributes to Pathogenesis, Diagnosis, and Therapy. PMID:35572649
The Oral Microbiota: Community Composition, Influencing Factors, Pathogenesis, and Interventions. PMID:35572634
Adaptation of gut microbiome and host metabolic systems to lignocellulosic degradation in bamboo rats. PMID:35568757
Host cells subdivide nutrient niches into discrete biogeographical microhabitats for gut microbes. PMID:35568027
The Pre-Analytical CEN/TS Standard for Microbiome Diagnostics-How Can Research and Development Benefit? PMID:35565946
Intestinal Barrier Permeability in Allergic Diseases. PMID:35565858
Impact of Oral Microbiome in Periodontal Health and Periodontitis: A Critical Review on Prevention and Treatment. PMID:35563531
The Influence of Nutrition on Intestinal Permeability and the Microbiome in Health and Disease. PMID:35548572
A Reciprocal Link Between Gut Microbiota, Inflammation and Depression: A Place for Probiotics? PMID:35546876
Differences in gut microbiota between silkworms (Bombyx mori) reared on fresh mulberry (Morus alba var. multicaulis) leaves or an artificial diet. PMID:35541943
Small Intestine Microbiome and Metabolome of High and Low Residual Feed Intake Angus Heifers. PMID:35531283
Genomics of Ancient Pathogens: First Advances and Prospects. PMID:35526849
The Game for Three: Salmonella-Host-Microbiota Interaction Models. PMID:35516427
Insights into the Profile of the Human Expiratory Microbiota and Its Associations with Indoor Microbiotas. PMID:35512288
The Relationship Among Intestinal Bacteria, Vitamin K and Response of Vitamin K Antagonist: A Review of Evidence and Potential Mechanism. PMID:35510250
Diversity in Phenotypes Associated With Host Persistence and Systemic Virulence in Streptococcus sanguinis Strains. PMID:35509310
Fomite Transmission Follows Invasion Ecology Principles. PMID:35502902
The Lumenal Microbiota Varies Biogeographically in the Gastrointestinal Tract of Rhesus Macaques. PMID:35499338
BiomeHorizon: Visualizing Microbiome Time Series Data in R. PMID:35499306
Effect of Different Pig Fecal Microbiota Transplantation on Mice Intestinal Function and Microbiota Changes During Cold Exposure. PMID:35498721
Inflammatory bowel disease biomarkers of human gut microbiota selected via different feature selection methods. PMID:35497193
Potential Application of Tea Polyphenols to the Prevention of COVID-19 Infection: Based on the Gut-Lung Axis. PMID:35495940
Functional role of the cancer microbiome in the solid tumour niche. PMID:35492394
Alterations in microbiota of patients with COVID-19: potential mechanisms and therapeutic interventions. PMID:35487886
Gut Microbiome in Anesthesiology and Pain Medicine. PMID:35486831
MDGNN: Microbial Drug Prediction Based on Heterogeneous Multi-Attention Graph Neural Network. PMID:35464940
The Impact of Nutritional Supplementation During Pregnancy on the Incidence of Gestational Diabetes and Glycaemia Control. PMID:35464031
Efficacy and Safety of Lactobacillus reuteri CCFM1040 in Allergic Rhinitis and Asthma: A Randomized, Placebo-Controlled Trial. PMID:35464005
Dysbiosis of the Human Urinary Microbiome and its Association to Diseases Affecting the Urinary System. PMID:35462710
Possible Interactions between Malaria, Helminthiases and the Gut Microbiota: A Short Review. PMID:35456772
Mechanistic Insights into the Link between Gut Dysbiosis and Major Depression: An Extensive Review. PMID:35456041
Gut Microbiota-Brain Axis as a Potential Modulator of Psychological Stress after Spinal Cord Injury. PMID:35453597
Microbiome Modulation as a Novel Strategy to Treat and Prevent Respiratory Infections. PMID:35453224
Emerging trends and hotspot in gut-lung axis research from 2011 to 2021: a bibliometrics analysis. PMID:35449051
Immunomodulating Activity of Pleurotus eryngii Mushrooms Following Their In Vitro Fermentation by Human Fecal Microbiota. PMID:35448559
NMR Metabolomics Reveal Urine Markers of Microbiome Diversity and Identify Benzoate Metabolism as a Mediator between High Microbial Alpha Diversity and Metabolic Health. PMID:35448495
Host phenotype classification from human microbiome data is mainly driven by the presence of microbial taxa. PMID:35446845
Bacterial but Not Fungal Rhizosphere Community Composition Differ among Perennial Grass Ecotypes under Abiotic Environmental Stress. PMID:35442065
Diversity and distribution of sulfur metabolic genes in the human gut microbiome and their association with colorectal cancer. PMID:35440042
Experimental colonization with Blastocystis ST4 is associated with protective immune responses and modulation of gut microbiome in a DSS-induced colitis mouse model. PMID:35435504
Pediococcus acidilactici Promotes the Longevity of C. elegans by Regulating the Insulin/IGF-1 and JNK/MAPK Signaling, Fat Accumulation and Chloride Ion. PMID:35433778
Oral and Stool Microbiome Coalescence and Its Association With Antibiotic Exposure in Acute Leukemia Patients. PMID:35433514
Relationships Between Diurnal Changes of Tongue Coating Microbiota and Intestinal Microbiota. PMID:35433494
Microbiome Analysis and Pharmacovigilance After Inhaled Glucocorticoid: Oral Dysbiosis With the Isolation of Three Rothia Species and Subsequent Sjögren's Syndrome. PMID:35431920
Superior cervical ganglionectomy alters gut microbiota in rats. PMID:35422915
Intestinal microbiota research from a global perspective. PMID:35419206
The Role of the Gut Microbiota in the Development of Ischemic Stroke. PMID:35418976
Single cell genome sequencing of laboratory mouse microbiota improves taxonomic and functional resolution of this model microbial community. PMID:35417481
Standard rectal swabs as a surrogate sample for gut microbiome monitoring in intensive care. PMID:35413802
Bile acids, bioactive signalling molecules in interoceptive gut-to-brain communication. PMID:35413130
Lactobacillus paracasei CNCM I 1572: A Promising Candidate for Management of Colonic Diverticular Disease. PMID:35407527
Development of the Gastrointestinal Tract in Newborns as a Challenge for an Appropriate Nutrition: A Narrative Review. PMID:35406018
Microbiome-based disease prediction with multimodal variational information bottlenecks. PMID:35404958
Critical Assessment of Metagenome Interpretation: the second round of challenges. PMID:35396482
Acetate Degradation at Low pH by the Moderately Acidophilic Sulfate Reducer Acididesulfobacillus acetoxydans gen. nov. sp. nov. PMID:35391737
Enterobacteriaceae and Bacteroidaceae provide resistance to travel-associated intestinal colonization by multi-drug resistant Escherichia coli. PMID:35388735
Influence of the Microbiome on Chronic Rhinosinusitis With and Without Polyps: An Evolving Discussion. PMID:35386978
The Age of Next-Generation Therapeutic-Microbe Discovery: Exploiting Microbe-Microbe and Host-Microbe Interactions for Disease Prevention. PMID:35384688
Essential role of membrane vesicles for biological activity of the bacteriocin micrococcin P1. PMID:35384360
An optimized approach for processing of frozen lung and lavage samples for microbiome studies. PMID:35381030
The Potential Role of the Gut Microbiota in Kidney Transplantation. PMID:35373069
The role of gut microbiome in inflammatory skin disorders: A systematic review. PMID:35371420
Phylogeny-Aware Analysis of Metagenome Community Ecology Based on Matched Reference Genomes while Bypassing Taxonomy. PMID:35369727
The Gut and Blood Microbiome in IgA Nephropathy and Healthy Controls. PMID:35369657
Comparative Evaluation of the Salivary and Buccal Mucosal Microbiota by 16S rRNA Sequencing for Forensic Investigations. PMID:35369525
The Interplay Between Gut Microbiota and miRNAs in Cardiovascular Diseases. PMID:35369298
A Perspective on the Metabolic Potential for Microbial Contributions to Urolithiasis. PMID:35368346
Treatment With Multi-Species Probiotics Changes the Functions, Not the Composition of Gut Microbiota in Postmenopausal Women With Obesity: A Randomized, Double-Blind, Placebo-Controlled Study. PMID:35360106
The Interplay Between Cervicovaginal Microbial Dysbiosis and Cervicovaginal Immunity. PMID:35359942
Intestinal microbiota dysbiosis in acute kidney injury: novel insights into mechanisms and promising therapeutic strategies. PMID:35350960
Best Practices for Probiotic Research in Athletic and Physically Active Populations: Guidance for Future Randomized Controlled Trials. PMID:35350412
Characteristics of human oral microbiome and its non-invasive diagnostic value in chronic kidney disease. PMID:35348181
Alterations in common marmoset gut microbiome associated with duodenal strictures. PMID:35347206
Dataset for Genome Sequencing and De Novo Assembly of the Candidate Phyla Radiation in Supragingival Plaque. PMID:35345870
Sex Difference of Effect of Sophora flavescens on Gut Microbiota in Rats. PMID:35341152
Metagenomic strain detection with SameStr: identification of a persisting core gut microbiota transferable by fecal transplantation. PMID:35337386
Shedding light on biological sex differences and microbiota-gut-brain axis: a comprehensive review of its roles in neuropsychiatric disorders. PMID:35337376
MinION, a portable long-read sequencer, enables rapid vaginal microbiota analysis in a clinical setting. PMID:35337329
Interpretable prediction of necrotizing enterocolitis from machine learning analysis of premature infant stool microbiota. PMID:35337258
Dietary Intake Is Unlikely to Explain Symptom Severity and Syndrome-Specific Microbiome Alterations in a Cohort of Women with Fibromyalgia. PMID:35328942
Multiple Sclerosis and Microbiome. PMID:35327624
Mechanistic Insights into Inorganic Nitrite-Mediated Vasodilation of Isolated Aortic Rings under Oxidative/Hypertensive Conditions and S-Nitros(yl)ation of Proteins in Germ-Free Mice. PMID:35327532
The gut microbiome of exudivorous marmosets in the wild and captivity. PMID:35322053
COMMIT: Consideration of metabolite leakage and community composition improves microbial community reconstructions. PMID:35320266
Skin microbiota diversity among genetically unrelated individuals of Indian origin. PMID:35313523
Metagenomic Assessment of the Pathogenic Risk of Microorganisms in Sputum of Postoperative Patients With Pulmonary Infection. PMID:35310849
The Power of Microbiome Studies: Some Considerations on Which Alpha and Beta Metrics to Use and How to Report Results. PMID:35310396
A systematic review of microbial markers for risk prediction of colorectal neoplasia. PMID:35292756
Analysis of gut microbiome profiles in common marmosets (Callithrix jacchus) in health and intestinal disease. PMID:35292670
Calorie restriction improves metabolic state independently of gut microbiome composition: a randomized dietary intervention trial. PMID:35287713
Gut and Vaginal Microbiomes in PCOS: Implications for Women's Health. PMID:35282446
Glutathione catabolism by Enterobacteriaceae species to hydrogen sulphide adversely affects the viability of host systems in the presence of 5'fluorodeoxyuridine. PMID:35279884
Gut microbiome-derived glycine lipids are diet-dependent modulators of hepatic injury and atherosclerosis. PMID:35278409
Integrated metagenomics identifies a crucial role for trimethylamine-producing Lachnoclostridium in promoting atherosclerosis. PMID:35273169
Microbial metabolites: cause or consequence in gastrointestinal disease? PMID:35271353
Bone Fragility in Gastrointestinal Disorders. PMID:35269854
The Intestinal Barrier Dysfunction as Driving Factor of Inflammaging. PMID:35267924
The Nutrition-Microbiota-Physical Activity Triad: An Inspiring New Concept for Health and Sports Performance. PMID:35267899
Analysis of multiple bacterial species and antibiotic classes reveals large variation in the association between seasonal antibiotic use and resistance. PMID:35263322
Quantifying and Cataloguing Unknown Sequences within Human Microbiomes. PMID:35258340
Immunogenetic variation shapes the gut microbiome in a natural vertebrate population. PMID:35256003
StrainGE: a toolkit to track and characterize low-abundance strains in complex microbial communities. PMID:35255937
Microbiota and the gut-brain-axis: Implications for new therapeutic design in the CNS. PMID:35255456
Role-Playing Between Environmental Pollutants and Human Gut Microbiota: A Complex Bidirectional Interaction. PMID:35252248
Benchmark of Data Processing Methods and Machine Learning Models for Gut Microbiome-Based Diagnosis of Inflammatory Bowel Disease. PMID:35251123
Clinical Significance of Composition and Functional Diversity of the Vaginal Microbiome in Recurrent Vaginitis. PMID:35250962
Towards a deeper understanding of the vaginal microbiota. PMID:35246662
Fusobacterium nucleatum and cancer. PMID:35244982
Periodontitis and cardiometabolic disorders: The role of lipopolysaccharide and endotoxemia. PMID:35244966
Selective targeting of skin pathobionts and inflammation with topically applied lactobacilli. PMID:35243421
Microbiome and metabolome profiles of high screen time in a cohort of healthy college students. PMID:35236903
Alteration of Serum Metabolites in Women of Reproductive Age with Chronic Constipation. PMID:35236817
Insight into the ecology of vaginal bacteria through integrative analyses of metagenomic and metatranscriptomic data. PMID:35232471
How to Maintain a Healthy Gut Microbiome in Children with Cancer? Gut Microbiome Association with Diet in Children with Solid Tumors Postchemotherapy. PMID:35230178
HPV infection alters vaginal microbiome through down-regulating host mucosal innate peptides used by Lactobacilli as amino acid sources. PMID:35228537
Gut Commensal Bacteroidetes Encode a Novel Class of Vitamin B12-Binding Proteins. PMID:35227073
Antibiotic Disruption of the Gut Microbiota Enhances the Murine Hepatic Dysfunction Associated With a High-Salt Diet. PMID:35222044
Comparability of microbiota of swabbed and spit saliva. PMID:35218587
Novel Role of Ghrelin Receptor in Gut Dysbiosis and Experimental Colitis in Aging. PMID:35216335
Exercise for the Diabetic Gut-Potential Health Effects and Underlying Mechanisms. PMID:35215463
Stool Microbiota Diversity Analysis of Blastocystis-Positive and Blastocystis-Negative Individuals. PMID:35208781
A Comprehensive Review of the Current and Future Role of the Microbiome in Pancreatic Ductal Adenocarcinoma. PMID:35205769
Two Blautia Species Associated with Visceral Fat Accumulation: A One-Year Longitudinal Study. PMID:35205184
Bladder Microbiome in the Context of Urological Disorders-Is There a Biomarker Potential for Interstitial Cystitis? PMID:35204374
A Review of the Diversity of the Genital Tract Microbiome and Implications for Fertility of Cattle. PMID:35203168
Host microbiome responses to the Snake Fungal Disease pathogen (Ophidiomyces ophidiicola) are driven by changes in microbial richness. PMID:35197501
Randomized controlled trial for time-restricted eating in healthy volunteers without obesity. PMID:35194047
Short- and long-read metagenomics of urban and rural South African gut microbiomes reveal a transitional composition and undescribed taxa. PMID:35194028
Using AnnoTree to Get More Assignments, Faster, in DIAMOND+MEGAN Microbiome Analysis. PMID:35191776
Intratumoral Microbiome of Human Primary Liver Cancer. PMID:35191218
Maternal anthropometric variables and clinical factors shape neonatal microbiome. PMID:35190600
Gut metagenome associations with extensive digital health data in a volunteer-based Estonian microbiome cohort. PMID:35169130
The Association between Gut Microbiota and Osteoarthritis: Does the Disease Begin in the Gut? PMID:35163417
WORKbiota: A Systematic Review about the Effects of Occupational Exposure on Microbiota and Workers' Health. PMID:35162072
Evaluation of a Precision Biotic on the Growth Performance, Welfare Indicators, Ammonia Output, and Litter Quality of Broiler Chickens. PMID:35158555
Bacterial colonization and TH17 immunity are shaped by intestinal sialylation in neonatal mice. PMID:35157771
Oral-Intestinal Microbiota in Colorectal Cancer: Inflammation and Immunosuppression. PMID:35153499
Modulation of microbial community dynamics by spatial partitioning. PMID:35145274
The gut microbiome and antibiotic resistome of chronic diarrhea rhesus macaques (Macaca mulatta) and its similarity to the human gut microbiome. PMID:35139923
Drivers of gut microbiome variation within and between groups of a wild Malagasy primate. PMID:35139921
Comparative metagenomics analysis reveals how the diet shapes the gut microbiota in several small mammals. PMID:35136548
Beware to ignore the rare: how imputing zero-values can improve the quality of 16S rRNA gene studies results. PMID:35130833
Colonic Microbial Abundances Predict Adenoma Formers. PMID:35129506
Metabarcoding of the phytotelmata of Pseudalcantarea grandis (Bromeliaceae) from an arid zone. PMID:35127281
Human Microbiota in Esophageal Adenocarcinoma: Pathogenesis, Diagnosis, Prognosis and Therapeutic Implications. PMID:35126331
Gut Dysbiosis and Clostridioides difficile Infection in Neonates and Adults. PMID:35126320
The crewed journey to Mars and its implications for the human microbiome. PMID:35125119
Association Between Vaginal Gardnerella and Tubal Pregnancy in Women With Symptomatic Early Pregnancies in China: A Nested Case-Control Study. PMID:35111691
Determinants and Interactions of Oral Bacterial and Fungal Microbiota in Healthy Chinese Adults. PMID:35107355
Considerations and best practices in animal science 16S ribosomal RNA gene sequencing microbiome studies. PMID:35106579
Analysis of Psychological and Gut Microbiome Characteristics in Patients With Non-erosive Reflux Disease. PMID:35095588
Assembly of 97 Novel Bacterial Genomes in the Microbial Community Affiliated with Polyvinyl Alcohol in Soil of Northern China. PMID:35087906
Large-scale characterization of the macrolide resistome reveals high diversity and several new pathogen-associated genes. PMID:35084301
Genetic tools for the redirection of the central carbon flow towards the production of lactate in the human gut bacterium Phocaeicola (Bacteroides) vulgatus. PMID:35080666
Lipidomics Analysis of Outer Membrane Vesicles and Elucidation of the Inositol Phosphoceramide Biosynthetic Pathway in Bacteroides thetaiotaomicron. PMID:35080445
Bacteria and cells as alternative nano-carriers for biomedical applications. PMID:35076351
High molecular weight DNA extraction strategies for long-read sequencing of complex metagenomes. PMID:35068060
Peppermint oil effects on the gut microbiome in children with functional abdominal pain. PMID:35048535
Environmental, Microbiological, and Immunological Features of Bacterial Biofilms Associated with Implanted Medical Devices. PMID:35044203
Evaluation of Bacterial Diversity and Evolutionary Dynamics of Gut Bifidobacterium longum Isolates Obtained from Older Individuals in Hubei Province, China. PMID:35044201
Associations of Childhood and Perinatal Blood Metals with Children's Gut Microbiomes in a Canadian Gestation Cohort. PMID:35037767
A biogeographic 16S rRNA survey of bacterial communities of ureolytic biomineralization from California public restrooms. PMID:35030221
Microbial hydrogen economy alleviates colitis by reprogramming colonocyte metabolism and reinforcing intestinal barrier. PMID:35025709
Inferring early-life host and microbiome functions by mass spectrometry-based metaproteomics and metabolomics. PMID:35024099
The Impact of Mouthwash on the Oropharyngeal Microbiota of Men Who Have Sex with Men: a Substudy of the OMEGA Trial. PMID:35019769
Characteristics of Gut Microbiota in Patients with GH-Secreting Pituitary Adenoma. PMID:35019688
Age-Associated Gut Dysbiosis, Marked by Loss of Butyrogenic Potential, Correlates With Altered Plasma Tryptophan Metabolites in Older People Living With HIV. PMID:35015746
Towards a metagenomics machine learning interpretable model for understanding the transition from adenoma to colorectal cancer. PMID:35013454
Gut Microbiota as a Source of Uremic Toxins. PMID:35008909
The Role of the Gut Microbiota in the Pathogenesis of Diabetes. PMID:35008906
Role of Microbiota-Derived Metabolites in Alcoholic and Non-Alcoholic Fatty Liver Diseases. PMID:35008852
Of mice and men and women: Sexual dimorphism of the gut microbiome. PMID:35005176
Mechanism of the Gut Microbiota Colonization Resistance and Enteric Pathogen Infection. PMID:35004340
Alterations in Intestinal Microbiota Composition in Mice Treated With Vitamin D3 or Cathelicidin. PMID:35004267
Short-term exposure to high relative humidity increases blood urea and influences colonic urea-nitrogen metabolism by altering the gut microbiota. PMID:35003799
Gut Microbiota as Regulators of Th17/Treg Balance in Patients With Myasthenia Gravis. PMID:35003133
MIMOSA2: A metabolic network-based tool for inferring mechanism-supported relationships in microbiome-metabolome data. PMID:34999748
Fusobacterium nucleatum and Bacteroides fragilis detection in colorectal tumours: Optimal target site and correlation with total bacterial load. PMID:34995318
Systematic review of the changes in the microbiome following spinal cord injury: animal and human evidence. PMID:34992210
Characterization of the gut microbiota among Veterans with unique military-related exposures and high prevalence of chronic health conditions: A United States-Veteran Microbiome Project (US-VMP) study. PMID:34988495
Comparing Published Gut Microbiome Taxonomic Data Across Multinational Studies. PMID:34985847
The role of the microbiota in the management of intensive care patients. PMID:34985651
Microbiota and body weight control: Weight watchers within? PMID:34973469
The Potential Role of Phytonutrients Flavonoids Influencing Gut Microbiota in the Prophylaxis and Treatment of Inflammatory Bowel Disease. PMID:34970585
Dissecting the dominant hot spring microbial populations based on community-wide sampling at single-cell genomic resolution. PMID:34969995
Variation and transmission of the human gut microbiota across multiple familial generations. PMID:34969979
Mobilization of vitamin B12 transporters alters competitive dynamics in a human gut microbe. PMID:34965410
Exploiting the Metabolism of the Gut Microbiome as a Vehicle for Targeted Drug Delivery to the Colon. PMID:34959610
Clinical Parasitology and Parasitome Maps as Old and New Tools to Improve Clinical Microbiomics. PMID:34959505
A narrative review of the role of gastrointestinal dysbiosis in the pathogenesis of polycystic ovary syndrome. PMID:34958733
Impact of Intrapartum Antibiotic Prophylaxis on Offspring Microbiota. PMID:34956974
Diversity Scaling Analysis of Chinese Gut Microbiomes Across Ethnicities and Lifestyles. PMID:34956110
tascCODA: Bayesian Tree-Aggregated Analysis of Compositional Amplicon and Single-Cell Data. PMID:34950190
The Link between Gut Dysbiosis Caused by a High-Fat Diet and Hearing Loss. PMID:34947974
Salivary Microbiota Is Significantly Less Diverse in Patients with Chronic Spontaneous Urticaria Compared to Healthy Controls: Preliminary Results. PMID:34947860
Supplementation of Probiotic Butyricicoccus pullicaecorum Mediates Anticancer Effect on Bladder Urothelial Cells by Regulating Butyrate-Responsive Molecular Signatures. PMID:34943506
Alterations of human skin microbiome and expansion of antimicrobial resistance after systemic antibiotics. PMID:34936382
Source Tracking and Global Distribution of the Tigecycline Non-Susceptible tet(X). PMID:34935428
Informal nutrition symposium: leveraging the microbiome (and the metabolome) for poultry production. PMID:34933222
Ancient Metagenomic Studies: Considerations for the Wider Scientific Community. PMID:34931883
Impact of zinc oxide, benzoic acid and probiotics on the performance and cecal microbiota of piglets. PMID:34930490
The Vaginal Microbiome: IV. The Role of Vaginal Microbiome in Reproduction and in Gynecologic Cancers. PMID:34928259
The Vaginal Microbiome: I. Research Development, Lexicon, Defining "Normal" and the Dynamics Throughout Women's Lives. PMID:34928256
Lactobacillus rhamnosus GG as dietary supplement improved survival from lipopolysaccharides-induced sepsis in mice. PMID:34925807
Wheat Genotype-Specific Recruitment of Rhizosphere Bacterial Microbiota Under Controlled Environments. PMID:34925393
On the Verge of a Catastrophic Collapse? The Need for a Multi-Ecosystem Approach to Microbiome Studies. PMID:34925292
Metaproteomics of the human gut microbiota: Challenges and contributions to other OMICS. PMID:34917758
Population study of the gut microbiome: associations with diet, lifestyle, and cardiometabolic disease. PMID:34915914
House fly larval grazing alters dairy cattle manure microbial communities. PMID:34911456
Cerebrospinal Fluid from Healthy Pregnant Women Does Not Harbor a Detectable Microbial Community. PMID:34908504
Stability of healthy subgingival microbiome across space and time. PMID:34907334
Identification and classification of reverse transcriptases in bacterial genomes and metagenomes. PMID:34904653
Mammalian gut metabolomes mirror microbiome composition and host phylogeny. PMID:34903850
Influence of Family Integrated Care on the Intestinal Microbiome of Preterm Infants With Necrotizing Enterocolitis and Enterostomy: A Preliminary Study. PMID:34900854
Neutrophils Orchestrate the Periodontal Pocket. PMID:34899756
Alpha-diversity and microbial community structure of the male urinary microbiota depend on urine sampling method. PMID:34887510
Differences in the Composition of Gut Microbiota between Patients with Parkinson's Disease and Healthy Controls: A Cohort Study. PMID:34884399
Investigation of the impact of commonly used medications on the oral microbiome of individuals living without major chronic conditions. PMID:34882708
Impact of sleep on the microbiome of oral biofilms. PMID:34882696
Food Habit Associated Mycobiota Composition and Their Impact on Human Health. PMID:34881282
Contribution of Lactobacillus iners to Vaginal Health and Diseases: A Systematic Review. PMID:34881196
The oral microbiome in alcohol use disorder: a longitudinal analysis during inpatient treatment. PMID:34880965
Deep nasal sinus cavity microbiota dysbiosis in Parkinson's disease. PMID:34880258
Changes in Gut Bacterial Translation Occur before Symptom Onset and Dysbiosis in Dextran Sodium Sulfate-Induced Murine Colitis. PMID:34874778
SARS-CoV-2-specific T cells in unexposed adults display broad trafficking potential and cross-react with commensal antigens. PMID:34873598
Microbiome-Mediated Immune Signaling in Inflammatory Bowel Disease and Colorectal Cancer: Support From Meta-omics Data. PMID:34869308
Oral Osteomicrobiology: The Role of Oral Microbiota in Alveolar Bone Homeostasis. PMID:34869060
Proof-of-principle demonstration of endogenous circadian system and circadian misalignment effects on human oral microbiota. PMID:34861073
Next-Generation Sequencing to Detect Pathogens in Pediatric Febrile Neutropenia: A Single-Center Retrospective Study of 112 Cases. PMID:34859110
Intestinal microbiota modulation and improved growth in pigs with post-weaning antibiotic and ZnO supplementation but only subtle microbiota effects with Bacillus altitudinis. PMID:34857778
The Role of Fecal Fusobacterium nucleatum and pks+ Escherichia coli as Early Diagnostic Markers of Colorectal Cancer. PMID:34853619
Influence of the Microbiome on Anastomotic Leak. PMID:34853567
Associations of the oral microbiota and Candida with taste, smell, appetite and undernutrition in older adults. PMID:34853371
Siderophore-mediated zinc acquisition enhances enterobacterial colonization of the inflamed gut. PMID:34853318
Redefining intestinal immunity with single-cell transcriptomics. PMID:34848830
The gene expression and bioinformatic analysis of choline trimethylamine-lyase (CutC) and its activating enzyme (CutD) for gut microbes and comparison with their TMA production levels. PMID:34841334
A comprehensive approach to stool donor screening for faecal microbiota transplantation in China. PMID:34838016
A Possible Perspective about the Compositional Models, Evolution, and Clinical Meaning of Human Enterotypes. PMID:34835466
Insights into the Oral Bacterial Microbiota of Sows. PMID:34835441
The Potential Utility of Prebiotics to Modulate Alzheimer's Disease: A Review of the Evidence. PMID:34835436
Vaccine Hyporesponse Induced by Individual Antibiotic Treatment in Mice and Non-Human Primates Is Diminished upon Recovery of the Gut Microbiome. PMID:34835271
Soluble Dietary Fiber, One of the Most Important Nutrients for the Gut Microbiota. PMID:34833893
On the Identification of Body Fluids and Tissues: A Crucial Link in the Investigation and Solution of Crime. PMID:34828334
Interdental Plaque Microbial Community Changes under In Vitro Violet LED Irradiation. PMID:34827286
Antimicrobial Effect of Isotretinoin Therapy on Periodontal Pathogens: A Case-Control Study. PMID:34827224
Altered gut bacterial and metabolic signatures and their interaction in inflammatory bowel disease. PMID:34820530
The Immunomodulatory Functions of Butyrate. PMID:34819742
Interspecies variation in hominid gut microbiota controls host gene regulation. PMID:34818542
Composition of nasal bacterial community and its seasonal variation in health care workers stationed in a clinical research laboratory. PMID:34818371
Analysis of Community Composition of Bacterioplankton in Changle Seawater in China by Illumina Sequencing Combined with Bacteria Culture. PMID:34816606
A Single Human-Relevant Fast Food Meal Rapidly Reorganizes Metabolomic and Transcriptomic Signatures in a Gut Microbiota-Dependent Manner. PMID:34804604
Application of Phagotherapy in the Treatment of Burn Patients (Review). PMID:34795985
Temporal variability in quantitative human gut microbiome profiles and implications for clinical research. PMID:34795283
Honey bee genetics shape the strain-level structure of gut microbiota in social transmission. PMID:34784973
Bacteriophages and their potential for treatment of gastrointestinal diseases. PMID:34782783
Computational Studies of the Intestinal Host-Microbiota Interactome. PMID:34765258
Haematopoietic cell transplantation outcomes are linked to intestinal mycobiota dynamics and an expansion of Candida parapsilosis complex species. PMID:34764444
Analysis of Cow-Calf Microbiome Transfer Routes and Microbiome Diversity in the Newborn Holstein Dairy Calf Hindgut. PMID:34760909
The Spanish gut microbiome reveals links between microorganisms and Mediterranean diet. PMID:34759297
Rabbit microbiota across the whole body revealed by 16S rRNA gene amplicon sequencing. PMID:34758744
RESCRIPt: Reproducible sequence taxonomy reference database management. PMID:34748542
The role of competition versus cooperation in microbial community coalescence. PMID:34748540
Probiotic supplementation: A prospective approach in the treatment of COVID-19. PMID:34747257
Effect of Saengshik Supplementation on the Gut Microbial Composition of Healthy Korean Adults: A Single-Group Pilot Study. PMID:34746209
Microbiota and Ocular Diseases. PMID:34746029
Intestinal Microbiome in Hematopoietic Stem Cell Transplantation For Autoimmune Diseases: Considerations and Perspectives on Behalf of Autoimmune Diseases Working Party (ADWP) of the EBMT. PMID:34745944
Microbiome Crosstalk in Immunotherapy and Antiangiogenesis Therapy. PMID:34745119
Gut microbiota of adults with asthma is broadly similar to non-asthmatics in a large population with varied ethnic origins. PMID:34743654
Role of the microbiome in systemic therapy for pancreatic ductal adenocarcinoma (Review). PMID:34738624
Therapeutic Potential of Butyrate for Treatment of Type 2 Diabetes. PMID:34737725
Selenium-enriched Bacillus subtilis yb-114246 improved growth and immunity of broiler chickens through modified ileal bacterial composition. PMID:34737359
Phage-delivered CRISPR-Cas9 for strain-specific depletion and genomic deletions in the gut microbiome. PMID:34731631
Abnormalities in Gut Microbiota and Metabolism in Patients With Chronic Spontaneous Urticaria. PMID:34721374
Roles of the Cell Surface Architecture of Bacteroides and Bifidobacterium in the Gut Colonization. PMID:34721360
Metagenomic and Metatranscriptomic Insight Into Oral Biofilms in Periodontitis and Related Systemic Diseases. PMID:34721325
mBodyMap: a curated database for microbes across human body and their associations with health and diseases. PMID:34718713
The oral microbiome in relation to pancreatic cancer risk in African Americans. PMID:34718358
Chronic rejection as a persisting phantom menace in organ transplantation: a new hope in the microbiota? PMID:34714788
Analysis of Salivary Mycobiome in a Cohort of Oral Squamous Cell Carcinoma Patients From Sudan Identifies Higher Salivary Carriage of Malassezia as an Independent and Favorable Predictor of Overall Survival. PMID:34712619
Gut and Brain: Investigating Physiological and Pathological Interactions Between Microbiota and Brain to Gain New Therapeutic Avenues for Brain Diseases. PMID:34712115
Evaluation of hypoglycemic effect, safety and immunomodulation of Prevotella copri in mice. PMID:34711895
Salivary microbiome profiling reveals a dysbiotic schizophrenia-associated microbiota. PMID:34711862
Gut non-bacterial microbiota contributing to alcohol-associated liver disease. PMID:34711112
Long-read sequencing to interrogate strain-level variation among adherent-invasive Escherichia coli isolated from human intestinal tissue. PMID:34710159
Biogeography of Bacterial Communities and Specialized Metabolism in Human Aerodigestive Tract Microbiomes. PMID:34704787
Comparison of Red-Complex Bacteria Between Saliva and Subgingival Plaque of Periodontitis Patients: A Systematic Review and Meta-Analysis. PMID:34692561
Tungsten enzymes play a role in detoxifying food and antimicrobial aldehydes in the human gut microbiome. PMID:34686601
Pathobiological Relationship of Excessive Dietary Intake of Choline/L-Carnitine: A TMAO Precursor-Associated Aggravation in Heart Failure in Sarcopenic Patients. PMID:34684454
Risk Factors for Gut Dysbiosis in Early Life. PMID:34683389
Microbiome Studies from Saudi Arabia over the Last 10 Years: Achievements, Gaps, and Future Directions. PMID:34683342
Mining the Microbiome and Microbiota-Derived Molecules in Inflammatory Bowel Disease. PMID:34681902
Bacterial metabolites and cardiovascular risk in children with chronic kidney disease. PMID:34677718
Oral microbial diversity analysis among atrophic glossitis patients and healthy individuals. PMID:34676060
The impact of the Th17:Treg axis on the IgA-Biome across the glycemic spectrum. PMID:34669745
New therapeutic targets and biomarkers for acute graft-versus-host disease (GVHD). PMID:34669521
A macroecological description of alternative stable states reproduces intra- and inter-host variability of gut microbiome. PMID:34669476
Functional glyco-metagenomics elucidates the role of glycan-related genes in environments. PMID:34663219
Impact of Bead-Beating Intensity on the Genus- and Species-Level Characterization of the Gut Microbiome Using Amplicon and Complete 16S rRNA Gene Sequencing. PMID:34660333
The Microbial Composition of Lower Genital Tract May Affect the Outcome of in vitro Fertilization-Embryo Transfer. PMID:34659157
Microbiota and Colorectal Cancer: From Gut to Bedside. PMID:34658896
Functional attractors in microbial community assembly. PMID:34653368
The Gut Microbiome and Sex Hormone-Related Diseases. PMID:34650525
Cultivation of common bacterial species and strains from human skin, oral, and gut microbiota. PMID:34649516
Gastrointestinal microbiome and gluten in celiac disease. PMID:34647492
The intestinal flora of patients with GHPA affects the growth and the expression of PD-L1 of tumor. PMID:34647152
Drinking Water Source and Intake Are Associated with Distinct Gut Microbiota Signatures in US and UK Populations. PMID:34642755
Gut Microbiota in Lung Cancer: Where Do We Stand? PMID:34638770
Gut Microbiota and Dietary Factors as Modulators of the Mucus Layer in Inflammatory Bowel Disease. PMID:34638564
Evaluation of the Effects of Library Preparation Procedure and Sample Characteristics on the Accuracy of Metagenomic Profiles. PMID:34636674
Chasing Ghosts: Race, Racism, and the Future of Microbiome Research. PMID:34636673
Association of vaginal bacterial communities and reproductive outcomes with prophylactic antibiotic exposure in a subfertile population undergoing in vitro fertilization: a prospective exploratory study. PMID:34632426
Holistic perspective of the role of gut microbes in diabetes mellitus and its management. PMID:34630900
Diversity Scaling of Human Digestive Tract (DT) Microbiomes: The Intra-DT and Inter-individual Patterns. PMID:34630520
Compositional variation of the human fecal microbiome in relation to azo-reducing activity: a pilot study. PMID:34625106
Procedures for Fecal Microbiota Transplantation in Murine Microbiome Studies. PMID:34621688
Complex species and strain ecology of the vaginal microbiome from pregnancy to postpartum and association with preterm birth. PMID:34617072
A Systematic Strategy to Find Potential Therapeutic Targets for Pseudomonas aeruginosa Using Integrated Computational Models. PMID:34616771
Peripheral blood microbial signatures in current and former smokers. PMID:34615932
Successional dynamics and alternative stable states in a saline activated sludge microbial community over 9 years. PMID:34615557
Uniform Manifold Approximation and Projection (UMAP) Reveals Composite Patterns and Resolves Visualization Artifacts in Microbiome Data. PMID:34609167
Viral Inactivation Impacts Microbiome Estimates in a Tissue-Specific Manner. PMID:34609165
Microbiome influence on host community dynamics: Conceptual integration of microbiome feedback with classical host-microbe theory. PMID:34608730
Comprehensive Characterization of Microbial Community in the Female Genital Tract of Reproductive-Aged Women in China. PMID:34604101
Gammaproteobacteria, a core taxon in the guts of soil fauna, are potential responders to environmental concentrations of soil pollutants. PMID:34593032
Metagenomic analysis of ancient dental calculus reveals unexplored diversity of oral archaeal Methanobrevibacter. PMID:34593021
Individuals with substance use disorders have a distinct oral microbiome pattern. PMID:34589776
Energy Conservation in Fermentations of Anaerobic Bacteria. PMID:34589068
Large-scale identification of extracellular plant miRNAs in mammals implicates their dietary intake. PMID:34587184
The Gut Microbiota during a Behavioral Weight Loss Intervention. PMID:34579125
Alcohol's Impact on the Gut and Liver. PMID:34579046
The Impact of Gut Microbiota-Derived Metabolites in Autism Spectrum Disorders. PMID:34576216
ITS2 Sequencing and Targeted Meta-Proteomics of Infant Gut Mycobiome Reveal the Functional Role of Rhodotorula sp. during Atopic Dermatitis Manifestation. PMID:34575786
Overview on the Prevalence of Fungal Infections, Immune Response, and Microbiome Role in COVID-19 Patients. PMID:34575758
Features of the Skin Microbiota in Common Inflammatory Skin Diseases. PMID:34575111
Persistence of functional microbiota composition across generations. PMID:34561474
Endogenous Fluorescence Carbon Dots Derived from Food Items. PMID:34557699
Gut Microbiota in Adipose Tissue Dysfunction Induced Cardiovascular Disease: Role as a Metabolic Organ. PMID:34552566
Escherichia coli small molecule metabolism at the host-microorganism interface. PMID:34552219
Comparison of DNA and RNA sequencing of total nucleic acids from human cervix for metagenomics. PMID:34552145
The effects of removing dead bacteria by propidium monoazide on the profile of salivary microbiome. PMID:34551743
The gut microbial diversity of colon cancer patients and the clinical significance. PMID:34551683
Comparison of microbiota in the upper versus lower respiratory tract in children during health and respiratory disease: protocol for a systematic review. PMID:34548109
A Modern-World View of Host-Microbiota-Pathogen Interactions. PMID:34544813
Next Generation Microbiome Research: Identification of Keystone Species in the Metabolic Regulation of Host-Gut Microbiota Interplay. PMID:34540837
Dynamics of the Upper Respiratory Tract Microbiota and Its Association with Mortality in COVID-19. PMID:34534435
New insights into the microbiome in kidney transplantation. PMID:34534173
The Role of Polyphenols in Regulation of Heat Shock Proteins and Gut Microbiota in Weaning Stress. PMID:34531940
Modulation of Glial Function in Health, Aging, and Neurodegenerative Disease. PMID:34531726
The Emerging World of Microbiome in Autoimmune Disorders: Opportunities and Challenges. PMID:34531642
Insight Into the Potential Value of Gut Microbial Signatures for Prediction of Gestational Anemia. PMID:34527605
Specific Gut Microbiome and Serum Metabolome Changes in Lung Cancer Patients. PMID:34527604
Cigarette Smoking and Opium Use in Relation to the Oral Microbiota in Iran. PMID:34523990
Analysis of gut microbiota in three species belonging to different genera (Hemitragus, Pseudois, and Ovis) from the subfamily Caprinae in the absence of environmental variance. PMID:34522365
Plant-microbe interactions in the phyllosphere: facing challenges of the anthropocene. PMID:34522008
Dietary and Pharmacologic Manipulations of Host Lipids and Their Interaction With the Gut Microbiome in Non-human Primates. PMID:34513856
Discovering Potential Taxonomic Biomarkers of Type 2 Diabetes From Human Gut Microbiota via Different Feature Selection Methods. PMID:34512559
A Microbiome-Driven Approach to Combating Depression During the COVID-19 Pandemic. PMID:34504858
Saliva-derived microcosm biofilms grown on different oral surfaces in vitro. PMID:34504090
Host-Microbiota Interactions in Liver Inflammation and Cancer. PMID:34503151
Relationships of Gut Microbiota Composition, Short-Chain Fatty Acids and Polyamines with the Pathological Response to Neoadjuvant Radiochemotherapy in Colorectal Cancer Patients. PMID:34502456
Oral Microbiota Features in Subjects with Down Syndrome and Periodontal Diseases: A Systematic Review. PMID:34502159
Gut microbiome in acute pancreatitis: A review based on current literature. PMID:34497432
Oral, Tongue-Coating Microbiota, and Metabolic Disorders: A Novel Area of Interactive Research. PMID:34490384
Characterization of the Genitourinary Microbiome of 1,165 Middle-Aged and Elderly Healthy Individuals. PMID:34489882
The nasal mutualist Dolosigranulum pigrum AMBR11 supports homeostasis via multiple mechanisms. PMID:34485860
Healthcare-Associated Infections-Related Bacteriome and Antimicrobial Resistance Profiling: Assessing Contamination Hotspots in a Developing Country Public Hospital. PMID:34484149
Efficient computation of Faith's phylogenetic diversity with applications in characterizing microbiomes. PMID:34479875
Delivery mode and perinatal antibiotics influence the predicted metabolic pathways of the gut microbiome. PMID:34471207
Eight-week exercise training in humans with obesity: Marked improvements in insulin sensitivity and modest changes in gut microbiome. PMID:34467673
Evaluation of DNA extraction protocols from liquid-based cytology specimens for studying cervical microbiota. PMID:34460815
Forensic Analysis of Human Microbiome in Skin and Body Fluids Based on Geographic Location. PMID:34458160
Diverse methanogens, bacteria and tannase genes in the feces of the endangered volcano rabbit (Romerolagus diazi). PMID:34458021
Enabling rational gut microbiome manipulations by understanding gut ecology through experimentally-evidenced in silico models. PMID:34455914
Contribution of the Commensal Microflora to the Immunological Homeostasis and the Importance of Immune-Related Drug Development for Clinical Applications. PMID:34445599
Microbiome and Cancers of the Esophagus: A Review. PMID:34442842
Oral Factors That Impact the Oral Microbiota in Parkinson's Disease. PMID:34442695
Recovering Escherichia coli Plasmids in the Absence of Long-Read Sequencing Data. PMID:34442692
Association of Skin Microbiome with the Onset and Recurrence of Pressure Injury in Bedridden Elderly People. PMID:34442680
Etiopathogenesis and Diagnostic Strategies in Autoimmune Hepatitis. PMID:34441353
The Bigger Picture: Why Oral Mucosa Heals Better Than Skin. PMID:34439831
Gut microbiome composition and diversity are related to human personality traits. PMID:34435164
Benchmarking laboratory processes to characterise low-biomass respiratory microbiota. PMID:34433845
Comprehensive Wet-Bench and Bioinformatics Workflow for Complex Microbiota Using Oxford Nanopore Technologies. PMID:34427527
The brain-gut axis in gastrointestinal cancers. PMID:34422394
A discussion of the gut microbiome's development, determinants, and dysbiosis in cancers of the esophagus and stomach. PMID:34422393
Integrative Longitudinal Analysis of Metabolic Phenotype and Microbiota Changes During the Development of Obesity. PMID:34414128
The airway microbiome and pediatric asthma. PMID:34412069
Leveraging Fecal Microbial Markers to Improve the Diagnostic Accuracy of the Fecal Immunochemical Test for Advanced Colorectal Adenoma. PMID:34408121
Structural diversity, functional aspects and future therapeutic applications of human gut microbiome. PMID:34405262
Polyphenols as modulators of pre-established gut microbiota dysbiosis: State-of-the-art. PMID:34397132
Healthy Patients Are Not the Best Controls for Microbiome-Based Clinical Studies: Example of Sjögren's Syndrome in a Systematic Review. PMID:34394092
Association between periodontal bacteria and degenerative aortic stenosis: a pilot study. PMID:34387043
Vitamin D and The Gut Microbiota: a Narrative Literature Review. PMID:34386438
Disturbed microbial ecology in Alzheimer's disease: evidence from the gut microbiota and fecal metabolome. PMID:34384375
Quantifying the Impact of Human Leukocyte Antigen on the Human Gut Microbiota. PMID:34378979
Conversion of dietary inositol into propionate and acetate by commensal Anaerostipes associates with host health. PMID:34376656
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
Commensal microbiota in the digestive tract: a review of its roles in carcinogenesis and radiotherapy. PMID:34369136
Distinct microbial communities colonize tonsillar squamous cell carcinoma. PMID:34367729
Microbial characteristics across different tongue coating types in a healthy population. PMID:34367522
Composition and Functions of the Gut Microbiome in Pediatric Obesity: Relationships with Markers of Insulin Resistance. PMID:34361925
Effect of Dietary Amylose/Amylopectin Ratio on Intestinal Health and Cecal Microbes' Profiles of Weaned Pigs Undergoing Feed Transition or Challenged With Escherichia coli Lipopolysaccharide. PMID:34354689
Dietary modulation of gut microbiota for the relief of irritable bowel syndrome. PMID:34349876
Linking Inflammatory Bowel Disease Symptoms to Changes in the Gut Microbiome Structure and Function. PMID:34349736
Host adaptation in gut Firmicutes is associated with sporulation loss and altered transmission cycle. PMID:34348764
Seasonal Dietary Shifts Alter the Gut Microbiota of Avivorous Bats: Implication for Adaptation to Energy Harvest and Nutritional Utilization. PMID:34346703
Gut Microbiome Structure and Association with Host Factors in a Korean Population. PMID:34342532
Captive Common Marmosets (Callithrix jacchus) Are Colonized throughout Their Lives by a Community of Bifidobacterium Species with Species-Specific Genomic Content That Can Support Adaptation to Distinct Metabolic Niches. PMID:34340536
Chemoselective and Highly Sensitive Quantification of Gut Microbiome and Human Metabolites. PMID:34339587
An Exploratory Study for the Association of Gut Microbiome with Efficacy of Immune Checkpoint Inhibitor in Patients with Hepatocellular Carcinoma. PMID:34336726
Gut Microbiota Is Involved in Alcohol-Induced Osteoporosis in Young and Old Rats Through Immune Regulation. PMID:34336709
Gut Microbiome and Metabolites in Systemic Lupus Erythematosus: Link, Mechanisms and Intervention. PMID:34335588
Proteomics, Lipidomics, Metabolomics, and 16S DNA Sequencing of Dental Plaque From Patients With Diabetes and Periodontal Disease. PMID:34332123
Titanium dioxide particles from the diet: involvement in the genesis of inflammatory bowel diseases and colorectal cancer. PMID:34330311
Prioritizing Disease-Related Microbes Based on the Topological Properties of a Comprehensive Network. PMID:34326821
Gut microbiota in obesity. PMID:34321848
Interplays between human microbiota and microRNAs in COVID-19 pathogenesis: a literature review. PMID:34315200
Modeling the temporal dynamics of cervicovaginal microbiota identifies targets that may promote reproductive health. PMID:34311774
Social environment and genetics underlie body site-specific microbiomes of Yellowstone National Park gray wolves (Canis lupus). PMID:34306636
Enhancing Checkpoint Inhibitor Therapy in Solid Tissue Cancers: The Role of Diet, the Microbiome & Microbiome-Derived Metabolites. PMID:34305883
The Impact of Diet and Exercise on Drug Responses. PMID:34299312
Leaky Gut: Effect of Dietary Fiber and Fats on Microbiome and Intestinal Barrier. PMID:34299233
Probiotic Lacticaseibacillus rhamnosus GR-1 and Limosilactobacillus reuteri RC-14 as an Adjunctive Treatment for Bacterial Vaginosis Do Not Increase the Cure Rate in a Chinese Cohort: A Prospective, Parallel-Group, Randomized, Controlled Study. PMID:34295831
Altered oral and gut microbiota and its association with SARS-CoV-2 viral load in COVID-19 patients during hospitalization. PMID:34294722
Characterization of the blood and neutrophil-specific microbiomes and exploration of potential bacterial biomarkers for sepsis in surgical patients. PMID:34288545
Colorectal Cancer Patients Have Four Specific Bacterial Species in Oral and Gut Microbiota in Common-A Metagenomic Comparison with Healthy Subjects. PMID:34283063
Archaea Are Rare and Uncommon Members of the Mammalian Skin Microbiome. PMID:34282942
The Role of Upper Airway Microbiome in the Development of Adult Asthma. PMID:34277109
The Mammalian Metaorganism: A Holistic View on How Microbes of All Kingdoms and Niches Shape Local and Systemic Immunity. PMID:34276696
Probiotic engineering strategies for the heterologous production of antimicrobial peptides. PMID:34273423
The Sulfur Microbial Diet Is Associated With Increased Risk of Early-Onset Colorectal Cancer Precursors. PMID:34273347
Modulation of Gut Microbiota to Enhance Effect of Checkpoint Inhibitor Immunotherapy. PMID:34267748
Decrease in abundance of bacteria of the genus Bifidobacterium in gut microbiota may be related to pre-eclampsia progression in women from East China. PMID:34262418
Genomic diversity and ecology of human-associated Akkermansia species in the gut microbiome revealed by extensive metagenomic assembly. PMID:34261503
Metagenomics: a path to understanding the gut microbiome. PMID:34259891
Gut health: The results of microbial and mucosal immune interactions in pigs. PMID:34258416
A Scale-Free, Fully Connected Global Transition Network Underlies Known Microbiome Diversity. PMID:34254819
Interplay Between Class II HLA Genotypes and the Microbiome and Immune Phenotypes in Individuals With PTEN Hamartoma Tumor Syndrome. PMID:34250407
Chronic Stress-Induced Depression and Anxiety Priming Modulated by Gut-Brain-Axis Immunity. PMID:34248950
Characterization of Supragingival Plaque and Oral Swab Microbiomes in Children With Severe Early Childhood Caries. PMID:34248903
Recent advancements in the exploitation of the gut microbiome in the diagnosis and treatment of colorectal cancer. PMID:34236075
Pharmacogenomics of NSAID-Induced Upper Gastrointestinal Toxicity. PMID:34234675
Metagenome-wide association study of gut microbiome revealed potential microbial marker set for diagnosis of pediatric myasthenia gravis. PMID:34233671
Intestinal microbiota and kidney diseases. PMID:34233442
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
Cross-Scale Analyses of Animal and Human Gut Microbiome Assemblies from Metacommunity to Global Landscape. PMID:34227828
Pediatric nonalcoholic fatty liver disease and the microbiome: Mechanisms contributing to pathogenesis and progression. PMID:34222711
Clinical Aspects of Stevens-Johnson Syndrome and Toxic Epidermal Necrolysis With Severe Ocular Complications in Brazil. PMID:34222274
Exploring the Oral Microbiome in Rheumatic Diseases, State of Art and Future Prospective in Personalized Medicine with an AI Approach. PMID:34209167
Different Reactions in Each Enterotype Depending on the Intake of Probiotic Yogurt Powder. PMID:34208176
Identifying a Novel Bile Salt Hydrolase from the Keystone Gut Bacterium Christensenella minuta. PMID:34207623
Comparative Metagenomic Analysis of Chicken Gut Microbial Community, Function, and Resistome to Evaluate Noninvasive and Cecal Sampling Resources. PMID:34207572
What We Know So Far about the Metabolite-Mediated Microbiota-Intestinal Immunity Dialogue and How to Hear the Sound of This Crosstalk. PMID:34205653
Microbiota Alterations in Precancerous Colon Lesions: A Systematic Review. PMID:34205378
Nonalcoholic Fatty Liver Disease (NAFLD) as Model of Gut-Liver Axis Interaction: From Pathophysiology to Potential Target of Treatment for Personalized Therapy. PMID:34204274
Profiling of Intestinal Microbiota in Patients Infected with Respiratory Influenza A and B Viruses. PMID:34204203
Dietary Habits and Gut Microbiota in Healthy Adults: Focusing on the Right Diet. A Systematic Review. PMID:34201611
Virome in the Lungs: The Role of Anelloviruses in Childhood Respiratory Diseases. PMID:34201449
Gut Serpinome: Emerging Evidence in IBD. PMID:34200095
Salivary Microbiome Diversity in Kuwaiti Adolescents with Varied Body Mass Index-A Pilot Study. PMID:34200004
Microfluidic Device Using Mouse Small Intestinal Tissue for the Observation of Fluidic Behavior in the Lumen. PMID:34199306
Malaria parasite infection compromises colonization resistance to an enteric pathogen by reducing gastric acidity. PMID:34193410
The azithromycin to prevent wheezing following severe RSV bronchiolitis-II clinical trial: Rationale, study design, methods, and characteristics of study population. PMID:34189338
Oral administration of maternal vaginal microbes at birth to restore gut microbiome development in infants born by caesarean section: A pilot randomised placebo-controlled trial. PMID:34186487
mbImpute: an accurate and robust imputation method for microbiome data. PMID:34183041
A murine model of tuberculosis/type 2 diabetes comorbidity for investigating the microbiome, metabolome and associated immune parameters. PMID:34179725
Joint Microbial and Metabolomic Network Estimation with the Censored Gaussian Graphical Model. PMID:34178165
Gut microbiome and its meta-omics perspectives: profound implications for cardiovascular diseases. PMID:34170211
Alterations in gut microbiota linked to provenance, sex, and chronic wasting disease in white-tailed deer (Odocoileus virginianus). PMID:34168170
Characterization of Bacterial Community Dynamics of the Human Mouth Throughout Decomposition via Metagenomic, Metatranscriptomic, and Culturing Techniques. PMID:34163458
Can control of gut microbiota be a future therapeutic option for inflammatory bowel disease? PMID:34163114
Host genetic control of gut microbiome composition. PMID:34159422
An evolutionary algorithm for designing microbial communities via environmental modification. PMID:34157894
Recent advances in tools to map the microbiome. PMID:34151052
Visualization of Respiratory Commensal Bacteria in Context of Their Natural Host Environment. PMID:34149669
Estimating the Time Since Deposition of Saliva Stains With a Targeted Bacterial DNA Approach: A Proof-of-Principle Study. PMID:34149638
Spatial heterogeneity analysis of the human virome with Taylor's power law. PMID:34136092
Characterization of a bacterial strain Lactobacillus paracasei LP10266 recovered from an endocarditis patient in Shandong, China. PMID:34134621
Association Between Gut Microbial Abundance and Sight-Threatening Diabetic Retinopathy. PMID:34132747
Human oral mucosa cell atlas reveals a stromal-neutrophil axis regulating tissue immunity. PMID:34129837
Levels of Trimethylamine N-Oxide Remain Elevated Long Term After Left Ventricular Assist Device and Heart Transplantation and Are Independent From Measures of Inflammation and Gut Dysbiosis. PMID:34129361
Diversity and bias in oral microbiome research: A commentary. PMID:34124638
Combination Strategies to Augment Immune Check Point Inhibitors Efficacy - Implications for Translational Research. PMID:34123767
Altered Gut Microbiota in a Fragile X Syndrome Mouse Model. PMID:34121987
The lung microbiome in lung transplantation. PMID:34120840
Dispersal strategies shape persistence and evolution of human gut bacteria. PMID:34111423
The impact of the female genital tract microbiome in women health and reproduction: a review. PMID:34110573
Evolving Interplay Between Dietary Polyphenols and Gut Microbiota-An Emerging Importance in Healthcare. PMID:34109202
Host-Microbiome Interaction in Lung Cancer. PMID:34108973
Dysosmobacter welbionis is a newly isolated human commensal bacterium preventing diet-induced obesity and metabolic disorders in mice. PMID:34108237
Entamoeba gingivalis: epidemiology, genetic diversity and association with oral microbiota signatures in North Eastern Tanzania. PMID:34104347
Effect of the standard herbal preparation, STW5, treatment on dysbiosis induced by dextran sodium sulfate in experimental colitis. PMID:34103031
Effect of mupirocin for Staphylococcus aureus decolonization on the microbiome of the nose and throat in community and nursing home dwelling adults. PMID:34101737
Impact of type 1 diabetes on the composition and functional potential of gut microbiome in children and adolescents: possible mechanisms, current knowledge, and challenges. PMID:34101547
Towards a deeper understanding of microbial communities: integrating experimental data with dynamic models. PMID:34098512
Dynamic Observation of the Effect of Maternal Caries on the Oral Microbiota of Infants Aged 12-24 Months. PMID:34094997
Personalizing the Care and Treatment of Alzheimer's Disease: An Overview. PMID:34093032
Diurnal variation in the human skin microbiome affects accuracy of forensic microbiome matching. PMID:34090519
Urinary Microbiome: Yin and Yang of the Urinary Tract. PMID:34084752
Lung microbiome alterations in NSCLC patients. PMID:34083661
Genome-Inferred Correspondence between Phylogeny and Metabolic Traits in the Wild Drosophila Gut Microbiome. PMID:34081101
Chemiluminescent Protease Probe for Rapid, Sensitive, and Inexpensive Detection of Live Mycobacterium tuberculosis. PMID:34079897
Short-term physical exercise impacts on the human holobiont obtained by a randomised intervention study. PMID:34078289
Human microbiota modulation via QseC sensor kinase mediated in the Escherichia coli O104:H4 outbreak strain infection in microbiome model. PMID:34078285
The role of the microbiome in gastrointestinal inflammation. PMID:34076695
Personalized Nutrition Approach in Pregnancy and Early Life to Tackle Childhood and Adult Non-Communicable Diseases. PMID:34073649
Short- and Branched-Chain Fatty Acids as Fecal Markers for Microbiota Activity in Vegans and Omnivores. PMID:34073495
The Microbiome as a Therapy in Pouchitis and Ulcerative Colitis. PMID:34071065
Dadaist2: A Toolkit to Automate and Simplify Statistical Analysis and Plotting of Metabarcoding Experiments. PMID:34069990
Taxonomic and Gene Category Analyses of Subgingival Plaques from a Group of Japanese Individuals with and without Periodontitis. PMID:34069916
The Vaginal Microbiota, Bacterial Biofilms and Polymeric Drug-Releasing Vaginal Rings. PMID:34069590
Oral Microbiota and Salivary Levels of Oral Pathogens in Gastro-Intestinal Diseases: Current Knowledge and Exploratory Study. PMID:34069179
Significance of the Gut Microbiota in Acute Kidney Injury. PMID:34067285
The Neuroimmune Role of Intestinal Microbiota in the Pathogenesis of Cardiovascular Disease. PMID:34066528
Diet-Microbiota Interactions in Inflammatory Bowel Disease. PMID:34062869
Pathophysiological Characteristics Linking Type 2 Diabetes Mellitus and Colorectal Neoplasia. PMID:34062073
VB12Path for Accurate Metagenomic Profiling of Microbially Driven Cobalamin Synthesis Pathways. PMID:34060913
The pathogenic oral-gut-liver axis: new understandings and clinical implications. PMID:34057877
GeneMark-HM: improving gene prediction in DNA sequences of human microbiome. PMID:34056597
Immunomodulation by the Commensal Microbiome During Immune-Targeted Interventions: Focus on Cancer Immune Checkpoint Inhibitor Therapy and Vaccination. PMID:34054810
The Impact of Dietary Sphingolipids on Intestinal Microbiota and Gastrointestinal Immune Homeostasis. PMID:34054805
A multiview model for relative and absolute microbial abundances. PMID:34048057
A global metagenomic map of urban microbiomes and antimicrobial resistance. PMID:34043940
A Benchmark of Genetic Variant Calling Pipelines Using Metagenomic Short-Read Sequencing. PMID:34040632
The metabolic profile of Bifidobacterium dentium reflects its status as a human gut commensal. PMID:34030655
Microbiota and Tuberculosis: A Potential Role of Probiotics, and Postbiotics. PMID:34026804
Gut Microbiota: Influence on Carcinogenesis and Modulation Strategies by Drug Delivery Systems to Improve Cancer Therapy. PMID:34026439
DRAGoM: Classification and Quantification of Noncoding RNA in Metagenomic Data. PMID:34025724
Modulating Oral Delivery and Gastrointestinal Kinetics of Recombinant Proteins via Engineered Fungi. PMID:34009532
Site- and Taxa-Specific Disease-Associated Oral Microbial Structures Distinguish Inflammatory Bowel Diseases. PMID:34002220
Microbiota populations in supragingival plaque, subgingival plaque, and saliva habitats of adult dogs. PMID:34001282
Microbiota as a potentially-modifiable factor influencing COVID-19. PMID:34000641
Ruminal microbiota-host interaction and its effect on nutrient metabolism. PMID:33997331
Insights into host-microbe interaction: What can we do for the swine industry? PMID:33997327
Mutual interaction between gut microbiota and protein/amino acid metabolism for host mucosal immunity and health. PMID:33997326
Gut microbiota profiles of young South Indian children: Child sex-specific relations with growth. PMID:33989353
Challenges in benchmarking metagenomic profilers. PMID:33986544
Bifidobacterium dentium-derived y-glutamylcysteine suppresses ER-mediated goblet cell stress and reduces TNBS-driven colonic inflammation. PMID:33985416
Reconstruction of ancient microbial genomes from the human gut. PMID:33981035
How we decide what to eat: Toward an interdisciplinary model of gut-brain interactions. PMID:33977675
Community composition of microbial microcosms follows simple assembly rules at evolutionary timescales. PMID:33976223
Human and preclinical studies of the host-gut microbiome co-metabolite hippurate as a marker and mediator of metabolic health. PMID:33975870
Decrease of α-defensin impairs intestinal metabolite homeostasis via dysbiosis in mouse chronic social defeat stress model. PMID:33972646
The evolution and changing ecology of the African hominid oral microbiome. PMID:33972424
Dynamic changes occur in the DNA gut virome of female cynomolgus macaques during aging. PMID:33970533
Lipopolysaccharide from the commensal microbiota of the breast enhances cancer growth: role of S100A7 and TLR4. PMID:33969603
Potential prebiotic substrates modulate composition, metabolism, virulence and inflammatory potential of an in vitro multi-species oral biofilm. PMID:33968313
Metagenomic analysis of mother-infant gut microbiome reveals global distinct and shared microbial signatures. PMID:33960282
Could the Gut Microbiota Serve as a Therapeutic Target in Ischemic Stroke? PMID:33959182
Gut-microbiota-on-a-chip: an enabling field for physiological research. PMID:33954286
ZFP90 drives the initiation of colitis-associated colorectal cancer via a microbiota-dependent strategy. PMID:33947304
Effect of Gut Microbiota Biotransformation on Dietary Tannins and Human Health Implications. PMID:33947064
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3. PMID:33944776
Gut Dysbiosis Associated with Antibiotics and Disease Severity and Its Relation to Mortality in Critically Ill Patients. PMID:33939152
The interplay between Helicobacter pylori and gastrointestinal microbiota. PMID:33938378
GABA Production by Human Intestinal Bacteroides spp.: Prevalence, Regulation, and Role in Acid Stress Tolerance. PMID:33936013
Asthma in the Precision Medicine Era: Biologics and Probiotics. PMID:33926084
The Role of Lung Colonization in Connective Tissue Disease-Associated Interstitial Lung Disease. PMID:33925354
Oral-Gut Microbiome Axis in Gastrointestinal Disease and Cancer. PMID:33924899
Alterations of the Skin and Gut Microbiome in Psoriasis and Psoriatic Arthritis. PMID:33924414
Gut Microbiota and Environment in Coronary Artery Disease. PMID:33923612
The Potential Impact of Selected Bacterial Strains on the Stress Response. PMID:33922095
Measuring Dietary Botanical Diversity as a Proxy for Phytochemical Exposure. PMID:33919845
Vaginal Probiotics for Reproductive Health and Related Dysbiosis: Systematic Review and Meta-Analysis. PMID:33918150
Nasal Microbiota and Infectious Complications After Elective Surgical Procedures. PMID:33914049
The Gut Microbiome: Human Health and Inflammatory Skin Diseases. PMID:33911753
Therapeutic potential of microbial modulation in pancreatic cancer. PMID:33906958
Human- and infrastructure-associated bacteria in greywater. PMID:33905584
Performance evaluation of a new custom, multi-component DNA isolation method optimized for use in shotgun metagenomic sequencing-based aerosol microbiome research. PMID:33902731
A rather dry subject; investigating the study of arid-associated microbial communities. PMID:33902728
Performance evaluation of high-volume electret filter air samplers in aerosol microbiome research. PMID:33902714
The possible role of oral microbiome in autoimmunity. PMID:33898698
Best Practices for Microbiome Study Design in Companion Animal Research. PMID:33898544
Vulvar Pruritus: A Review of Clinical Associations, Pathophysiology and Therapeutic Management. PMID:33898486
G2S: A New Deep Learning Tool for Predicting Stool Microbiome Structure From Oral Microbiome Data. PMID:33897763
Multi-Replicated Enrichment Communities as a Model System in Microbial Ecology. PMID:33897672
Evolutionary Significance of the Neuroendocrine Stress Axis on Vertebrate Immunity and the Influence of the Microbiome on Early-Life Stress Regulation and Health Outcomes. PMID:33897639
Gut microbiota of endangered crested ibis: Establishment, diversity, and association with reproductive output. PMID:33891612
Non-additive microbial community responses to environmental complexity. PMID:33888697
Bile Microbiota in Patients with Pigment Common Bile Duct Stones. PMID:33876584
Human breast microbiome correlates with prognostic features and immunological signatures in breast cancer. PMID:33863341
The microbial diversity following antibiotic treatment of Clostridioides difficile infection. PMID:33849457
Computational methods for chromosome-scale haplotype reconstruction. PMID:33845884
Integrating pan-genome with metagenome for microbial community profiling. PMID:33841754
Forensic Microbiome Database: A Tool for Forensic Geolocation Meta-Analysis Using Publicly Available 16S rRNA Microbiome Sequencing. PMID:33833745
Microbial community compositions in breast implant biofilms associated with contracted capsules. PMID:33831065
Genomic characterization of four Escherichia coli strains isolated from oral lichen planus biopsies. PMID:33828821
Novel approaches to liver disease diagnosis and modeling. PMID:33824923
The Gut Microbiome in Autism: Study-Site Effects and Longitudinal Analysis of Behavior Change. PMID:33824197
Ecological and Evolutionary responses to Antibiotic Treatment in the Human Gut Microbiota. PMID:33822937
Multidimensional study of the oral microbiome, metabolite, and immunologic environment in peanut allergy. PMID:33819506
Microbiome, Immunosenescence, and Chronic Kidney Disease. PMID:33816535
Microbiota, renal disease and renal transplantation. PMID:33816144
The microbiome: Composition and locations. PMID:33814111
Bacterial, Archaea, and Viral Transcripts (BAVT) Expression in Gynecological Cancers and Correlation with Regulatory Regions of the Genome. PMID:33807612
Metagenomic Analysis of the Respiratory Microbiome of a Broiler Flock from Hatching to Processing. PMID:33807233
Probiotics Do Not Alter the Long-Term Stability of the Supragingival Microbiota in Healthy Subjects: A Randomized Controlled Trial. PMID:33805208
Impacts of Maternal Diet and Alcohol Consumption during Pregnancy on Maternal and Infant Gut Microbiota. PMID:33804345
Butyrate and the Fine-Tuning of Colonic Homeostasis: Implication for Inflammatory Bowel Diseases. PMID:33802759
Environmental Influences on the Human Microbiome and Implications for Noncommunicable Disease. PMID:33798404
Prevalence, diversity and transferability of the Tn916-Tn1545 family ICE in oral streptococci. PMID:33796228
Pathophysiology of Hypertension: The Mosaic Theory and Beyond. PMID:33793328
Role of the Gastric Microbiome in Gastric Cancer: From Carcinogenesis to Treatment. PMID:33790881
Restraint Stress in Hypertensive Rats Activates the Intestinal Macrophages and Reduces Intestinal Barrier Accompanied by Intestinal Flora Dysbiosis. PMID:33790622
Gut microbial differences in breast and prostate cancer cases from two randomised controlled trials compared to matched cancer-free controls. PMID:33789551
STROBE-sequencing analysis of the vaginal microecology of 4- to 6-year-old girls in Southwest China. PMID:33787640
Effect of 17β-estradiol on a human vaginal Lactobacillus crispatus strain. PMID:33785829
Shared Environment and Genetics Shape the Gut Microbiome after Infant Adoption. PMID:33785620
Diversity and composition of gut microbiome of cervical cancer patients: Do results of 16S rRNA sequencing and whole genome sequencing approaches align? PMID:33785357
Pharyngeal Microbial Signatures Are Predictive of the Risk of Fungal Pneumonia in Hematologic Patients. PMID:33782152
The Effects of Corticosteroids on the Respiratory Microbiome: A Systematic Review. PMID:33777968
Engineering Cooperation in an Anaerobic Coculture. PMID:33771781
The microbiome and human cancer. PMID:33766858
Dysbiosis From a Microbial and Host Perspective Relative to Oral Health and Disease. PMID:33763040
Pectin supplement significantly enhanced the anti-PD-1 efficacy in tumor-bearing mice humanized with gut microbiota from patients with colorectal cancer. PMID:33754054
Ochratoxin A: its impact on poultry gut health and microbiota, an overview. PMID:33752074
Predictive Metagenomic Analysis of Autoimmune Disease Identifies Robust Autoimmunity and Disease Specific Microbial Signatures. PMID:33746917
Metagenome Analysis of Intestinal Bacteria in Healthy People, Patients With Inflammatory Bowel Disease and Colorectal Cancer. PMID:33738265
Applications of Machine Learning in Human Microbiome Studies: A Review on Feature Selection, Biomarker Identification, Disease Prediction and Treatment. PMID:33737920
Immunomodulatory streptococci that inhibit CXCL8 secretion and NFκB activation are common members of the oral microbiota. PMID:33734952
Luxibacter massiliensis gen. nov., sp. nov., a new bacterium isolated from the human gut microbiota. PMID:33732473
APOE-ε4 Carrier Status and Gut Microbiota Dysbiosis in Patients With Alzheimer Disease. PMID:33732104
Deoxycholic Acid and Lithocholic Acid Alleviate Liver Injury and Inflammation in Mice with Klebsiella pneumoniae-Induced Liver Abscess and Bacteremia. PMID:33727851
Dynamic Alterations of Oral Microbiota Related to Halitosis in Preschool Children. PMID:33718263
Gut Microbiota Signatures in Gestational Anemia. PMID:33718259
Immune Checkpoint Inhibitors in Triple Negative Breast Cancer Treatment: Promising Future Prospects. PMID:33718107
Binnacle: Using Scaffolds to Improve the Contiguity and Quality of Metagenomic Bins. PMID:33717033
Effect of a Humanized Diet Profile on Colonization Efficiency and Gut Microbial Diversity in Human Flora-Associated Mice. PMID:33708788
Dissecting the contribution of host genetics and the microbiome in complex behaviors. PMID:33705688
Spatial scale in analysis of the dental plaque microbiome. PMID:33690940
Acquisition and establishment of the oral microbiota. PMID:33690935
Maintaining homeostatic control of periodontal bone tissue. PMID:33690918
Dynamic Changes in the Nasal Microbiome Associated With Disease Activity in Patients With Granulomatosis With Polyangiitis. PMID:33682371
The Role of Bacterial and Fungal Human Respiratory Microbiota in COVID-19 Patients. PMID:33681368
Effects of altitude on human oral microbes. PMID:33677720
Alterations of Gut Microbiota by Overnutrition Impact Gluconeogenic Gene Expression and Insulin Signaling. PMID:33672754
In Vitro Anti-Biofilm and Antibacterial Properties of Streptococcus downii sp. nov. PMID:33671537
Microbiota-Derived Metabolites, Indole-3-aldehyde and Indole-3-acetic Acid, Differentially Modulate Innate Cytokines and Stromal Remodeling Processes Associated with Autoimmune Arthritis. PMID:33670600
Aggregating Knockoffs for False Discovery Rate Control with an Application to Gut Microbiome Data. PMID:33669462
When a Neonate Is Born, So Is a Microbiota. PMID:33669262
Analysis of Human Gut Microbiome: Taxonomy and Metabolic Functions in Thai Adults. PMID:33668840
Gut and Reproductive Tract Microbiota Adaptation during Pregnancy: New Insights for Pregnancy-Related Complications and Therapy. PMID:33668738
Exploring the Potential Role of the Gut Microbiome in Chemotherapy-Induced Neurocognitive Disorders and Cardiovascular Toxicity. PMID:33668518
Di-(2-ethylhexyl) phthalate exposure induces female reproductive toxicity and alters the intestinal microbiota community structure and fecal metabolite profile in mice. PMID:33665894
Goals in Nutrition Science 2020-2025. PMID:33665201
A prospective study of the adaptive changes in the gut microbiome during standard-of-care chemoradiotherapy for gynecologic cancers. PMID:33662003
The structure and diversity of strain-level variation in vaginal bacteria. PMID:33656436
Altered microbiomes in thirdhand smoke-exposed children and their home environments. PMID:33654287
Microbiota - The Unseen Players in Adult Asthmatic Airways. PMID:33646108
Gut microbiome and Mediterranean diet in the context of obesity. Current knowledge, perspectives and potential therapeutic targets. PMID:33644741
Microbiome Analyses Demonstrate Specific Communities Within Five Shark Species. PMID:33643235
Interplay of Good Bacteria and Central Nervous System: Cognitive Aspects and Mechanistic Considerations. PMID:33642976
Ecology-guided prediction of cross-feeding interactions in the human gut microbiome. PMID:33637740
Explainable AI reveals changes in skin microbiome composition linked to phenotypic differences. PMID:33633172
A Review on the Health Effects of Pesticides Based on Host Gut Microbiome and Metabolomics. PMID:33628766
Acquisition of oral microbiota is driven by environment, not host genetics. PMID:33622378
The Gastrointestinal Microbiota of the Common Marmoset (Callithrix jacchus). PMID:33620078
Gut microbiome diversity is an independent predictor of survival in cervical cancer patients receiving chemoradiation. PMID:33619320
Regulation of Intestinal Barrier Function by Microbial Metabolites. PMID:33610769
The Impact of Female Genital Microbiota on Fertility and Assisted Reproductive Treatments. PMID:33603805
Microbes As Friends, Not Foes: Shifting the Focus from Pathogenesis to Symbiosis. PMID:33603248
Amplicon-based skin microbiome profiles collected by tape stripping with different adhesive film dressings: a comparative study. PMID:33602131
Characterization of the human skin resistome and identification of two microbiota cutotypes. PMID:33597039
Restructuring the Gut Microbiota by Intermittent Fasting Lowers Blood Pressure. PMID:33596669
Preimmune Recognition and Response to Microbial Metabolites. PMID:33595384
Microbiota restoration reduces antibiotic-resistant bacteria gut colonization in patients with recurrent Clostridioides difficile infection from the open-label PUNCH CD study. PMID:33593430
Interspecies bacterial competition regulates community assembly in the C. elegans intestine. PMID:33589765
Intestinal Inflammation as a Dysbiosis of Energy Procurement: New Insights into an Old Topic. PMID:33583319
Host and body site-specific adaptation of Lactobacillus crispatus genomes. PMID:33575551
Strain-level functional variation in the human gut microbiota based on bacterial binding to artificial food particles. PMID:33571448
Editorial: defining a microbial signature to predict non-response to a low FODMAP diet-a step closer or is it? Authors' reply. PMID:33566399
Autoimmune susceptibility gene PTPN2 is required for clearance of adherent-invasive Escherichia coli by integrating bacterial uptake and lysosomal defence. PMID:33563644
Guild-based analysis for understanding gut microbiome in human health and diseases. PMID:33563315
Impact of Processed Food (Canteen and Oil Wastes) on the Development of Black Soldier Fly (Hermetia illucens) Larvae and Their Gut Microbiome Functions. PMID:33552039
Antibiotic-associated dysbiosis affects the ability of the gut microbiota to control intestinal inflammation upon fecal microbiota transplantation in experimental colitis models. PMID:33549144
Hierarchical non-negative matrix factorization using clinical information for microbial communities. PMID:33541264
Adherent-invasive E. coli metabolism of propanediol in Crohn's disease regulates phagocytes to drive intestinal inflammation. PMID:33539767
Metagenomic analysis of the gut microbiome composition associated with vitamin D supplementation in Taiwanese infants. PMID:33536562
What Is Known about Theragnostic Strategies in Colorectal Cancer. PMID:33535557
Bacterial associations in the healthy human gut microbiome across populations. PMID:33531651
metaXplor: an interactive viral and microbial metagenomic data manager. PMID:33527143
Kin selection explains the evolution of cooperation in the gut microbiota. PMID:33526674
Crossing Kingdoms: How the Mycobiota and Fungal-Bacterial Interactions Impact Host Health and Disease. PMID:33526565
The rectal mucosal but not fecal microbiota detects subclinical ulcerative colitis. PMID:33525983
The Protective Role of Butyrate against Obesity and Obesity-Related Diseases. PMID:33525625
Environmental Microbial Contamination during Cystic Fibrosis Group-Based Psychotherapy. PMID:33525434
Harnessing machine learning for development of microbiome therapeutics. PMID:33522391
Lipopolysaccharide from Gut-Associated Lymphoid-Tissue-Resident Alcaligenes faecalis: Complete Structure Determination and Chemical Synthesis of Its Lipid A. PMID:33522128
Not All Fibers Are Born Equal; Variable Response to Dietary Fiber Subtypes in IBD. PMID:33520902
A novel microbiome metabolic modulator improves the growth performance of broiler chickens in multiple trials and modulates targeted energy and amino acid metabolic pathways in the cecal metagenome. PMID:33518302
Toothbrush microbiomes feature a meeting ground for human oral and environmental microbiota. PMID:33517907
Influence of immunomodulatory drugs on the gut microbiota. PMID:33515779
Ethnicity influences the gut microbiota of individuals sharing a geographical location: a cross-sectional study from a middle-income country. PMID:33514807
Fecal microbiota diversity disruption and clinical outcomes after auto-HCT: a multicenter observational study. PMID:33512409
Bacterial communities of the upper respiratory tract of turkeys. PMID:33510238
Implication of Human Bacterial Gut Microbiota on Immune-Mediated and Autoimmune Dermatological Diseases and Their Comorbidities: A Narrative Review. PMID:33507493
Gut Microbiota-Derived Metabolites in the Development of Diseases. PMID:33505541
The Urinary Tract Microbiome in Male Genitourinary Diseases: Focusing on Benign Prostate Hyperplasia and Lower Urinary Tract Symptoms. PMID:33504133
Gut feelings about bacterial steroid-17,20-desmolase. PMID:33503463
Pneumococcal Colonization and Virulence Factors Identified Via Experimental Evolution in Infection Models. PMID:33502519
The lung-gut axis during viral respiratory infections: the impact of gut dysbiosis on secondary disease outcomes. PMID:33500564
The microbiome of captive hamadryas baboons. PMID:33499948
Dysbiosis of gut microbiota in Polish patients with ulcerative colitis: a pilot study. PMID:33495479
Nasal microbiome research in ANCA-associated vasculitis: Strengths, limitations, and future directions. PMID:33489010
The Protective Role of Probiotics against Colorectal Cancer. PMID:33488940
Analysis of the Salivary Microbiome in Obstructive Sleep Apnea Syndrome Patients. PMID:33488886
Bibliometric and Visual Analysis of Research on the Links Between the Gut Microbiota and Depression From 1999 to 2019. PMID:33488420
Seasonal shifts in the gut microbiome indicate plastic responses to diet in wild geladas. PMID:33485388
Potential beneficial role of probiotics on the outcome of COVID-19 patients: An evolving perspective. PMID:33484986
Impact of the repurposed drug thonzonium bromide on host oral-gut microbiomes. PMID:33483519
Gut Microbial Changes and their Contribution to Post-Burn Pathology. PMID:33481548
Metagenomic analysis of the cow, sheep, reindeer and red deer rumen. PMID:33479378
Microbiome Signatures in a Fast- and Slow-Progressing Gastric Cancer Murine Model and Their Contribution to Gastric Carcinogenesis. PMID:33477306
5-Aminosalicylic Acid Ameliorates Colitis and Checks Dysbiotic Escherichia coli Expansion by Activating PPAR-γ Signaling in the Intestinal Epithelium. PMID:33468700
Real-Time Culture-Independent Microbial Profiling Onboard the International Space Station Using Nanopore Sequencing. PMID:33467183
Current Evidence on the Role of the Gut Microbiome in ADHD Pathophysiology and Therapeutic Implications. PMID:33467150
Hallmarks of cancer-the new testament. PMID:33465324
Immunological design of commensal communities to treat intestinal infection and inflammation. PMID:33465156
Association of Chronic Opisthorchis Infestation and Microbiota Alteration on Tumorigenesis in Cholangiocarcinoma. PMID:33464733
Fecal microbiome and metabolome differ in healthy and food-allergic twins. PMID:33463536
HIV infection as a risk factor for vaginal dysbiosis, bacterial vaginosis, and candidosis in pregnancy: A matched case-control study. PMID:33462893
The effect of taxonomic classification by full-length 16S rRNA sequencing with a synthetic long-read technology. PMID:33462291
Oral microbiome in down syndrome and its implications on oral health. PMID:33456723
Review of probiotic use in otolaryngology. PMID:33453564
Next-Generation Sequencing for Determining the Effect of Arginine on Human Dental Biofilms Using an In Situ Model. PMID:33445627
Optimization of probiotic therapeutics using machine learning in an artificial human gastrointestinal tract. PMID:33441743
Gut microbiota: impacts on gastrointestinal cancer immunotherapy. PMID:33435800
Modelling the effect of birth and feeding modes on the development of human gut microbiota. PMID:33434469
Microbiome connections with host metabolism and habitual diet from 1,098 deeply phenotyped individuals. PMID:33432175
The Interaction Between Microorganisms, Metabolites, and Immune System in the Female Genital Tract Microenvironment. PMID:33425785
Does the Microbiome Affect the Outcome of Renal Transplantation? PMID:33425774
Exploring the impact of intestinal ion transport on the gut microbiota. PMID:33425246
The gut microbiota and nervous system: Age-defined and age-defying. PMID:33422403
Impacts of sleep on the characteristics of dental biofilm. PMID:33420225
Application of Ligilactobacillus salivarius CECT5713 to Achieve Term Pregnancies in Women with Repetitive Abortion or Infertility of Unknown Origin by Microbiological and Immunological Modulation of the Vaginal Ecosystem. PMID:33419054
Alteration of the fecal microbiota in Chinese patients with Schistosoma japonicum infection. PMID:33416489
The Effects of a Ketogenic Medium-Chain Triglyceride Diet on the Feces in Dogs With Idiopathic Epilepsy. PMID:33415132
CD36 deficiency affects depressive-like behaviors possibly by modifying gut microbiota and the inflammasome pathway in mice. PMID:33414380
The role of microbiota in allogeneic hematopoietic stem cell transplantation. PMID:33412949
Microbial Species that Initially Colonize the Human Gut at Birth or in Early Childhood Can Stay in Human Body for Lifetime. PMID:33410935
Gut microbiome changes in Nonalcoholic fatty liver disease & alcoholic liver disease. PMID:33409398
Meta-Apo improves accuracy of 16S-amplicon-based prediction of microbiome function. PMID:33407112
MetGEMs Toolbox: Metagenome-scale models as integrative toolbox for uncovering metabolic functions and routes of human gut microbiome. PMID:33406089
Insights into SusCD-mediated glycan import by a prominent gut symbiont. PMID:33398001
Transkingdom interactions between Lactobacilli and hepatic mitochondria attenuate western diet-induced diabetes. PMID:33397942
Mechanisms of microbial-neuronal interactions in pain and nociception. PMID:33392418
Praegnatio Perturbatio-Impact of Endocrine-Disrupting Chemicals. PMID:33388776
A Pilot Study of the Effect of Deployment on the Gut Microbiome and Traveler's Diarrhea Susceptibility. PMID:33384968
Long-Term Consumption of Anthocyanin-Rich Fruit Juice: Impact on Gut Microbiota and Antioxidant Markers in Lymphocytes of Healthy Males. PMID:33383921
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
Maternal consumption of artificially sweetened beverages during pregnancy is associated with infant gut microbiota and metabolic modifications and increased infant body mass index. PMID:33382954
The Impact of Diet on the Involvement of Non-Coding RNAs, Extracellular Vesicles, and Gut Microbiome-Virome in Colorectal Cancer Initiation and Progression. PMID:33381452
The Skin Interactome: A Holistic "Genome-Microbiome-Exposome" Approach to Understand and Modulate Skin Health and Aging. PMID:33380819
A cross-species interaction with a symbiotic commensal enables cell-density-dependent growth and in vivo virulence of an oral pathogen. PMID:33372193
Acquisition, Divergence, and Personalization of the Female Perineal Microbiomes Are Driven by Developmental Milestones and Disrupted by Urinary Tract Infection: A Pilot Study. PMID:33364220
Salmonella versus the Microbiome. PMID:33361269
Considerations for designing preclinical cancer immune nanomedicine studies. PMID:33349682
Altered Gut Microbiome under Antiretroviral Therapy: Impact of Efavirenz and Zidovudine. PMID:33346662
Regulating Gut Microbiome: Therapeutic Strategy for Rheumatoid Arthritis During Pregnancy and Lactation. PMID:33343364
Comparison of thrombus, gut, and oral microbiomes in Korean patients with ST-elevation myocardial infarction: a case-control study. PMID:33339953
Cascabel: A Scalable and Versatile Amplicon Sequence Data Analysis Pipeline Delivering Reproducible and Documented Results. PMID:33329686
Maternal diet alters human milk oligosaccharide composition with implications for the milk metagenome. PMID:33328537
Functional and genetic markers of niche partitioning among enigmatic members of the human oral microbiome. PMID:33323122
The impact of fixed orthodontic appliances on oral microbiome dynamics in Japanese patients. PMID:33319834
Gut microbiome, liver immunology, and liver diseases. PMID:33318628
Fructan-sensitive children with irritable bowel syndrome have distinct gut microbiome signatures. PMID:33314183
Bacterial O-GlcNAcase genes abundance decreases in ulcerative colitis patients and its administration ameliorates colitis in mice. PMID:33310751
HMPDACC: a Human Microbiome Project Multi-omic data resource. PMID:33305317
Microbiota Transplant in the Treatment of Obesity and Diabetes: Current and Future Perspectives. PMID:33304339
Vaginal Microbiota Diversity of Patients with Embryonic Miscarriage by Using 16S rDNA High-Throughput Sequencing. PMID:33299847
Introduction to host microbiome symbiosis in health and disease. PMID:33299088
The Gut Microbiome, Aging, and Longevity: A Systematic Review. PMID:33297486
Unexpected guests in the tumor microenvironment: microbiome in cancer. PMID:33296049
The Specific Carbohydrate Diet and Diet Modification as Induction Therapy for Pediatric Crohn's Disease: A Randomized Diet Controlled Trial. PMID:33291229
MINERVA: A Facile Strategy for SARS-CoV-2 Whole-Genome Deep Sequencing of Clinical Samples. PMID:33290743
Differences in Gut Microbiome in Hospitalized Immunocompetent vs. Immunocompromised Children, Including Those With Sickle Cell Disease. PMID:33282798
Dysbiotic Lesional Microbiome With Filaggrin Missense Variants Associate With Atopic Dermatitis in India. PMID:33282748
Deciphering functional redundancy in the human microbiome. PMID:33277504
Glioma and temozolomide induced alterations in gut microbiome. PMID:33273497
Tissue-associated microbial detection in cancer using human sequencing data. PMID:33272199
Highly multiplexed spatial mapping of microbial communities. PMID:33268897
Update of Probiotics in Human World: A Nonstop Source of Benefactions till the End of Time. PMID:33266303
NetCoMi: network construction and comparison for microbiome data in R. PMID:33264391
A shotgun metagenomic investigation of the microbiota of udder cleft dermatitis in comparison to healthy skin in dairy cows. PMID:33264351
The Lung Microbiome of Three Young Brazilian Patients With Cystic Fibrosis Colonized by Fungi. PMID:33262957
Did the Brain and Oral Microbiota Talk to Each Other? A Review of the Literature. PMID:33260581
Microbiota and Obesity: Where Are We Now? PMID:33255588
State-of-the-Art of the Nutritional Alternatives to the Use of Antibiotics in Humans and Monogastric Animals. PMID:33255356
Inflammatory Bowel Diseases (IBD) and the Microbiome-Searching the Crime Scene for Clues. PMID:33253681
Selective Bacterial Colonization of the Murine Larynx in a Gnotobiotic Model. PMID:33250883
Quantitative interactions between Candida albicans and the mutans streptococci in patients with Down Syndrome. PMID:33247579
Survival of the weakest in non-transitive asymmetric interactions among strains of E. coli. PMID:33247128
In vivo Microbiome Profiling of the Luminal and Mucosal Surface of the Duodenum Using a Cannulated Yearling Bovine Model. PMID:33240966
A Pilot Study: Changes of Intestinal Microbiota of Patients With Non-small Cell Lung Cancer in Response to Osimertinib Therapy. PMID:33240237
Microbiome of the Aerodigestive Tract in Health and Esophageal Disease. PMID:33236315
The impact of the Fungus-Host-Microbiota interplay upon Candida albicans infections: current knowledge and new perspectives. PMID:33232448
Nutrition, immunity and COVID-19. PMID:33230497
VALENCIA: a nearest centroid classification method for vaginal microbial communities based on composition. PMID:33228810
Integrated analysis of microbiome and host transcriptome reveals correlations between gut microbiota and clinical outcomes in HBV-related hepatocellular carcinoma. PMID:33225985
Ecology and evolution of antimicrobial resistance in bacterial communities. PMID:33219299
Commensal Microbiota Modulation of Natural Resistance to Virus Infection. PMID:33212011
Plasma proteomic biomarker signature of age predicts health and life span. PMID:33210602
A Cutibacterium acnes antibiotic modulates human skin microbiota composition in hair follicles. PMID:33208503
From Welfare to Warfare: The Arbitration of Host-Microbiota Interplay by the Type VI Secretion System. PMID:33194832
Comparison of the Genital Microbiomes of Pregnant Aboriginal and Non-aboriginal Women. PMID:33194782
Gut microbiota in hospitalized children with acute infective gastroenteritis caused by virus or bacteria in a regional Peruvian hospital. PMID:33194370
Regulation of Gut Microbiota on Immune Reconstitution in Patients With Acquired Immunodeficiency Syndrome. PMID:33193273
Catabolic Machinery of the Human Gut Microbes Bestow Resilience Against Vanillin Antimicrobial Nature. PMID:33193247
Clinical Features and Gut Microbial Alterations in Anti-leucine-rich Glioma-Inactivated 1 Encephalitis-A Pilot Study. PMID:33193049
Towards the Identification of Antibiotic-Resistant Bacteria Causing Urinary Tract Infections Using Volatile Organic Compounds Analysis-A Pilot Study. PMID:33187091
Microbiome: an emerging new frontier in graft‑versus‑host disease. PMID:33185704
Oral probiotics to reduce vaginal group B streptococcal colonization in late pregnancy. PMID:33184437
Disruption of Streptococcus mutans and Candida albicans synergy by a commensal streptococcus. PMID:33184348
Preterm Infants Harbour a Rapidly Changing Mycobiota That Includes Candida Pathobionts. PMID:33182444
Navigating the Human Gut Microbiome: Pathway to Success from Lessons Learned. PMID:33181127
A comprehensive investigation of metagenome assembly by linked-read sequencing. PMID:33176883
Microbiome diversity predicts surgical success in patients with rectovaginal fistula. PMID:33175227
Gut microbiome stability and dynamics in healthy donors and patients with non-gastrointestinal cancers. PMID:33175106
Gut bioengineering strategies for regenerative medicine. PMID:33174453
Staphylococcus epidermidis and Cutibacterium acnes: Two Major Sentinels of Skin Microbiota and the Influence of Cosmetics. PMID:33171837
Sustainable Microbiome: a symphony orchestrated by synthetic phages. PMID:33171009
The effect of bile acids on the growth and global gene expression profiles in Akkermansia muciniphila. PMID:33159542
The Cervicovaginal Mucus Barrier. PMID:33158227
Impact of the Post-Transplant Period and Lifestyle Diseases on Human Gut Microbiota in Kidney Graft Recipients. PMID:33158078
Alterations in Oral-Nasal-Pharyngeal Microbiota and Salivary Proteins in Mouth-Breathing Children. PMID:33154739
Indoor Microbial Exposures and Chronic Lung Disease: From Microbial Toxins to the Microbiome. PMID:33153695
Host variables confound gut microbiota studies of human disease. PMID:33149306
The persistence potential of transferable plasmids. PMID:33149119
Evidence supporting the microbiota-gut-brain axis in a songbird. PMID:33142087
A comprehensive human minimal gut metagenome extends the host's metabolic potential. PMID:33141656
Multicenter assessment of microbial community profiling using 16S rRNA gene sequencing and shotgun metagenomic sequencing. PMID:33133687
A behavioral model for mapping the genetic architecture of gut-microbiota networks. PMID:33131416
Strong oral plaque microbiome signatures for dental implant diseases identified by strain-resolution metagenomics. PMID:33127901
Sample adequacy controls for infectious disease diagnosis by oral swabbing. PMID:33125422
Comprehensive screening of genomic and metagenomic data reveals a large diversity of tetracycline resistance genes. PMID:33125315
Parallel and non-parallel changes of the gut microbiota during trophic diversification in repeated young adaptive radiations of sympatric cichlid fish. PMID:33121541
Effects of Low and High FODMAP Diets on Human Gastrointestinal Microbiota Composition in Adults with Intestinal Diseases: A Systematic Review. PMID:33114017
Multiple plasmid origin-of-transfer regions might aid the spread of antimicrobial resistance to human pathogens. PMID:33111499
Prevalences and characteristics of cultivable nasal bacteria isolated from preclinical medical students. PMID:33103543
Cervical-Vaginal Microbiome and Associated Cytokine Profiles in a Prospective Study of HPV 16 Acquisition, Persistence, and Clearance. PMID:33102255
A quasi-paired cohort strategy reveals the impaired detoxifying function of microbes in the gut of autistic children. PMID:33087359
MetaLAFFA: a flexible, end-to-end, distributed computing-compatible metagenomic functional annotation pipeline. PMID:33087062
HLA-A alleles including HLA-A29 affect the composition of the gut microbiome: a potential clue to the pathogenesis of birdshot retinochoroidopathy. PMID:33077849
Friend or Foe: Interbacterial Competition in the Nasal Cavity. PMID:33077632
Intestinal microbiology shapes population health impacts of diet and lifestyle risk exposures in Torres Strait Islander communities. PMID:33074097
A Novel Insight at Atherogenesis: The Role of Microbiome. PMID:33072766
The Core and Distinction of the Gut Microbiota in Chinese Populations across Geography and Ethnicity. PMID:33066420
How Periodontal Disease and Presence of Nitric Oxide Reducing Oral Bacteria Can Affect Blood Pressure. PMID:33066082
Emerging role of bacterial extracellular vesicles in cancer. PMID:33060855
Prebiotic effects of yeast mannan, which selectively promotes Bacteroides thetaiotaomicron and Bacteroides ovatus in a human colonic microbiota model. PMID:33060635
In silico benchmarking of metagenomic tools for coding sequence detection reveals the limits of sensitivity and precision. PMID:33059593
Biodiversity intervention enhances immune regulation and health-associated commensal microbiota among daycare children. PMID:33055153
Dysbiosis of gut microbiota in inflammatory bowel disease: Current therapies and potential for microbiota-modulating therapeutic approaches. PMID:33052081
Targeting gut microbiota for precision medicine: Focusing on the efficacy and toxicity of drugs. PMID:33042283
Comparative Analysis of Soil Microbiome Profiles in the Companion Planting of White Clover and Orchard Grass Using 16S rRNA Gene Sequencing Data. PMID:33042174
Reproducibility of Bioelectrical Impedance Analysis in Pregnancy and the Association of Body Composition with the Risk of Gestational Diabetes: A Substudy of MUMS Cohort. PMID:33029392
The Human Respiratory System and its Microbiome at a Glimpse. PMID:33019595
The Cutaneous Physiological Redox: Essential to Maintain but Difficult to Define. PMID:33019510
Delivery mode-associated gut microbiota in the first 3 months of life in a country with high obesity rates: A descriptive study. PMID:33019428
Shining Light on Human Gut Bacteriophages. PMID:33014897
Increasing Evidence That Irritable Bowel Syndrome and Functional Gastrointestinal Disorders Have a Microbial Pathogenesis. PMID:33014892
Differential Gut Microbiota and Fecal Metabolites Related With the Clinical Subtypes of Myasthenia Gravis. PMID:33013794
Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus. PMID:33012227
Investigating the demographic history of Japan using ancient oral microbiota. PMID:33012223
Unravelling lactate-acetate and sugar conversion into butyrate by intestinal Anaerobutyricum and Anaerostipes species by comparative proteogenomics. PMID:33001550
Gastrointestinal Microbiome - What We Need to Know in Clinical Practice. PMID:32999906
Assessing the Variation within the Oral Microbiome of Healthy Adults. PMID:32999079
The new microbiology: cultivating the future of microbiome-directed medicine. PMID:32996782
Dental black plaque: metagenomic characterization and comparative analysis with white-plaque. PMID:32994464
A Distinct Microbiome Signature in Posttreatment Lyme Disease Patients. PMID:32994327
Salivary microbiome in patients undergoing hemodialysis and its associations with the duration of the dialysis. PMID:32993533
Diet Quality, Food Groups and Nutrients Associated with the Gut Microbiota in a Nonwestern Population. PMID:32992776
Translocation of Viable Gut Microbiota to Mesenteric Adipose Drives Formation of Creeping Fat in Humans. PMID:32991841
A Pan-Genome Guided Metabolic Network Reconstruction of Five Propionibacterium Species Reveals Extensive Metabolic Diversity. PMID:32977700
Effects of Psychotropics on the Microbiome in Patients With Depression and Anxiety: Considerations in a Naturalistic Clinical Setting. PMID:32975292
Microbiome-Aware Ecotoxicology of Organisms: Relevance, Pitfalls, and Challenges. PMID:32974256
A link between appendectomy and gastrointestinal cancers: a large-scale population-based cohort study in Korea. PMID:32973258
Structural basis of mammalian mucin processing by the human gut O-glycopeptidase OgpA from Akkermansia muciniphila. PMID:32973204
Implications of gut microbiome on coronary artery disease. PMID:32968642
RBX7455, a Non-frozen, Orally Administered Investigational Live Biotherapeutic, Is Safe, Effective, and Shifts Patients' Microbiomes in a Phase 1 Study for Recurrent Clostridioides difficile Infections. PMID:32966574
Highly efficient gene transfer in the mouse gut microbiota is enabled by the Incl2 conjugative plasmid TP114. PMID:32963323
The Pancreatic Microbiome is Associated with Carcinogenesis and Worse Prognosis in Males and Smokers. PMID:32962112
Circulating microbial small RNAs are altered in patients with rheumatoid arthritis. PMID:32958509
Antibiotic-induced changes in the human gut microbiota for the most commonly prescribed antibiotics in primary care in the UK: a systematic review. PMID:32958481
Nutriome-metabolome relationships provide insights into dietary intake and metabolism. PMID:32954362
Microbiota dysbiosis in lung cancer: evidence of association and potential mechanisms. PMID:32953527
Gut microbiota steroid sexual dimorphism and its impact on gonadal steroids: influences of obesity and menopausal status. PMID:32951609
Reconsidering ventilator-associated pneumonia from a new dimension of the lung microbiome. PMID:32950001
Strategies to Reduce Biofilm Formation in PEEK Materials Applied to Implant Dentistry-A Comprehensive Review. PMID:32948018
In Vitro Characterization of Gut Microbiota-Derived Commensal Strains: Selection of Parabacteroides distasonis Strains Alleviating TNBS-Induced Colitis in Mice. PMID:32947881
Harnessing the strategy of metagenomics for exploring the intestinal microecology of sable (Martes zibellina), the national first-level protected animal. PMID:32945998
Microbiome analysis of contact lens care solutions and tear fluids of contact lens wearers: Possible involvement of streptococcal antigens in allergic symptoms related to contact lens wear. PMID:32945368
Host phylogeny and life history stage shape the gut microbiome in dwarf (Kogia sima) and pygmy (Kogia breviceps) sperm whales. PMID:32938948
The Social Distancing Imposed To Contain COVID-19 Can Affect Our Microbiome: a Double-Edged Sword in Human Health. PMID:32938697
A predictive index for health status using species-level gut microbiome profiling. PMID:32934239
Modulating the gut-liver axis and the pivotal role of the faecal microbiome in cirrhosis. PMID:32934044
Microbiome Understanding in Maternity Study (MUMS), an Australian prospective longitudinal cohort study of maternal and infant microbiota: study protocol. PMID:32933964
Regulating Oral Biofilm from Cariogenic State to Non-Cariogenic State via Novel Combination of Bioactive Therapeutic Composite and Gene-Knockout. PMID:32933157
The Microbiome in Health and Disease from the Perspective of Modern Medicine and Ayurveda. PMID:32932766
The gut microbiota may be a novel pathogenic mechanism in loosening of orthopedic implants in rats. PMID:32931052
Exercise immunology: Future directions. PMID:32928447
A case study of salivary microbiome in smokers and non-smokers in Hungary: analysis by shotgun metagenome sequencing. PMID:32922678
Circadian Host-Microbiome Interactions in Immunity. PMID:32922391
It's all in the milk: chondroitin sulfate as potential preventative therapy for necrotizing enterocolitis. PMID:32920604
Fecal microbiota transplantation alters the susceptibility of obese rats to type 2 diabetes mellitus. PMID:32920548
Antibiotics create a shift from mutualism to competition in human gut communities with a longer-lasting impact on fungi than bacteria. PMID:32919472
Systematic analysis of gut microbiota in pregnant women and its correlations with individual heterogeneity. PMID:32917878
Multi-omics analysis reveals the influence of genetic and environmental risk factors on developing gut microbiota in infants at risk of celiac disease. PMID:32917289
Identification of multidimensional Boolean patterns in microbial communities. PMID:32917276
Type 2 Diabetes Mellitus Associated with Obesity (Diabesity). The Central Role of Gut Microbiota and Its Translational Applications. PMID:32917030
Bacterial signaling as an antimicrobial target. PMID:32916624
Metalign: efficient alignment-based metagenomic profiling via containment min hash. PMID:32912225
Skin Microbiome and its Interplay with the Environment. PMID:32910439
Skin Microbiome as Years Go By. PMID:32910437
Phages and their potential to modulate the microbiome and immunity. PMID:32901128
Impact of Diabetes on the Gut and Salivary IgA Microbiomes. PMID:32900816
Influence of Intratumor Microbiome on Clinical Outcome and Immune Processes in Prostate Cancer. PMID:32899474
Diet and Nutrients in Gastrointestinal Chronic Diseases. PMID:32899273
Oral microbiome and onset of oral mucositis in patients with squamous cell carcinoma of the head and neck. PMID:32888342
Artificially selecting bacterial communities using propagule strategies. PMID:32888315
Sex Differences in Intestinal Microbial Composition and Function of Hainan Special Wild Boar. PMID:32887230
The Nubeam reference-free approach to analyze metagenomic sequencing reads. PMID:32883749
The Microbiome as a Therapeutic Target for Multiple Sclerosis: Can Genetically Engineered Probiotics Treat the Disease? PMID:32872621
Challenges in Human Skin Microbial Profiling for Forensic Science: A Review. PMID:32872386
Evaluation of computational methods for human microbiome analysis using simulated data. PMID:32864214
Impact of investigational microbiota therapeutic RBX2660 on the gut microbiome and resistome revealed by a placebo-controlled clinical trial. PMID:32862830
Ultrafast and accurate 16S rRNA microbial community analysis using Kraken 2. PMID:32859275
2000-year-old pathogen genomes reconstructed from metagenomic analysis of Egyptian mummified individuals. PMID:32859198
The Penile Microbiota in Uncircumcised and Circumcised Men: Relationships With HIV and Human Papillomavirus Infections and Cervicovaginal Microbiota. PMID:32850898
Who Is Metabolizing What? Discovering Novel Biomolecules in the Microbiome and the Organisms Who Make Them. PMID:32850487
Alterations in the Gut Microbiome and Cecal Metabolome During Klebsiella pneumoniae-Induced Pneumosepsis. PMID:32849494
NSAID-Gut Microbiota Interactions. PMID:32848762
Current concepts and an alternative perspective on periodontal disease. PMID:32847557
Metabolic cross-feeding in imbalanced diets allows gut microbes to improve reproduction and alter host behaviour. PMID:32843654
The Gut Virome Database Reveals Age-Dependent Patterns of Virome Diversity in the Human Gut. PMID:32841606
Emerging priorities for microbial metagenome research. PMID:32835181
Predictive analysis methods for human microbiome data with application to Parkinson's disease. PMID:32834004
The microbiome: an emerging key player in aging and longevity. PMID:32832742
Half-Elemental Diet Shifts the Human Intestinal Bacterial Compositions and Metabolites: A Pilot Study with Healthy Individuals. PMID:32831827
Gut-Pancreas-Liver Axis as a Target for Treatment of NAFLD/NASH. PMID:32823659
Adsorption Sequencing as a Rapid Method to Link Environmental Bacteriophages to Hosts. PMID:32823052
Role of probiotics to combat viral infections with emphasis on COVID-19. PMID:32813065
Exercise combined with a probiotics treatment alters the microbiome, but moderately affects signalling pathways in the liver of male APP/PS1 transgenic mice. PMID:32812166
Association of Bacteroides acidifaciens relative abundance with high-fibre diet-associated radiosensitisation. PMID:32811478
A specific combination of dual index adaptors decreases the sensitivity of amplicon sequencing with the Illumina platform. PMID:32810209
Is oral microbiome of children able to maintain resistance and functional stability in response to short-term interference of ingesta? PMID:32808158
Comprehensive Fungal Community Analysis of House Dust Using Next-Generation Sequencing. PMID:32806670
Microbiota-Derived Metabolites in Tumor Progression and Metastasis. PMID:32806665
Learning machine approach reveals microbial signatures of diet and sex in dog. PMID:32804973
Human-Derived Bifidobacterium dentium Modulates the Mammalian Serotonergic System and Gut-Brain Axis. PMID:32795610
"Microbiota, symbiosis and individuality summer school" meeting report. PMID:32795355
Effect of Resource Dynamics on Species Packing in Diverse Ecosystems. PMID:32794828
Diversity of Vaginal Microbiome in Pregnancy: Deciphering the Obscurity. PMID:32793540
The Butyrogenic and Lactic Bacteria of the Gut Microbiota Determine the Outcome of Allogenic Hematopoietic Cell Transplant. PMID:32793150
Strain-level epidemiology of microbial communities and the human microbiome. PMID:32791981
The Skin Microbiota: Balancing Risk and Reward. PMID:32791112
Importance of microbial extracellular vesicle in the pathogenesis of asthma and chronic obstructive pulmonary disease and its diagnostic potential. PMID:32789110
Influence of 16S rRNA target region on the outcome of microbiome studies in soil and saliva samples. PMID:32788589
Fusobacterium nucleatum produces cancer stem cell characteristics via EMT-resembling variations. PMID:32782710
The Role of Gastric Mucosal Immunity in Gastric Diseases. PMID:32775468
The Relationship between Prevention and Treatment of Colorectal Cancer and Cancerous Toxin Pathogenesis Theory Basing on Gut Microbiota. PMID:32774427
Microbial control of host gene regulation and the evolution of host-microbiome interactions in primates. PMID:32772669
Evolution of animal immunity in the light of beneficial symbioses. PMID:32772666
Randomised clinical study: oral aspirin 325 mg daily vs placebo alters gut microbial composition and bacterial taxa associated with colorectal cancer risk. PMID:32770859
STROBE-metagenomics: a STROBE extension statement to guide the reporting of metagenomics studies. PMID:32768390
DRAM for distilling microbial metabolism to automate the curation of microbiome function. PMID:32766782
Inflammatory Bowel Disease-Associated Changes in the Gut: Focus on Kazan Patients. PMID:32766755
A Phase 1b Safety Study of SER-287, a Spore-Based Microbiome Therapeutic, for Active Mild to Moderate Ulcerative Colitis. PMID:32763240
Snow microbiome functional analyses reveal novel aspects of microbial metabolism of complex organic compounds. PMID:32762019
Genoprotective Properties and Metabolites of β-Glucan-Rich Edible Mushrooms Following Their In Vitro Fermentation by Human Faecal Microbiota. PMID:32759726
Home, sweet home: how mucus accommodates our microbiota. PMID:32755014
The human gut archaeome: identification of diverse haloarchaea in Korean subjects. PMID:32753050
A possible beneficial effect of Bacteroides on faecal lipopolysaccharide activity and cardiovascular diseases. PMID:32747669
Assessment of statistical methods from single cell, bulk RNA-seq, and metagenomics applied to microbiome data. PMID:32746888
Microbial communities can predict the ecological condition of headwater streams. PMID:32745120
The meconium microbiota shares more features with the amniotic fluid microbiota than the maternal fecal and vaginal microbiota. PMID:32744162
Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz. PMID:32742640
Extracellular Vesicles Produced by Bifidobacterium longum Export Mucin-Binding Proteins. PMID:32737132
Interspecies Interactions Between Streptococcus Mutans and Streptococcus Agalactiae in vitro. PMID:32733820
Gut Microbiota Profiling in Patients With HER2-Negative Metastatic Breast Cancer Receiving Metronomic Chemotherapy of Capecitabine Compared to Those Under Conventional Dosage. PMID:32733788
Investigating the Mechanistic Differences of Obesity-Inducing Lactobacillus kefiranofaciens M1 and Anti-obesity Lactobacillus mali APS1 by Microbolomics and Metabolomics. PMID:32733406
Decades-old studies of fungi associated with mammalian lungs and modern DNA sequencing approaches help define the nature of the lung mycobiome. PMID:32730326
Metagenomic analysis of gut microbiota in non-treated plaque psoriasis patients stratified by disease severity: development of a new Psoriasis-Microbiome Index. PMID:32728075
A Distinct Contractile Injection System Gene Cluster Found in a Majority of Healthy Adult Human Microbiomes. PMID:32723799
Sexual dimorphism of gut microbiota at different pubertal status. PMID:32723385
Metabolic Profiling of Blood and Urine for Exploring the Functional Role of the Microbiota in Human Health. PMID:32723087
Adverse Impact of Desulfovibrio spp. and Beneficial Role of Anaerostipes spp. on Renal Function: Insights from a Mendelian Randomization Analysis. PMID:32722370
Diet with a High Proportion of Rice Alters Profiles and Potential Function of Digesta-Associated Microbiota in the Ileum of Goats. PMID:32722283
Diversity of Gut Microbiota and Bifidobacterial Community of Chinese Subjects of Different Ages and from Different Regions. PMID:32722057
Probiotics and Probiotic-Derived Functional Factors-Mechanistic Insights Into Applications for Intestinal Homeostasis. PMID:32719681
Changes in the vaginal microbiota across a gradient of urbanization. PMID:32719372
Oral Primo-Colonizing Bacteria Modulate Inflammation and Gene Expression in Bronchial Epithelial Cells. PMID:32707845
Menstruation: science and society. PMID:32707266
The microbiome in pancreatic diseases: Recent advances and future perspectives. PMID:32703080
Differences in the gut Firmicutes to Bacteroidetes ratio across age groups in healthy Ukrainian population. PMID:32698765
Epigenetic landscape links upper airway microbiota in infancy with allergic rhinitis at 6 years of age. PMID:32693091
The Oral and Gut Bacterial Microbiomes: Similarities, Differences, and Connections. PMID:32691605
A unified catalog of 204,938 reference genomes from the human gut microbiome. PMID:32690973
Examining the relationship between maternal body size, gestational glucose tolerance status, mode of delivery and ethnicity on human milk microbiota at three months post-partum. PMID:32689933
Microbiota reprogramming for treatment of alcohol-related liver disease. PMID:32687975
Rationale, design and baseline characteristics of the Microbiome and Insulin Longitudinal Evaluation Study (MILES). PMID:32687239
Pre-Gestational intake of Lactobacillus helveticus NS8 has anxiolytic effects in adolescent Sprague Dawley offspring. PMID:32681606
Antibacterial Activity of Bacteriocinogenic Commensal Escherichia coli against Zoonotic Strains Resistant and Sensitive to Antibiotics. PMID:32679778
High-Fat Diet and Antibiotics Cooperatively Impair Mitochondrial Bioenergetics to Trigger Dysbiosis that Exacerbates Pre-inflammatory Bowel Disease. PMID:32668218
The microbiome in urological diseases. PMID:32665990
Influence of microbiota on immunity and immunotherapy for gastric and esophageal cancers. PMID:32665852
Bacillus subtilis HU58 and Bacillus coagulans SC208 Probiotics Reduced the Effects of Antibiotic-Induced Gut Microbiome Dysbiosis in An M-SHIME® Model. PMID:32664604
Revisiting the Bacterial Phylum Composition in Metabolic Diseases Focused on Host Energy Metabolism. PMID:32662252
Muc2 Mucin and Nonmucin Microbiota Confer Distinct Innate Host Defense in Disease Susceptibility and Colonic Injury. PMID:32659381
MetaBCC-LR: metagenomics binning by coverage and composition for long reads. PMID:32657364
Role of the gut microbiota in the pathogenesis of coeliac disease and potential therapeutic implications. PMID:32651763
Strain Background, Species Frequency, and Environmental Conditions Are Important in Determining Pseudomonas aeruginosa and Staphylococcus aureus Population Dynamics and Species Coexistence. PMID:32651205
The duodenal microbiome is altered in small intestinal bacterial overgrowth. PMID:32645011
A metagenomics-based diagnostic approach for central nervous system infections in hospital acute care setting. PMID:32641704
Characterizing the postmortem human bone microbiome from surface-decomposed remains. PMID:32639969
Challenges and emerging systems biology approaches to discover how the human gut microbiome impact host physiology. PMID:32638331
A Humanized Diet Profile May Facilitate Colonization and Immune Stimulation in Human Microbiota-Colonized Mice. PMID:32636823
Postbiotic-Enabled Targeting of the Host-Microbiota-Pathogen Interface: Hints of Antibiotic Decline? PMID:32635461
Taxonomic classification method for metagenomics based on core protein families with Core-Kaiju. PMID:32633756
A network-based integrated framework for predicting virus-prokaryote interactions. PMID:32626849
Effects of copper on expression of methane monooxygenases, trichloroethylene degradation, and community structure in methanotrophic consortia. PMID:32624902
Does the Gut Microbiota Modulate Host Physiology through Polymicrobial Biofilms? PMID:32624527
An ecological framework to understand the efficacy of fecal microbiota transplantation. PMID:32620839
High-resolution temporal profiling of the human gut microbiome reveals consistent and cascading alterations in response to dietary glycans. PMID:32620143
The Gut-Eye Axis: Lessons Learned from Murine Models. PMID:32617914
The apical root canal system microbial communities determined by next-generation sequencing. PMID:32616783
Plant-Based Diets, the Gut Microbiota, and Trimethylamine N-Oxide Production in Chronic Kidney Disease: Therapeutic Potential and Methodological Considerations. PMID:32616440
Effect of Lactobacillus sakei, a Probiotic Derived from Kimchi, on Body Fat in Koreans with Obesity: A Randomized Controlled Study. PMID:32615727
Multimodal Approach to Assessment of Fecal Microbiota Donors based on Three Complementary Methods. PMID:32610522
Interindividual Variation in Dietary Carbohydrate Metabolism by Gut Bacteria Revealed with Droplet Microfluidic Culture. PMID:32606031
Glioma induced alterations in fecal short-chain fatty acids and neurotransmitters. PMID:32602743
Sequence and characterization of shuttle vectors for molecular cloning in Porphyromonas, Bacteroides and related bacteria. PMID:32592236
Most self-touches are with the nondominant hand. PMID:32591572
Developing standards for the microbiome field. PMID:32591016
Natural Holobiome Engineering by Using Native Extreme Microbiome to Counteract the Climate Change Effects. PMID:32582678
Comparison of Meconium Microbiome in Dizygotic and Monozygotic Twins Born by Caesarean Section (CS). PMID:32582089
Analysis of subgingival microbiome of periodontal disease and rheumatoid arthritis in Chinese: A case-control study. PMID:32565704
Microbiome as a Target for Cancer Therapy. PMID:32564632
Critical Network Structures and Medical Ecology Mechanisms Underlying Human Microbiome-Associated Diseases. PMID:32559728
The food-gut axis: lactic acid bacteria and their link to food, the gut microbiome and human health. PMID:32556166
Dissimilarity-Overlap analysis of replicate enrichment communities. PMID:32555503
Comparative study of gut microbiota in Tibetan wild asses (Equus kiang) and domestic donkeys (Equus asinus) on the Qinghai-Tibet plateau. PMID:32547852
Microbial and metabolomic analysis of gingival crevicular fluid in general chronic periodontitis patients: lessons for a predictive, preventive, and personalized medical approach. PMID:32547651
Antioxidant mechanism of tea polyphenols and its impact on health benefits. PMID:32542190
Revealing links between gut microbiome and its fungal community in Type 2 Diabetes Mellitus among Emirati subjects: A pilot study. PMID:32541680
Effect of fecal microbiota transplant on symptoms of psychiatric disorders: a systematic review. PMID:32539741
The microbiome in pediatric oncology. PMID:32533793
Effects of a high fat diet on gut microbiome dysbiosis in a mouse model of Gulf War Illness. PMID:32533086
Comparison of lung microbiota between antineutrophil cytoplasmic antibody-associated vasculitis and sarcoidosis. PMID:32528054
Elimination of "kitome" and "splashome" contamination results in lack of detection of a unique placental microbiome. PMID:32527226
Personalized Mapping of Drug Metabolism by the Human Gut Microbiome. PMID:32526207
Mechanistic Understanding of the Symbiotic Relationship Between the Gut Microbiota and the Host: An Avenue Toward Therapeutic Applications. PMID:32526162
Host glycan utilization within the Bacteroidetes Sus-like paradigm. PMID:32518945
Adverse effects of electronic cigarettes on the disease-naive oral microbiome. PMID:32518820
Gut microbiota remodeling reverses aging-associated inflammation and dysregulation of systemic bile acid homeostasis in mice sex-specifically. PMID:32515683
Human resident gut microbe Bacteroides thetaiotaomicron regulates colonic neuronal innervation and neurogenic function. PMID:32515657
Re-evaluating the relationship between missing heritability and the microbiome. PMID:32513310
Bacteroides thetaiotaomicron-derived outer membrane vesicles promote regulatory dendritic cell responses in health but not in inflammatory bowel disease. PMID:32513301
Alteration in gut microbiota is associated with dysregulation of cytokines and glucocorticoid therapy in systemic lupus erythematosus. PMID:32507008
Estimating the Optimum Coverage and Quality of Amplicon Sequencing With Taylor's Power Law Extensions. PMID:32500062
Gut Microbiota and Gestational Diabetes Mellitus: A Review of Host-Gut Microbiota Interactions and Their Therapeutic Potential. PMID:32500037
Feasibility of collection and analysis of microbiome data in a longitudinal randomized trial of community gardening. PMID:32495698
Engineering CRISPR/Cas9 to mitigate abundant host contamination for 16S rRNA gene-based amplicon sequencing. PMID:32493511
Repetitive, mild traumatic brain injury results in a progressive white matter pathology, cognitive deterioration, and a transient gut microbiota dysbiosis. PMID:32488168
The promise and challenge of cancer microbiome research. PMID:32487228
Impacts of foodborne inorganic nanoparticles on the gut microbiota-immune axis: potential consequences for host health. PMID:32487227
Biosynthesis, Mechanism of Action, and Inhibition of the Enterotoxin Tilimycin Produced by the Opportunistic Pathogen Klebsiella oxytoca. PMID:32485104
Gut microbial diversity, inflammation, and oxidative stress are associated with tacrolimus dosing requirements early after heart transplantation. PMID:32469966
Crohn's Disease Differentially Affects Region-Specific Composition and Aerotolerance Profiles of Mucosally Adherent Bacteria. PMID:32469069
The human tumor microbiome is composed of tumor type-specific intracellular bacteria. PMID:32467386
Influence of Exercise on the Human Gut Microbiota of Healthy Adults: A Systematic Review. PMID:32463624
Device-Associated Menstrual Toxic Shock Syndrome. PMID:32461307
The dichotomous role of the gut microbiome in exacerbating and ameliorating neurodegenerative disorders. PMID:32459513
Inflammatory Networks Linking Oral Microbiome with Systemic Health and Disease. PMID:32459164
Association of the Salivary Microbiome With Animal Contact During Early Life and Stress-Induced Immune Activation in Healthy Participants. PMID:32457661
Interactions of Symbiotic Partners Drive the Development of a Complex Biogeography in the Squid-Vibrio Symbiosis. PMID:32457244
Predicting community dynamics of antibiotic-sensitive and -resistant species in fluctuating environments. PMID:32453982
Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians. PMID:32450885
Adaptive matching between phyllosphere bacteria and their tree hosts in a neotropical forest. PMID:32438916
Assessing and Interpreting the Metagenome Heterogeneity With Power Law. PMID:32435232
Role of gut microbiota in cardiovascular diseases. PMID:32431782
Vaginal Microbiota and HPV Infection: Novel Mechanistic Insights and Therapeutic Strategies. PMID:32431522
Lactobacillus acidophilus Membrane Vesicles as a Vehicle of Bacteriocin Delivery. PMID:32425905
Advances in Oral Drug Delivery for Regional Targeting in the Gastrointestinal Tract - Influence of Physiological, Pathophysiological and Pharmaceutical Factors. PMID:32425781
Dynamics of the Stool Virome in Very Early-Onset Inflammatory Bowel Disease. PMID:32406906
Rotavirus infection induces glycan availability to promote ileum-specific changes in the microbiome aiding rotavirus virulence. PMID:32404017
The athletic gut microbiota. PMID:32398103
Omega-3 PUFA Responders and Non-Responders and the Prevention of Lipid Dysmetabolism and Related Diseases. PMID:32397619
Characteristics of the Gut Microbiome of Healthy Young Male Soldiers in South Korea: The Effects of Smoking. PMID:32390407
Microbiome profile associated with malignant pleural effusion. PMID:32384089
Understanding the microbiome: a primer on the role of the microbiome in colorectal neoplasia. PMID:32382225
Perturbations of the Gut Microbiome and Metabolome in Children with Calcium Oxalate Kidney Stone Disease. PMID:32381601
Microbiota and Human Reproduction: The Case of Female Infertility. PMID:32375241
Antibiotic resistomes discovered in the gut microbiomes of Korean swine and cattle. PMID:32369165
Fecal microbiota composition is linked to the postoperative disease course in patients with Crohn's disease. PMID:32366222
Decoding the language of microbiomes using word-embedding techniques, and applications in inflammatory bowel disease. PMID:32365061
The gut microbiome and frailty. PMID:32360945
Changes in Foot Skin Microbiome of Patients with Diabetes Mellitus Using High-Throughput 16S rRNA Gene Sequencing: A Case Control Study from a Single Center. PMID:32358479
Prebiotic Effects of Partially Hydrolyzed Guar Gum on the Composition and Function of the Human Microbiota-Results from the PAGODA Trial. PMID:32354152
Investigation of the human nasal microbiome in persons with long- and short-term exposure to methicillin-resistant Staphylococcus aureus and other bacteria from the pig farm environment. PMID:32353071
Predicting Microbe-Disease Association by Learning Graph Representations and Rule-Based Inference on the Heterogeneous Network. PMID:32351464
Oral microbiome: possible harbinger for children's health. PMID:32350240
Analysis of infant microbiota composition and the relationship with breast milk components in the Asian elephant (Elephas maximus) at the zoo. PMID:32350162
Advances in Understanding the Human Urinary Microbiome and Its Potential Role in Urinary Tract Infection. PMID:32345639
The microbial abundance dynamics of the paediatric oral cavity before and after sleep. PMID:32341758
Methods in microbiome research: Past, present, and future. PMID:32340923
CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content. PMID:32337106
A Soluble Fiber Diet Increases Bacteroides fragilis Group Abundance and Immunoglobulin A Production in the Gut. PMID:32332136
Relationship between intestinal flora structure and metabolite analysis and immunotherapy efficacy in Chinese NSCLC patients. PMID:32329229
Akkermansia and Microbial Degradation of Mucus in Cats and Dogs: Implications to the Growing Worldwide Epidemic of Pet Obesity. PMID:32326394
Multi-omic profiling reveals associations between the gut mucosal microbiome, the metabolome, and host DNA methylation associated gene expression in patients with colorectal cancer. PMID:32321427
Microbiome, bile acids, and obesity: How microbially modified metabolites shape anti-tumor immunity. PMID:32320071
Staphylococcus aureus nasal carriage and microbiome composition among medical students from Colombia: a cross-sectional study. PMID:32318265
The Computational Diet: A Review of Computational Methods Across Diet, Microbiome, and Health. PMID:32318028
Temporal Dynamics of the Adult Female Lower Urinary Tract Microbiota. PMID:32317321
Gut Microbiome and the Response to Immunotherapy in Cancer. PMID:32309602
Microbiome in Intestinal Lavage Fluid May Be A Better Indicator in Evaluating The Risk of Developing Colorectal Cancer Compared with Fecal Samples. PMID:32298987
Investigation of Adiposity Measures and Operational Taxonomic unit (OTU) Data Transformation Procedures in Stool Samples from a German Cohort Study Using Machine Learning Algorithms. PMID:32290101
Complex influences of gut microbiome metabolism on various drug responses. PMID:32274377
Gut Microbial Signatures Can Discriminate Unipolar from Bipolar Depression. PMID:32274300
Metagenomics analysis reveals features unique to Indian distal gut microbiota. PMID:32267865
DeepMicro: deep representation learning for disease prediction based on microbiome data. PMID:32265477
The Links Between the Gut Microbiome, Aging, Modern Lifestyle and Alzheimer's Disease. PMID:32257964
Interleukin-17A/F1 Deficiency Reduces Antimicrobial Gene Expression and Contributes to Microbiome Alterations in Intestines of Japanese medaka (Oryzias latipes). PMID:32256492
Clinical care is evolving: The microbiome for advanced practice nurses. PMID:32251211
Comparison of Methods To Collect Fecal Samples for Microbiome Studies Using Whole-Genome Shotgun Metagenomic Sequencing. PMID:32250964
Considerations for the design and conduct of human gut microbiota intervention studies relating to foods. PMID:32246263
Development of Swine's Digestive Tract Microbiota and Its Relation to Production Indices-A Review. PMID:32245217
Salivary Microbiota Shifts under Sustained Consumption of Oolong Tea in Healthy Adults. PMID:32244337
Mucins and the Microbiome. PMID:32243763
The gut microbiome but not the resistome is associated with urogenital schistosomiasis in preschool-aged children. PMID:32242065
Structure of the Mucosal and Stool Microbiome in Lynch Syndrome. PMID:32240601
Vertical Transmission of Gut Microbiome and Antimicrobial Resistance Genes in Infants Exposed to Antibiotics at Birth. PMID:32239170
Does Consumption of Fermented Foods Modify the Human Gut Microbiota? PMID:32232406
The Interplay Between Reproductive Tract Microbiota and Immunological System in Human Reproduction. PMID:32231664
Beyond Metabolism: The Complex Interplay Between Dietary Phytoestrogens, Gut Bacteria, and Cells of Nervous and Immune Systems. PMID:32231636
Effect of Berberine on Atherosclerosis and Gut Microbiota Modulation and Their Correlation in High-Fat Diet-Fed ApoE-/- Mice. PMID:32231564
Gut, oral and skin microbiome of Indian patrilineal families reveal perceptible association with age. PMID:32231240
Isolation of Anti-Inflammatory and Epithelium Reinforcing Bacteroides and Parabacteroides Spp. from A Healthy Fecal Donor. PMID:32230951
Current Concepts in Pharmacometabolomics, Biomarker Discovery, and Precision Medicine. PMID:32230776
Gut microbiota and therapeutic approaches for dysbiosis in irritable bowel syndrome: recent developments and future perspectives. PMID:32222124
Site-specific molecular analysis of the bacteriota on worn spectacles. PMID:32221361
Gut-Resident Lactobacilli Activate Hepatic Nrf2 and Protect Against Oxidative Liver Injury. PMID:32213347
Targeted Inhibition of Gut Microbial Trimethylamine N-Oxide Production Reduces Renal Tubulointerstitial Fibrosis and Functional Impairment in a Murine Model of Chronic Kidney Disease. PMID:32212854
Metatranscriptomics Reveals Antibiotic-Induced Resistance Gene Expression in the Murine Gut Microbiota. PMID:32210932
Spatial Ecology of the Human Tongue Dorsum Microbiome. PMID:32209464
Variations in microbiota composition of laboratory mice influence Citrobacter rodentium infection via variable short-chain fatty acid production. PMID:32208465
The Community Simulator: A Python package for microbial ecology. PMID:32208436
The Microbiome of the Nose-Friend or Foe? PMID:32206384
Toward a dynamical understanding of microbial communities. PMID:32200735
Probiotic-directed modulation of gut microbiota is basal microbiome dependent. PMID:32200683
Oral biofilms exposure to chlorhexidine results in altered microbial composition and metabolic profile. PMID:32198347
Study of the cwaRS-ldcA Operon Coding a Two-Component System and a Putative L,D-Carboxypeptidase in Lactobacillus paracasei. PMID:32194510
Context-dependent dynamics lead to the assembly of functionally distinct microbial communities. PMID:32188849
Household Pet Ownership and the Microbial Diversity of the Human Gut Microbiota. PMID:32185142
Do you cov me? Effect of coverage reduction on metagenome shotgun sequencing studies. PMID:32185014
Novel Research Models for Staphylococcus aureus Small Colony Variants (SCV) Development: Co-pathogenesis and Growth Rate. PMID:32184775
Vulvar pruritus-Causes, Diagnosis and Therapeutic Approach. PMID:32181734
Antithetic population response to antibiotics in a polybacterial community. PMID:32181369
Polymicrobial synergy within oral biofilm promotes invasion of dendritic cells and survival of consortia members. PMID:32179736
Reliability of gastrointestinal barrier integrity and microbial translocation biomarkers at rest and following exertional heat stress. PMID:32170836
The role of gut microbiota in bone homeostasis. PMID:32169602
Gut microbiota and cardiovascular disease: opportunities and challenges. PMID:32169105
Changes in the gut microbiota of mice orally exposed to methylimidazolium ionic liquids. PMID:32163446
Gut Microbiome Profiles Are Associated With Type 2 Diabetes in Urban Africans. PMID:32158702
Metabolites Linking the Gut Microbiome with Risk for Type 2 Diabetes. PMID:32157661
Composition of fecal microbiota in low-set rectal cancer patients treated with FOLFOX. PMID:32153743
Changes in the Solid-, Liquid-, and Epithelium-Associated Bacterial Communities in the Rumen of Hu Lambs in Response to Dietary Urea Supplementation. PMID:32153533
The Role of the Gut Microbiota in Dietary Interventions for Depression and Anxiety. PMID:32149335
Diet influences the functions of the human intestinal microbiome. PMID:32144387
Nutrient-toxic element mixtures and the early postnatal gut microbiome in a United States longitudinal birth cohort. PMID:32142916
Mapping the Segmental Microbiomes in the Human Small Bowel in Comparison with Stool: A REIMAGINE Study. PMID:32140945
The Gut-Lung Axis in Health and Respiratory Diseases: A Place for Inter-Organ and Inter-Kingdom Crosstalks. PMID:32140452
Emerging Priorities for Microbiome Research. PMID:32140140
Gut microbiota, endotoxemia, inflammation, and oxidative stress in patients with heart failure, left ventricular assist device, and transplant. PMID:32139154
Predictable modulation of cancer treatment outcomes by the gut microbiota. PMID:32138779
BarleyNet: A Network-Based Functional Omics Analysis Server for Cultivated Barley, Hordeum vulgare L. PMID:32133024
Microbiota-Propelled T Helper 17 Cells in Inflammatory Diseases and Cancer. PMID:32132244
Gut microbiome of native Arab Kuwaitis. PMID:32127920
Metagenomic analysis reveals the microbiome and resistome in migratory birds. PMID:32122398
An empirically derived method for measuring human gut microbiome alpha diversity: Demonstrated utility in predicting health-related outcomes among a human clinical sample. PMID:32119675
Predicting Microbiome Function Across Space Is Confounded by Strain-Level Differences and Functional Redundancy Across Taxa. PMID:32117131
Defensive Symbioses in Social Insects Can Inform Human Health and Agriculture. PMID:32117113
Milk Microbiota: What Are We Exactly Talking About? PMID:32117107
The Gut Microbiota and Its Implication in the Development of Atherosclerosis and Related Cardiovascular Diseases. PMID:32110880
Exploration of the Relationship Between Gut Microbiota and Polycystic Ovary Syndrome (PCOS): a Review. PMID:32109968
Microbial community analysis using high-throughput sequencing technology: a beginner's guide for microbiologists. PMID:32108314
Gut Microbiota as Important Mediator Between Diet and DNA Methylation and Histone Modifications in the Host. PMID:32106534
Geographic Difference Shaped Human Ocular Surface Metagenome of Young Han Chinese From Beijing, Wenzhou, and Guangzhou Cities. PMID:32106294
A microbiome and metabolomic signature of phases of cutaneous healing identified by profiling sequential acute wounds of human skin: An exploratory study. PMID:32106276
Antimicrobial Resistance Gene Prevalence in a Population of Patients with Advanced Dementia Is Related to Specific Pathobionts. PMID:32106056
Global chemical effects of the microbiome include new bile-acid conjugations. PMID:32103176
Characterization of intratissue bacterial communities and isolation of Escherichia coli from oral lichen planus lesions. PMID:32103089
A comprehensive non-redundant gene catalog reveals extensive within-community intraspecies diversity in the human vagina. PMID:32103005
Age-Related Variation of Bacterial and Fungal Communities in Different Body Habitats across the Young, Elderly, and Centenarians in Sardinia. PMID:32102941
The Human Oral Microbiome in Health and Disease: From Sequences to Ecosystems. PMID:32102216
Microbiota as Predictor of Mortality in Allogeneic Hematopoietic-Cell Transplantation. PMID:32101664
Resurrection of a global, metagenomically defined gokushovirus. PMID:32101162
Tendentious effects of automated and manual metagenomic DNA purification protocols on broiler gut microbiome taxonomic profiling. PMID:32099013
Improving Characterization of Understudied Human Microbiomes Using Targeted Phylogenetics. PMID:32098835
Antibiotic Alleviates Radiation-Induced Intestinal Injury by Remodeling Microbiota, Reducing Inflammation, and Inhibiting Fibrosis. PMID:32095719
A minimal model for microbial biodiversity can reproduce experimentally observed ecological patterns. PMID:32094388
Carnelian uncovers hidden functional patterns across diverse study populations from whole metagenome sequencing reads. PMID:32093762
Pre- and post-sequencing recommendations for functional annotation of human fecal metagenomes. PMID:32093654
Minireview on the Relations between Gut Microflora and Parkinson's Disease: Further Biochemical (Oxidative Stress), Inflammatory, and Neurological Particularities. PMID:32089768
Dissociation of Adaptive Thermogenesis from Glucose Homeostasis in Microbiome-Deficient Mice. PMID:32084379
A Metabolic Pathway for Activation of Dietary Glucosinolates by a Human Gut Symbiont. PMID:32084341
Gut Microbiota, Antibiotic Therapy and Antimicrobial Resistance: A Narrative Review. PMID:32079318
Fecal IgA Levels Are Determined by Strain-Level Differences in Bacteroides ovatus and Are Modifiable by Gut Microbiota Manipulation. PMID:32075742
Dysbiosis of the gut and lung microbiome has a role in asthma. PMID:32072252
New View on Dietary Fiber Selection for Predictable Shifts in Gut Microbiota. PMID:32071263
IPCO: Inference of Pathways from Co-variance analysis. PMID:32070271
Healthy Human Gastrointestinal Microbiome: Composition and Function After a Decade of Exploration. PMID:32067143
Distinct microbial and immune niches of the human colon. PMID:32066951
The gut microbiome in coronary artery disease and heart failure: Current knowledge and future directions. PMID:32062353
Post-antibiotic gut dysbiosis-induced trabecular bone loss is dependent on lymphocytes. PMID:32061677
The first glimpse of the endometrial microbiota in early pregnancy. PMID:32057732
Bacteriophages Isolated from Stunted Children Can Regulate Gut Bacterial Communities in an Age-Specific Manner. PMID:32053789
The global Microcystis interactome. PMID:32051648
Southern Chinese populations harbour non-nucleatum Fusobacteria possessing homologues of the colorectal cancer-associated FadA virulence factor. PMID:32051205
Network analyses in microbiome based on high-throughput multi-omics data. PMID:32047891
The Progress of Multi-Omics Technologies: Determining Function in Lactic Acid Bacteria Using a Systems Level Approach. PMID:32047482
Trait-Based Comparison of Coral and Sponge Microbiomes. PMID:32047192
Toward Standards in Clinical Microbiota Studies: Comparison of Three DNA Extraction Methods and Two Bioinformatic Pipelines. PMID:32047058
Reviewing the Composition of Vaginal Microbiota: Inclusion of Nutrition and Probiotic Factors in the Maintenance of Eubiosis. PMID:32041107
Comparative Analysis of Lactobacillus gasseri and Lactobacillus crispatus Isolated From Human Urogenital and Gastrointestinal Tracts. PMID:32038579
Beyond Taxonomic Analysis of Microbiomes: A Functional Approach for Revisiting Microbiome Changes in Colorectal Cancer. PMID:32038558
Fecal metatranscriptomics and glycomics suggest that bovine milk oligosaccharides are fully utilized by healthy adults. PMID:32028108
Gut microbiota and neuroinflammation in pathogenesis of hypertension: A potential role for hydrogen sulfide. PMID:32023431
Genetically Encodable Contrast Agents for Optical Coherence Tomography. PMID:32023037
Potential impact of outpatient stewardship interventions on antibiotic exposures of common bacterial pathogens. PMID:32022685
Species Diversity, Molecular Characterization, and Antimicrobial Susceptibility of Opportunistic Actinomycetes Isolated from Immunocompromised and Healthy Patients of Markazi Province of Iran. PMID:32021315
Synergism between Corynebacterium and Streptococcus sanguinis reveals new interactions between oral commensals. PMID:32020052
Changes in microbiome and metabolomic profiles of fecal samples stored with stabilizing solution at room temperature: a pilot study. PMID:32019987
Host-associated microbiomes are predicted by immune system complexity and climate. PMID:32014020
Insights into the role of intestinal microbiota in hematopoietic stem-cell transplantation. PMID:32010434
Abnormal Intestinal Microbiome in Medical Disorders and Potential Reversibility by Fecal Microbiota Transplantation. PMID:32008133
Dietary Patterns Impact Temporal Dynamics of Fecal Microbiota Composition in Children With Autism Spectrum Disorder. PMID:31998741
The gut microbiome: an orchestrator of xenobiotic metabolism. PMID:31998605
Distribution of Bacterial α1,3-Galactosyltransferase Genes in the Human Gut Microbiome. PMID:31998300
Measuring the Brain-Gut Axis in Psychological Sciences: A Necessary Challenge. PMID:31998086
Sputum microbiome profiling in COPD: beyond singular pathogen detection. PMID:31996401
Microbiome Anomalies in Allogeneic Hematopoietic Cell Transplantation. PMID:31986084
The gut microbiota and its interactions with cardiovascular disease. PMID:31984651
Diversity, compositional and functional differences between gut microbiota of children and adults. PMID:31974429
Single-cell genomics of uncultured bacteria reveals dietary fiber responders in the mouse gut microbiota. PMID:31969191
MICOM: Metagenome-Scale Modeling To Infer Metabolic Interactions in the Gut Microbiota. PMID:31964767
Antibiotic Degradation by Commensal Microbes Shields Pathogens. PMID:31964746
Gut Feelings Begin in Childhood: the Gut Metagenome Correlates with Early Environment, Caregiving, and Behavior. PMID:31964729
Microbiome applications for pathology: challenges of low microbial biomass samples during diagnostic testing. PMID:31944633
Discovery of Species-unique Peptide Biomarkers of Bacterial Pathogens by Tandem Mass Spectrometry-based Proteotyping. PMID:31941798
FBA Ecological Guild: Trio of Firmicutes-Bacteroidetes Alliance against Actinobacteria in Human Oral Microbiome. PMID:31937838
Effects of Added Dietary Fiber and Rearing System on the Gut Microbial Diversity and Gut Health of Chickens. PMID:31936399
High-throughput sequencing analysis of intestinal flora changes in ESRD and CKD patients. PMID:31931722
A Renal Clinician's Guide to the Gut Microbiota. PMID:31928802
Intermittent fasting from dawn to sunset for 30 consecutive days is associated with anticancer proteomic signature and upregulates key regulatory proteins of glucose and lipid metabolism, circadian clock, DNA repair, cytoskeleton remodeling, immune system and cognitive function in healthy subjects. PMID:31927066
The Two-Way Polyphenols-Microbiota Interactions and Their Effects on Obesity and Related Metabolic Diseases. PMID:31921881
The Initial Oral Microbiota of Neonates Among Subjects With Gestational Diabetes Mellitus. PMID:31921726
Urinary Microbiome Evaluation in Patients Presenting with Hematuria with a Focus on Exposure to Tobacco Smoke. PMID:31921713
MicroRNAs in Tumor Cell Metabolism: Roles and Therapeutic Opportunities. PMID:31921661
Honokiol Ameliorates High-Fat-Diet-Induced Obesity of Different Sexes of Mice by Modulating the Composition of the Gut Microbiota. PMID:31921106
Diet in Parkinson's Disease: Critical Role for the Microbiome. PMID:31920905
Following the community development of SIHUMIx - a new intestinal in vitro model for bioreactor use. PMID:31918607
Commensal Bacteroidetes protect against Klebsiella pneumoniae colonization and transmission through IL-36 signalling. PMID:31907407
The Mycobiome in Health and Disease: Emerging Concepts, Methodologies and Challenges. PMID:31894501
Nuclear Transit and HIV LTR Binding of NF-κB Subunits Held by IκB Proteins: Implications for HIV-1 Activation. PMID:31888181
Comparison of Japanese and Indian intestinal microbiota shows diet-dependent interaction between bacteria and fungi. PMID:31885873
Research Progress in Fecal Microbiota Transplantation as Treatment for Irritable Bowel Syndrome. PMID:31885549
Combined effects of HIV and obesity on the gastrointestinal microbiome of young men who have sex with men. PMID:31883184
Type-2 Diabetics Reduces Spatial Variation of Microbiome Based on Extracellur Vesicles from Gut Microbes across Human Body. PMID:31882892
Gut microbiome alterations in anti-NMDA receptor encephalitis: caveats for result interpretation. PMID:31880105
Fatty acid activation and utilization by Alistipes finegoldii, a representative Bacteroidetes resident of the human gut microbiome. PMID:31876062
tmap: an integrative framework based on topological data analysis for population-scale microbiome stratification and association studies. PMID:31870407
Innate immune priming in the absence of TAK1 drives RIPK1 kinase activity-independent pyroptosis, apoptosis, necroptosis, and inflammatory disease. PMID:31869420
The microbiota influences the Drosophila melanogaster life history strategy. PMID:31863671
Nonalcoholic Fatty Liver Disease: A Challenge from Mechanisms to Therapy. PMID:31861591
The Role of the Gut Microbiota in Lipid and Lipoprotein Metabolism. PMID:31861086
Evidence for a multi-level trophic organization of the human gut microbiome. PMID:31856158
Oropharyngeal Microbiome in Obstructive Sleep Apnea: Decreased Diversity and Abundance. PMID:31855163
The BE GONE trial study protocol: a randomized crossover dietary intervention of dry beans targeting the gut microbiome of overweight and obese patients with a history of colorectal polyps or cancer. PMID:31852462
Avoiding infections in transplant recipients: does the gut microbiota have a key role? PMID:31851851
The gut microbiome as a predictor of low fermentable oligosaccharides disaccharides monosaccharides and polyols diet efficacy in functional bowel disorders. PMID:31850930
Microbial biogeography and ecology of the mouth and implications for periodontal diseases. PMID:31850642
A 5700 year-old human genome and oral microbiome from chewed birch pitch. PMID:31848342
Gut Microbiota Dysbiosis Is Associated with Altered Bile Acid Metabolism in Infantile Cholestasis. PMID:31848302
Mining the Methylome Reveals Extensive Diversity in Staphylococcus epidermidis Restriction Modification. PMID:31848274
Improved utilization of soybean meal through fermentation with commensal Shewanella sp. MR-7 in turbot (Scophthalmus maximus L.). PMID:31842889
Integrating omics for a better understanding of Inflammatory Bowel Disease: a step towards personalized medicine. PMID:31836022
An inter-island comparison of Darwin's finches reveals the impact of habitat, host phylogeny, and island on the gut microbiome. PMID:31834908
Cotrimoxazole Prophylaxis Increases Resistance Gene Prevalence and α-Diversity but Decreases β-Diversity in the Gut Microbiome of Human Immunodeficiency Virus-Exposed, Uninfected Infants. PMID:31832638
How and Why Men and Women Differ in Their Microbiomes: Medical Ecology and Network Analyses of the Microgenderome. PMID:31832327
Examining pathogenic concepts of autoimmune hepatitis for cues to future investigations and interventions. PMID:31832000
Comparative analysis of the vaginal microbiome of pregnant women with either Trichomonas vaginalis or Chlamydia trachomatis. PMID:31830061
Comprehensive analysis of chromosomal mobile genetic elements in the gut microbiome reveals phylum-level niche-adaptive gene pools. PMID:31830054
Metagenomics and Faecal Metabolomics Integrative Analysis towards the Impaired Glucose Regulation and Type 2 Diabetes in Uyghur-Related Omics. PMID:31828159
Altered Gut Microbiota Diversity and Composition in Chronic Urticaria. PMID:31827639
Metabolic phenotyping of the human microbiome. PMID:31824656
Selection of microbial biomarkers with genetic algorithm and principal component analysis. PMID:31823717
Raman-deuterium isotope probing to study metabolic activities of single bacterial cells in human intestinal microbiota. PMID:31821744
The gut microbiome and neuropsychiatric disorders: implications for attention deficit hyperactivity disorder (ADHD). PMID:31821133
Dietary Factors in the Control of Gut Homeostasis, Intestinal Stem Cells, and Colorectal Cancer. PMID:31816977
Systematic processing of ribosomal RNA gene amplicon sequencing data. PMID:31816087
Co-existence of Network Architectures Supporting the Human Gut Microbiome. PMID:31812808
The role of the changing human microbiome in the asthma pandemic. PMID:31812180
Advancing functional and translational microbiome research using meta-omics approaches. PMID:31810497
Interactions of tea catechins with intestinal microbiota and their implication for human health. PMID:31807334
Oral Microbiota Composition and Antimicrobial Antibody Response in Patients with Recurrent Aphthous Stomatitis. PMID:31805744
A Novel Approach Based on Bipartite Network Recommendation and KATZ Model to Predict Potential Micro-Disease Associations. PMID:31803235
Trimethylamine N-oxide and incident atherosclerotic events in high-risk individuals with diabetes: an ACCORD trial post hoc analysis. PMID:31798892
PcsB Expression Diversity Influences on Streptococcus mitis Phenotypes Associated With Host Persistence and Virulence. PMID:31798545
Gut uropathogen abundance is a risk factor for development of bacteriuria and urinary tract infection. PMID:31797927
Dysbiosis of lower respiratory tract microbiome are associated with inflammation and microbial function variety. PMID:31796027
Microbiome Multi-Omics Network Analysis: Statistical Considerations, Limitations, and Opportunities. PMID:31781153
Gut Microbiota and Cardiometabolic Risk Factors in Hemodialysis Patients: A Pilot Study. PMID:31777415
The Cancer Microbiota: EMT and Inflammation as Shared Molecular Mechanisms Associated with Plasticity and Progression. PMID:31772577
Racial Differences in the Oral Microbiome: Data from Low-Income Populations of African Ancestry and European Ancestry. PMID:31771977
Development and Preliminary Validation of a Feasible Procedure for Isolating RNA from Fiber-Adherent Bacteria in Human Stool. PMID:31767826
Longitudinal study of the bacterial and fungal microbiota in the human sinuses reveals seasonal and annual changes in diversity. PMID:31758066
Engineering dual-glycan responsive expression systems for tunable production of heterologous proteins in Bacteroides thetaiotaomicron. PMID:31758019
Qualitative microbiome profiling along a wastewater system in Kampala, Uganda. PMID:31757984
Short-Chain N-Acylhomoserine Lactone Quorum-Sensing Molecules Promote Periodontal Pathogens in In Vitro Oral Biofilms. PMID:31757829
metaSPARSim: a 16S rRNA gene sequencing count data simulator. PMID:31757204
MetaCon: unsupervised clustering of metagenomic contigs with probabilistic k-mers statistics and coverage. PMID:31757198
Role of Probiotics in Non-alcoholic Fatty Liver Disease: Does Gut Microbiota Matter? PMID:31752378
The Impact of Early-Life Exposure to Antimicrobials on Asthma and Eczema Risk in Children. PMID:31745828
Microbial Signatures and Innate Immune Gene Expression in Lamina Propria Phagocytes of Inflammatory Bowel Disease Patients. PMID:31740421
Lung Microbiome in Asthma: Current Perspectives. PMID:31739446
Gut Microbiota: From the Forgotten Organ to a Potential Key Player in the Pathology of Alzheimer's Disease. PMID:31738402
Gene Expression Changes and Community Turnover Differentially Shape the Global Ocean Metatranscriptome. PMID:31730850
Impact of quality trimming on the efficiency of reads joining and diversity analysis of Illumina paired-end reads in the context of QIIME1 and QIIME2 microbiome analysis frameworks. PMID:31730472
Bacteriophage targeting of gut bacterium attenuates alcoholic liver disease. PMID:31723265
Composition and diversity of the subgingival microbiome and its relationship with age in postmenopausal women: an epidemiologic investigation. PMID:31722703
The effect of Bacillus coagulans on cytotoxicity and apoptosis induced by Salmonella Typhimurium in HT-29 cell culture. PMID:31719962
Homeostasis and dysbiosis of the gut microbiome in health and disease. PMID:31719226
Vaginal microbiota in pregnancy: Role in induction of labor and seeding the neonate''s microbiota? PMID:31719225
Understanding the association between the human gut, oral and skin microbiome and the Ayurvedic concept of prakriti. PMID:31719221
Ecology and Host Identity Outweigh Evolutionary History in Shaping the Bat Microbiome. PMID:31719140
Association of Flavonifractor plautii, a Flavonoid-Degrading Bacterium, with the Gut Microbiome of Colorectal Cancer Patients in India. PMID:31719139
Acquisition and Development of the Extremely Preterm Infant Microbiota Across Multiple Anatomical Sites. PMID:31714477
Microbial succession during wheat bran fermentation and colonisation by human faecal microbiota as a result of niche diversification. PMID:31712738
Skin Exposure to Narrow Band Ultraviolet (UVB) Light Modulates the Human Intestinal Microbiome. PMID:31708890
Comparison of the fecal, cecal, and mucus microbiome in male and female mice after TNBS-induced colitis. PMID:31703107
The microbiome of the upper respiratory tract in health and disease. PMID:31699101
Evaluating rectal swab collection method for gut microbiome analysis in the common marmoset (Callithrix jacchus). PMID:31697779
Evaluation of 16S rRNA gene sequencing for species and strain-level microbiome analysis. PMID:31695033
Biofilm Producing Staphylococcus epidermidis (RP62A Strain) Inhibits Osseous Integration Without Osteolysis and Histopathology in a Murine Septic Implant Model. PMID:31692081
Rectal swabs are a reliable proxy for faecal samples in infant gut microbiota research based on 16S-rRNA sequencing. PMID:31690798
Oral Microbiome Alterations Associated with Early Childhood Caries Highlight the Importance of Carbohydrate Metabolic Activities. PMID:31690590
Home chemical and microbial transitions across urbanization. PMID:31686026
Embracing Ambiguity in the Taxonomic Classification of Microbiome Sequencing Data. PMID:31681437
Cross-Regional View of Functional and Taxonomic Microbiota Composition in Obesity and Post-obesity Treatment Shows Country Specific Microbial Contribution. PMID:31681211
Infant airway microbiota and topical immune perturbations in the origins of childhood asthma. PMID:31676759
WMGHMDA: a novel weighted meta-graph-based model for predicting human microbe-disease association on heterogeneous information network. PMID:31675979
The subgingival microbiome associated with periodontitis in type 2 diabetes mellitus. PMID:31673077
Optimizing sequencing protocols for leaderboard metagenomics by combining long and short reads. PMID:31672156
Human gut bacteria contain acquired interbacterial defence systems. PMID:31666699
Quantifying the impact of treatment history on plasmid-mediated resistance evolution in human gut microbiota. PMID:31666328
Pharmacologically Aware Phage Therapy: Pharmacodynamic and Pharmacokinetic Obstacles to Phage Antibacterial Action in Animal and Human Bodies. PMID:31666296
A Robust Metatranscriptomic Technology for Population-Scale Studies of Diet, Gut Microbiome, and Human Health. PMID:31662956
Interrogation of Internal Workings in Microbial Community Assembly: Play a Game through a Behavioral Network? PMID:31662431
Aging progression of human gut microbiota. PMID:31660868
Fecal Transplant in Children With Clostridioides difficile Gives Sustained Reduction in Antimicrobial Resistance and Potential Pathogen Burden. PMID:31660343
Inflammation in Renal Diseases: New and Old Players. PMID:31649546
Fungal-bacterial diversity and microbiome complexity predict ecosystem functioning. PMID:31649246
The respiratory microbiota during health and disease: a paediatric perspective. PMID:31641583
DNA extraction for human microbiome studies: the issue of standardization. PMID:31639026
Altered Middle Ear Microbiome in Children With Chronic Otitis Media With Effusion and Respiratory Illnesses. PMID:31637220
Influence of the Lung Microbiota Dysbiosis in Chronic Obstructive Pulmonary Disease Exacerbations: The Controversial Use of Corticosteroid and Antibiotic Treatments and the Role of Eosinophils as a Disease Marker. PMID:31636780
Harnessing the microbiota to treat neurological diseases . PMID:31636490
What one lipid giveth, another taketh away. PMID:31636467
Systems biology perspective for studying the gut microbiota in human physiology and liver diseases. PMID:31636011
Precision Reengineering of the Oral Microbiome for Caries Management. PMID:31633390
Seasonal Changes in Gut Microbiota Diversity and Composition in the Greater Horseshoe Bat. PMID:31632369
MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities. PMID:31629686
Scales of persistence: transmission and the microbiome. PMID:31629296
Impact of Early Life Antibiotic Exposure and Neonatal Hyperoxia on the Murine Microbiome and Lung Injury. PMID:31628395
Land-use change has host-specific influences on avian gut microbiomes. PMID:31624349
Normal gut microbiome in NMDA receptor encephalitis. PMID:31624178
Microbial Contribution to the Human Metabolome: Implications for Health and Disease. PMID:31622559
Gastro-intestinal and oral microbiome signatures associated with healthy aging. PMID:31620923
Chitooligosaccharides Prevents the Development of Colitis-Associated Colorectal Cancer by Modulating the Intestinal Microbiota and Mycobiota. PMID:31620100
Dysbiosis Modulates Ocular Surface Inflammatory Response to Liposaccharide. PMID:31618426
Signaling Natural Products from Human Pathogenic Bacteria. PMID:31617342
Differential Effects of Typical Korean Versus American-Style Diets on Gut Microbial Composition and Metabolic Profile in Healthy Overweight Koreans: A Randomized Crossover Trial. PMID:31615057
Fecal Microbiome Characteristics and the Resistome Associated With Acquisition of Multidrug-Resistant Organisms Among Elderly Subjects. PMID:31611867
Advances and Challenges in Metatranscriptomic Analysis. PMID:31608125
The Prevotella copri Complex Comprises Four Distinct Clades Underrepresented in Westernized Populations. PMID:31607556
Species abundance information improves sequence taxonomy classification accuracy. PMID:31604942
Blautia genus associated with visceral fat accumulation in adults 20-76 years of age. PMID:31602309
Framework for rational donor selection in fecal microbiota transplant clinical trials. PMID:31600222
Influence of Maternal Prepregnancy Obesity and Excessive Gestational Weight Gain on Maternal and Child Gastrointestinal Microbiome Composition: A Systematic Review. PMID:31597472
Why Evolve Reliance on the Microbiome for Timing of Ontogeny? PMID:31594812
Microbial Interactions in Oral Communities Mediate Emergent Biofilm Properties. PMID:31590609
phylogenize: correcting for phylogeny reveals genes associated with microbial distributions. PMID:31588499
Sodium, hypertension, and the gut: does the gut microbiota go salty? PMID:31585045
Interplay between the human gut microbiome and host metabolism. PMID:31582752
Highly diverse anaerobe-predominant vaginal microbiota among HIV-infected pregnant women in Zambia. PMID:31577818
Proto-dolomite formation in microbial consortia dominated by Halomonas strains. PMID:31576454
Recent Advances in Our Understanding of the Link between the Intestinal Microbiota and Systemic Lupus Erythematosus. PMID:31575045
Nutrients in the Prevention of Alzheimer's Disease. PMID:31565158
Gut microbiota regulates cardiac ischemic tolerance and aortic stiffness in obesity. PMID:31559829
The Virome of Cerebrospinal Fluid: Viruses Where We Once Thought There Were None. PMID:31555247
The Gut Microbiome and Metabolome of Two Riparian Communities in the Amazon. PMID:31555238
Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome. PMID:31546776
Bioactive Synthetic-Bioinformatic Natural Product Cyclic Peptides Inspired by Nonribosomal Peptide Synthetase Gene Clusters from the Human Microbiome. PMID:31545899
Impact of infection on transplantation tolerance. PMID:31538351
Beyond cells - The virome in the human holobiont. PMID:31528630
Complex interactions between the microbiome and cancer immune therapy. PMID:31526274
The matter of the reproductive microbiome. PMID:31523266
A comprehensive assessment of demographic, environmental, and host genetic associations with gut microbiome diversity in healthy individuals. PMID:31519223
Urinary lead concentration and composition of the adult gut microbiota in a cross-sectional population-based sample. PMID:31518933
The potential role of P.gingivalis in gastrointestinal cancer: a mini review. PMID:31516546
An in vitro model maintaining taxon-specific functional activities of the gut microbiome. PMID:31515476
Learning a mixture of microbial networks using minorization-maximization. PMID:31510709
Baseline human gut microbiota profile in healthy people and standard reporting template. PMID:31509535
Dysbiosis: from fiction to function. PMID:31509433
Improving the quality of life of people with advanced respiratory disease and severe breathlessness. PMID:31508158
Succession of oral microbiota community as a tool to estimate postmortem interval. PMID:31506511
Temporal development of the infant gut microbiome. PMID:31506017
Association of dietary patterns with the gut microbiota in older, community-dwelling men. PMID:31504105
Characterization and Analysis of the Skin Microbiota in Rosacea: A Case-Control Study. PMID:31502207
Microbiome as an Immunological Modifier. PMID:31502171
Defining Dysbiosis for a Cluster of Chronic Diseases. PMID:31501492
Gut microbial diversity and genus-level differences identified in cervical cancer patients versus healthy controls. PMID:31500892
Metaproteomics analysis of microbial diversity of human saliva and tongue dorsum in young healthy individuals. PMID:31497257
Gut microbiome in serious mental illnesses: A systematic review and critical evaluation. PMID:31495702
Gut microbiome beats two to zero host genome. PMID:31489307
Microbiome, Breastfeeding and Public Health Policy in the United States: The Case for Dietary Fiber. PMID:31488950
Metagenomic and culturomic analysis of gut microbiota dysbiosis during Clostridium difficile infection. PMID:31488869
The functional repertoire contained within the native microbiota of the model nematode Caenorhabditis elegans. PMID:31484996
Gut Microbiota Has a Widespread and Modifiable Effect on Host Gene Regulation. PMID:31481602
Probiotics in health and disease: fooling Mother Nature? PMID:31478123
Batch effect exerts a bigger influence on the rat urinary metabolome and gut microbiota than uraemia: a cautionary tale. PMID:31477171
Global research trends in microbiome-gut-brain axis during 2009-2018: a bibliometric and visualized study. PMID:31470803
Importance of Virulence Factors for the Persistence of Oral Bacteria in the Inflamed Gingival Crevice and in the Pathogenesis of Periodontal Disease. PMID:31470579
New system to examine the activity and water and food intake of germ-free mice in a sealed positive-pressure cage. PMID:31463382
Social and population health science approaches to understand the human microbiome. PMID:31457107
Bacterial but Not Fungal Gut Microbiota Alterations Are Associated With Common Variable Immunodeficiency (CVID) Phenotype. PMID:31456808
Microbiota-Immune Interaction in the Pathogenesis of Gut-Derived Infection. PMID:31456801
Long-read metagenomic exploration of extrachromosomal mobile genetic elements in the human gut. PMID:31455406
Finding intestinal fortitude: Integrating the microbiome into a holistic view of depression mechanisms, treatment, and resilience. PMID:31454550
Metagenomic analysis reveals a rich bacterial content in high-risk prostate tumors from African men. PMID:31454437
Profiling microorganisms in whole saliva of children with and without dental caries. PMID:31452955
The Human Gut Microbiome is Structured to Optimize Molecular Interaction Networks. PMID:31452856
Supplementation of triple viable probiotics combined with dietary intervention is associated with gut microbial improvement in humans on a high-fat diet. PMID:31452713
Molecular profiling of tissue biopsies reveals unique signatures associated with streptococcal necrotizing soft tissue infections. PMID:31451691
Effects of probiotics on the lipid profile: systematic review. PMID:31447899
Changes in Oral Microbial Ecology of C57BL/6 Mice at Different Ages Associated with Sampling Methodology. PMID:31443509
Gut Microbiome Signatures Are Predictive of Infectious Risk Following Induction Therapy for Acute Myeloid Leukemia. PMID:31436833
Pursuing Human-Relevant Gut Microbiota-Immune Interactions. PMID:31433970
Subtle selectivity in a pheromone sensor triumvirate desynchronizes competence and predation in a human gut commensal. PMID:31433299
The role of microbiome in rheumatoid arthritis treatment. PMID:31431810
First Insights Into Bacterial Gastrointestinal Tract Communities of the Eurasian Beaver (Castor fiber). PMID:31428060
Species matter for predicting the functioning of evolving microbial communities - An eco-evolutionary model. PMID:31425541
Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria. PMID:31423298
Age and Mothers: Potent Influences of Children's Skin Microbiota. PMID:31420081
The prevalence of the culturable human skin aerobic bacteria in Riyadh, Saudi Arabia. PMID:31419942
The sex-specific interaction of the microbiome in neurodegenerative diseases. PMID:31419428
Gut Microbiome Biomarkers and Functional Diversity Within an Amazonian Semi-Nomadic Hunter-Gatherer Group. PMID:31417531
Anatomic Characterization of the Ocular Surface Microbiome in Children. PMID:31416201
Streamlined Genetic Manipulation of Diverse Bacteroides and Parabacteroides Isolates from the Human Gut Microbiota. PMID:31409684
Highly Reproducible 16S Sequencing Facilitates Measurement of Host Genetic Influences on the Stickleback Gut Microbiome. PMID:31409661
What Pediatricians Should Know Before Studying Gut Microbiota. PMID:31409048
Association between the Gut Microbiota and Obesity. PMID:31406553
Tumor Microbiome Diversity and Composition Influence Pancreatic Cancer Outcomes. PMID:31398337
Association network analysis identifies enzymatic components of gut microbiota that significantly differ between colorectal cancer patients and healthy controls. PMID:31392094
Reply to Sun et al., "Identifying Composition Novelty in Microbiome Studies: Improvement of Prediction Accuracy". PMID:31387904
Microbiome predictors of dysbiosis and VRE decolonization in patients with recurrent C. difficile infections in a multi-center retrospective study. PMID:31384699
The Development of the Human Microbiome: Why Moms Matter. PMID:31383276
Microbiota and Its Role on Viral Evasion: Is It With Us or Against Us? PMID:31380299
Mapping Interactions of Microbial Metabolites with Human G-Protein-Coupled Receptors. PMID:31378678
Baseline microbiota composition modulates antibiotic-mediated effects on the gut microbiota and host. PMID:31375137
Establishing What Constitutes a Healthy Human Gut Microbiome: State of the Science, Regulatory Considerations, and Future Directions. PMID:31373365
Massive metagenomic data analysis using abundance-based machine learning. PMID:31370905
Microbial dysbiosis and polyamine metabolism as predictive markers for early detection of pancreatic cancer. PMID:31369062
Consumer Safety Considerations of Skin and Oral Microbiome Perturbation. PMID:31366612
Identification of Patulin from Penicillium coprobium as a Toxin for Enteric Neurons. PMID:31366160
Next Generation Sequencing Discoveries of the Nitrate-Responsive Oral Microbiome and Its Effect on Vascular Responses. PMID:31357429
Can Targeting Non-Contiguous V-Regions With Paired-End Sequencing Improve 16S rRNA-Based Taxonomic Resolution of Microbiomes?: An In Silico Evaluation. PMID:31354793
RWHMDA: Random Walk on Hypergraph for Microbe-Disease Association Prediction. PMID:31354672
Comparing the Microbial Community in Four Stomach of Dairy Cattle, Yellow Cattle and Three Yak Herds in Qinghai-Tibetan Plateau. PMID:31354656
Effects of a Fermented Beverage of Changbai Mountain Fruit and Vegetables on the Composition of Gut Microbiota in Mice. PMID:31352653
Murine Genetic Background Has a Stronger Impact on the Composition of the Gut Microbiota than Maternal Inoculation or Exposure to Unlike Exogenous Microbiota. PMID:31350316
Microbiome evolution during host aging. PMID:31344129
Genome editing using the endogenous type I CRISPR-Cas system in Lactobacillus crispatus. PMID:31341082
Gut microbiome affects the response to anti-PD-1 immunotherapy in patients with hepatocellular carcinoma. PMID:31337439
Probiotics in Food Systems: Significance and Emerging Strategies Towards Improved Viability and Delivery of Enhanced Beneficial Value. PMID:31337060
miRNA-Gene Regulatory Network in Gnotobiotic Mice Stimulated by Dysbiotic Gut Microbiota Transplanted From a Genetically Obese Child. PMID:31333621
Position-Specific Metabolic Probing and Metagenomics of Microbial Communities Reveal Conserved Central Carbon Metabolic Network Activities at High Temperatures. PMID:31333598
Defining microbial biomarkers for risk of preterm labor. PMID:31332740
Protocol for the Emory University African American maternal stress and infant gut microbiome cohort study. PMID:31331308
The Subgingival Microbiome Relationship to Periodontal Disease in Older Women. PMID:31329044
Gut microbiome and serum metabolome analyses identify molecular biomarkers and altered glutamate metabolism in fibromyalgia. PMID:31327695
Symbiotic microbiota may reflect host adaptation by resident to invasive ant species. PMID:31323076
Lung Microbiota and Pulmonary Inflammatory Cytokines Expression Vary in Children With Tracheomalacia and Adenoviral or Mycoplasma pneumoniae Pneumonia. PMID:31316955
Insights into the Microbiome of Breast Implants and Periprosthetic Tissue in Breast Implant-Associated Anaplastic Large Cell Lymphoma. PMID:31316085
[Correlation between gut microbiota and behavior symptoms in children with autism spectrum disorder]. PMID:31315765
Metagenomics in ophthalmology: Hypothesis or real prospective? PMID:31312608
Discovery of potential genes contributing to the biosynthesis of short-chain fatty acids and lactate in gut microbiota from systematic investigation in E. coli. PMID:31312512
Gut microbiota composition explains more variance in the host cardiometabolic risk than genetic ancestry. PMID:31311405
A Comparative Analysis of Biosynthetic Gene Clusters in Lean and Obese Humans. PMID:31309109
A survey of the sperm whale (Physeter catodon) commensal microbiome. PMID:31309006
Role of Microbiome in Modulating Immune Responses in Cancer. PMID:31308831
Quantifying spatiotemporal variability and noise in absolute microbiota abundances using replicate sampling. PMID:31308552
Smoking and microbiome in oral, airway, gut and some systemic diseases. PMID:31307469
Is nano safe in foods? Establishing the factors impacting the gastrointestinal fate and toxicity of organic and inorganic food-grade nanoparticles. PMID:31304248
Community analysis and co-occurrence patterns in airway microbial communities during health and disease. PMID:31304176
Incense Burning is Associated with Human Oral Microbiota Composition. PMID:31296925
Autoimmune liver disease and the enteric microbiome. PMID:31294219
Oral microbiome and health. PMID:31294203
Microbiome in the urinary system-a review. PMID:31294154
Microbe-driven chemical ecology: past, present and future. PMID:31289346
Patterns of protist diversity associated with raw sewage in New York City. PMID:31289345
Study of the impact of long-duration space missions at the International Space Station on the astronaut microbiome. PMID:31289321
Gut microbiota phenotypes of obesity. PMID:31285833
Potential Role of the Microbiome in Acne: A Comprehensive Review. PMID:31284694
Bifidobacterium and Lactobacillus Composition at Species Level and Gut Microbiota Diversity in Infants before 6 Weeks. PMID:31284413
Resolution of ulcerative colitis. PMID:31278430
Trait-based analysis of the human skin microbiome. PMID:31277701
Acupuncture Regulating Gut Microbiota in Abdominal Obese Rats Induced by High-Fat Diet. PMID:31275411
Micronutrient Requirements and Sharing Capabilities of the Human Gut Microbiome. PMID:31275260
Synecological farming: Theoretical foundation on biodiversity responses of plant communities. PMID:31274987
Characterization of bacterial communities in wastewater with enhanced taxonomic resolution by full-length 16S rRNA sequencing. PMID:31273307
Synergistic and antagonistic interactions between antibiotics and synbiotics in modifying the murine fecal microbiome. PMID:31263983
Microbiome Signatures Associated With Steatohepatitis and Moderate to Severe Fibrosis in Children With Nonalcoholic Fatty Liver Disease. PMID:31255652
Hypergravity disrupts murine intestinal microbiota. PMID:31253829
BOARD INVITED REVIEW: The pig microbiota and the potential for harnessing the power of the microbiome to improve growth and health1. PMID:31250899
Uterine and vaginal bacterial community diversity prior to artificial insemination between pregnant and nonpregnant postpartum cows1. PMID:31250893
Microbial genes and pathways in inflammatory bowel disease. PMID:31249397
Analysis of RNA Methylation by Phylogenetically Diverse Cfr Radical S-Adenosylmethionine Enzymes Reveals an Iron-Binding Accessory Domain in a Clostridial Enzyme. PMID:31246421
Microbial Networks in SPRING - Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data. PMID:31244881
Impact of Host DNA and Sequencing Depth on the Taxonomic Resolution of Whole Metagenome Sequencing for Microbiome Analysis. PMID:31244801
Modulation of the Caecal Gut Microbiota of Mice by Dietary Supplement Containing Resistant Starch: Impact Is Donor-Dependent. PMID:31244792
Systemic Molecular Mediators of Inflammation Differentiate Between Crohn's Disease and Ulcerative Colitis, Implicating Threshold Levels of IL-10 and Relative Ratios of Pro-inflammatory Cytokines in Therapy. PMID:31241755
Quantifying and Understanding Well-to-Well Contamination in Microbiome Research. PMID:31239396
metaQuantome: An Integrated, Quantitative Metaproteomics Approach Reveals Connections Between Taxonomy and Protein Function in Complex Microbiomes. PMID:31235611
QseC Signaling in the Outbreak O104:H4 Escherichia coli Strain Combines Multiple Factors during Infection. PMID:31235511
Skin microbiome modulation induced by probiotic solutions. PMID:31234928
Pathogenic Autoreactive T and B Cells Cross-React with Mimotopes Expressed by a Common Human Gut Commensal to Trigger Autoimmunity. PMID:31227334
Fecal Microbial Transplantation for Diseases Beyond Recurrent Clostridium Difficile Infection. PMID:31220424
Microbiomes, Community Ecology, and the Comparative Method. PMID:31219791
Association between the pig genome and its gut microbiota composition. PMID:31217427
MetaNN: accurate classification of host phenotypes from metagenomic data using neural networks. PMID:31216991
Bifidobacterium dentium Fortifies the Intestinal Mucus Layer via Autophagy and Calcium Signaling Pathways. PMID:31213556
Effects of a probiotic drink containing Lactobacillus casei strain Shirota on dental plaque microbiota. PMID:31208252
Longitudinal microbiome profiling reveals impermanence of probiotic bacteria in domestic pigeons. PMID:31206549
Paediatricians play a key role in preventing early harmful events that could permanently influence the development of the gut microbiota in childhood. PMID:31197890
Macronutrient metabolism by the human gut microbiome: major fermentation by-products and their impact on host health. PMID:31196177
Non-synchronous Structural and Functional Dynamics During the Coalescence of Two Distinct Soil Bacterial Communities. PMID:31191473
Integrative Analysis Toward Different Glucose Tolerance-Related Gut Microbiota and Diet. PMID:31191448
Why targeting the microbiome is not so successful: can randomness overcome the adaptation that occurs following gut manipulation? PMID:31190948
The impact of skin care products on skin chemistry and microbiome dynamics. PMID:31189482
Dynamic and Asymmetric Changes of the Microbial Communities after Cohousing in Laboratory Mice. PMID:31189120
Gut microbiome analysis by post: Evaluation of the optimal method to collect stool samples from infants within a national cohort study. PMID:31188837
Comprehensive viromewide antibody responses by systematic epitope scanning after hematopoietic cell transplantation. PMID:31186276
The human gut chemical landscape predicts microbe-mediated biotransformation of foods and drugs. PMID:31184303
The Microbial Toxin Microcin B17: Prospects for the Development of New Antibacterial Agents. PMID:31181289
Biogeography of the Oral Microbiome: The Site-Specialist Hypothesis. PMID:31180804
Egg Production in Poultry Farming Is Improved by Probiotic Bacteria. PMID:31178831
Understanding the Role of the Gut Microbiome and Microbial Metabolites in Obesity and Obesity-Associated Metabolic Disorders: Current Evidence and Perspectives. PMID:31175629
Dynamic Modulation of the Gut Microbiota and Metabolome by Bacteriophages in a Mouse Model. PMID:31175044
MiCoP: microbial community profiling method for detecting viral and fungal organisms in metagenomic samples. PMID:31167634
Development of a Novel ex vivo Nasal Epithelial Cell Model Supporting Colonization With Human Nasal Microbiota. PMID:31165051
Getting to Know the Gut Microbial Diversity of Metropolitan Buenos Aires Inhabitants. PMID:31164869
Antibiotic Exposure Has Sex-Dependent Effects on the Gut Microbiota and Metabolism of Short-Chain Fatty Acids and Amino Acids in Mice. PMID:31164448
New Approaches to Microbiome-Based Therapies. PMID:31164406
Microbiota: Overview and Implication in Immunotherapy-Based Cancer Treatments. PMID:31159348
Variants in genes of innate immunity, appetite control and energy metabolism are associated with host cardiometabolic health and gut microbiota composition. PMID:31154934
Sociodemographic variation in the oral microbiome. PMID:31151886
The genital tract and rectal microbiomes: their role in HIV susceptibility and prevention in women. PMID:31144462
Tracking humans and microbes. PMID:31142867
Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases. PMID:31142855
The Integrative Human Microbiome Project. PMID:31142853
Molecular analysis of the endobronchial stent microbial biofilm reveals bacterial communities that associate with stent material and frequent fungal constituents. PMID:31141557
Regional and Microenvironmental Scale Characterization of the Zostera muelleri Seagrass Microbiome. PMID:31139163
Modification of the Gastric Mucosal Microbiota by a Strain-Specific Helicobacter pylori Oncoprotein and Carcinogenic Histologic Phenotype. PMID:31138752
Scalable methods for analyzing and visualizing phylogenetic placement of metagenomic samples. PMID:31136592
Asexual Reproduction Can Account for the High Diversity and Prevalence of Rare Taxa Observed in Microbial Communities. PMID:31126951
The skin microbiome of vertebrates. PMID:31122279
The Impact of DNA Polymerase and Number of Rounds of Amplification in PCR on 16S rRNA Gene Sequence Data. PMID:31118299
Network Integrative Genomic and Transcriptomic Analysis of Carbapenem-Resistant Klebsiella pneumoniae Strains Identifies Genes for Antibiotic Resistance and Virulence. PMID:31117026
MetaQUBIC: a computational pipeline for gene-level functional profiling of metagenome and metatranscriptome. PMID:31116375
Probing Clostridium difficile Infection in Complex Human Gut Cellular Models. PMID:31114553
The microbiota and microbiome in pancreatic cancer: more influential than expected. PMID:31109338
Influence of own mother's milk and different proportions of formula on intestinal microbiota of very preterm newborns. PMID:31107919
Aerodigestive sampling reveals altered microbial exchange between lung, oropharyngeal, and gastric microbiomes in children with impaired swallow function. PMID:31107879
Detecting interaction networks in the human microbiome with conditional Granger causality. PMID:31107866
The Structure of Dental Plaque Microbial Communities in the Transition from Health to Dental Caries and Periodontal Disease. PMID:31103772
Transcriptome analysis of activated sludge microbiomes reveals an unexpected role of minority nitrifiers in carbon metabolism. PMID:31098412
A Metagenomic Meta-analysis Reveals Functional Signatures of Health and Disease in the Human Gut Microbiome. PMID:31098399
Nutritional Modulation of Immune and Central Nervous System Homeostasis: The Role of Diet in Development of Neuroinflammation and Neurological Disease. PMID:31096592
International Cancer Microbiome Consortium consensus statement on the role of the human microbiome in carcinogenesis. PMID:31092590
Impact of Gut Microbiota Composition on Onset and Progression of Chronic Non-Communicable Diseases. PMID:31091761
Exposure of the Host-Associated Microbiome to Nutrient-Rich Conditions May Lead to Dysbiosis and Disease Development-an Evolutionary Perspective. PMID:31088923
A complex human gut microbiome cultured in an anaerobic intestine-on-a-chip. PMID:31086325
Microbiome and colorectal cancer: Roles in carcinogenesis and clinical potential. PMID:31082399
The significance of microbiome in personalized medicine. PMID:31081530
[Psoriasis and the microbiome]. PMID:31076813
Bacteriophages of the lower urinary tract. PMID:31073244
Implications of the Westernized Diet in the Onset and Progression of IBD. PMID:31072001
Bacteroides-Derived Sphingolipids Are Critical for Maintaining Intestinal Homeostasis and Symbiosis. PMID:31071294
Do Interactions Between Environmental Chemicals and the Human Microbiome Need to Be Considered in Risk Assessments? PMID:31070803
Anti-inflammatory Gut Microbial Pathways Are Decreased During Crohn's Disease Exacerbations. PMID:31066440
Fecal Microbiome, Metabolites, and Stem Cell Transplant Outcomes: A Single-Center Pilot Study. PMID:31065565
Strong Multivariate Relations Exist Among Milk, Oral, and Fecal Microbiomes in Mother-Infant Dyads During the First Six Months Postpartum. PMID:31063198
Longitudinal homogenization of the microbiome between both occupants and the built environment in a cohort of United States Air Force Cadets. PMID:31046835
Laryngotracheal Microbiota in Adult Laryngotracheal Stenosis. PMID:31043518
Retrieving forensic information about the donor through bacterial profiling. PMID:31041503
Systems biology in inflammatory bowel diseases: on the way to precision medicine. PMID:31040620
Restoration of Bacterial Microbiome Composition and Diversity Among Treatment Responders in a Phase 2 Trial of RBX2660: An Investigational Microbiome Restoration Therapeutic. PMID:31024971
The Gut Microbiota-Host Partnership as a Potential Driver of Kawasaki Syndrome. PMID:31024869
Gender-Specific Associations Between Saliva Microbiota and Body Size. PMID:31024514
The Spectrum of Interactions between Cryptococcus neoformans and Bacteria. PMID:31013706
Production of a Functional Factor, p40, by Lactobacillus rhamnosus GG Is Promoted by Intestinal Epithelial Cell-Secreted Extracellular Vesicles. PMID:31010817
Diversification and Evolution of Vancomycin-Resistant Enterococcus faecium during Intestinal Domination. PMID:31010813
The role of intestinal microbiota in the pathogenesis of colorectal carcinoma. PMID:31001762
Impact of polyols on Oral microbiome of Estonian schoolchildren. PMID:30999906
Bacterial community structure and function distinguish gut sites in captive red-shanked doucs (Pygathrix nemaeus). PMID:30997937
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
Health, ecology and the microbiome. PMID:30994455
Non-host class II ribonucleotide reductase in Thermus viruses: sequence adaptation and host interaction. PMID:30993041
Diversity of nasal microbiota and its interaction with surface microbiota among residents in healthcare institutes. PMID:30992494
Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease. PMID:30992349
Annotated bacterial chromosomes from frame-shift-corrected long-read metagenomic data. PMID:30992083
Unprecedented bacterial community richness in soybean nodules vary with cultivar and water status. PMID:30992078
High intake of dietary fructose in overweight/obese teenagers associated with depletion of Eubacterium and Streptococcus in gut microbiome. PMID:30991877
Host⁻MicroRNA⁻Microbiota Interactions in Colorectal Cancer. PMID:30987065
The cervical microbiota in reproductive-age South African women with and without human papillomavirus infection. PMID:30986570
Early-life vancomycin treatment promotes airway inflammation and impairs microbiome homeostasis. PMID:30981206
SolidBin: improving metagenome binning with semi-supervised normalized cut. PMID:30977806
The NASA Twins Study: A multidimensional analysis of a year-long human spaceflight. PMID:30975860
Klebsiella and Providencia emerge as lone survivors following long-term starvation of oral microbiota. PMID:30975748
Scalp bacterial shift in Alopecia areata. PMID:30973913
ENIGMA: an enterotype-like unigram mixture model for microbial association analysis. PMID:30967109
Cofactors of wheat-dependent exercise-induced anaphylaxis do not increase highly individual gliadin absorption in healthy volunteers. PMID:30962874
Blood Microbiome Profile in CKD : A Pilot Study. PMID:30962186
The Gut-Brain Axis, Paving the Way to Brain Cancer. PMID:30961828
Probiotics in Extraintestinal Diseases: Current Trends and New Directions. PMID:30959761
Forty-five-year evolution of probiotic therapy. PMID:30956971
Dysbiosis of Skin Microbiota in Psoriatic Patients: Co-occurrence of Fungal and Bacterial Communities. PMID:30949136
Neutral Processes Drive Seasonal Assembly of the Skin Mycobiome. PMID:30944878
Could the menagerie of the gut microbiome really cure cancer? Hope or hype. PMID:30940203
Hepatic glycogen storage diseases are associated to microbial dysbiosis. PMID:30939160
Identification and reconstruction of novel antibiotic resistance genes from metagenomes. PMID:30935407
Gut Microbiota, Host Organism, and Diet Trialogue in Diabetes and Obesity. PMID:30931309
Sex Differences in Gut Microbiota. PMID:30929328
Gut integrity in critical illness. PMID:30923621
Divergence in gut microbial communities mirrors a social group fission event in a black-and-white colobus monkey (Colobus vellerosus). PMID:30920682
Effects of phycocyanin in modulating the intestinal microbiota of mice. PMID:30912299
Scalable nonlinear programming framework for parameter estimation in dynamic biological system models. PMID:30908479
Gut Microbiota Composition and Blood Pressure. PMID:30905192
Allergic Comorbidity in Eosinophilic Esophagitis: Mechanistic Relevance and Clinical Implications. PMID:30903437
Differences in Systemic IgA Reactivity and Circulating Th Subsets in Healthy Volunteers With Specific Microbiota Enterotypes. PMID:30899257
Diversity-disease relationships and shared species analyses for human microbiome-associated diseases. PMID:30894688
Structural determinants of inhibition of Porphyromonas gingivalis gingipain K by KYT-36, a potent, selective, and bioavailable peptidase inhibitor. PMID:30894633
Assessing alignment-based taxonomic classification of ancient microbial DNA. PMID:30886779
At the forefront of psychoneuroimmunology in pregnancy: Implications for racial disparities in birth outcomes: PART 2: Biological mechanisms. PMID:30885813
Streaming histogram sketching for rapid microbiome analytics. PMID:30878035
Microbiome diurnal rhythmicity and its impact on host physiology and disease risk. PMID:30877136
Identification of Pathogenic Bacteria from Public Libraries via Proteomics Analysis. PMID:30875719
'Genome skimming' with the MinION hand-held sequencer identifies CITES-listed shark species in India's exports market. PMID:30872700
Dietary Nutrients Involved in One-Carbon Metabolism and Colonic Mucosa-Associated Gut Microbiome in Individuals with an Endoscopically Normal Colon. PMID:30871224
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
Detection of critical antibiotic resistance genes through routine microbiome surveillance. PMID:30870464
New insights from uncultivated genomes of the global human gut microbiome. PMID:30867587
Impact of a bathing tradition on shared gut microbe among Japanese families. PMID:30867524
The Use of Defined Microbial Communities To Model Host-Microbe Interactions in the Human Gut. PMID:30867232
Microbiome, Parkinson's Disease and Molecular Mimicry. PMID:30866550
A repository of microbial marker genes related to human health and diseases for host phenotype prediction using microbiome data. PMID:30864326
Biochemical but not compositional recovery of skin mucosal microbiome communities after disruption. PMID:30863123
Global Microbiome Diversity Scaling in Hot Springs With DAR (Diversity-Area Relationship) Profiles. PMID:30853941
Discovery of novel carbohydrate-active enzymes through the rational exploration of the protein sequences space. PMID:30850540
A Developing Symbiosis: Enabling Cross-Talk Between Ecologists and Microbiome Scientists. PMID:30842763
Compositional and Functional Differences between Microbiota and Cervical Carcinogenesis as Identified by Shotgun Metagenomic Sequencing. PMID:30841606
A coexistence theory in microbial communities. PMID:30839701
Oral Lactobacillus reuteri LR06 or Bifidobacterium BL5b supplement do not produce analgesic effects on neuropathic and inflammatory pain in rats. PMID:30839179
Microbiome diversity in carriers of fluoroquinolone resistant Escherichia coli. PMID:30838339
Impact of Preservation Method and 16S rRNA Hypervariable Region on Gut Microbiota Profiling. PMID:30834331
Microbial abundance, activity and population genomic profiling with mOTUs2. PMID:30833550
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
Influences on allergic mechanisms through gut, lung, and skin microbiome exposures. PMID:30830878
Type VI Secretion Systems and the Gut Microbiota. PMID:30825301
CRISPRs for Strain Tracking and Their Application to Microbiota Transplantation Data Analysis. PMID:30820491
New approaches for metagenome assembly with short reads. PMID:30815668
A review of 10 years of human microbiome research activities at the US National Institutes of Health, Fiscal Years 2007-2016. PMID:30808411
Lactobacillus plantarum PFM 105 Promotes Intestinal Development Through Modulation of Gut Microbiota in Weaning Piglets. PMID:30804899
Systematic Review of Gut Microbiota and Major Depression. PMID:30804820
THREE AUTHORS REPLY. PMID:30801631
Short-Time Antibacterial Effects of Dimethylaminododecyl Methacrylate on Oral Multispecies Biofilm In Vitro. PMID:30800673
Histopathological Features and Composition of Gut Microbiota in Rhesus Monkey of Alcoholic Liver Disease. PMID:30800107
Fight them or feed them: how the intestinal mucus layer manages the gut microbiota. PMID:30792861
The founder hypothesis: A basis for microbiota resistance, diversity in taxa carriage, and colonization resistance against pathogens. PMID:30789972
Evaluation of a stepwise approach using microbiota analysis, species-specific qPCRs and culture for the diagnosis of lower respiratory tract infections. PMID:30788730
The gut microbiome from patients with schizophrenia modulates the glutamate-glutamine-GABA cycle and schizophrenia-relevant behaviors in mice. PMID:30775438
Methods for Studying Gut Microbiota: A Primer for Physicians. PMID:30774267
Rare gut microbiota associated with breeding success, hormone metabolites and ovarian cycle phase in the critically endangered eastern black rhino. PMID:30770764
A new genomic blueprint of the human gut microbiota. PMID:30745586
Metaproteomics reveals persistent and phylum-redundant metabolic functional stability in adult human gut microbiomes of Crohn's remission patients despite temporal variations in microbial taxa, genomes, and proteomes. PMID:30744677
The Relationship between Platelet Count and Host Gut Microbiota: A Population-Based Retrospective Cross-Sectional Study. PMID:30744195
The biodiversity Composition of Microbiome in Ovarian Carcinoma Patients. PMID:30737418
Skin Microbiota in Contact Sports Athletes and Selection of Antiseptics for Professional Hygiene. PMID:30733970
Gut microbiota community characteristics and disease-related microorganism pattern in a population of healthy Chinese people. PMID:30733472
Separating host and microbiome contributions to drug pharmacokinetics and toxicity. PMID:30733391
Available energy fluxes drive a transition in the diversity, stability, and functional structure of microbial communities. PMID:30721227
Different Munc18 proteins mediate baseline and stimulated airway mucin secretion. PMID:30721150
The Super-Donor Phenomenon in Fecal Microbiota Transplantation. PMID:30719428
The application of omics techniques to understand the role of the gut microbiota in inflammatory bowel disease. PMID:30719076
A human gut bacterial genome and culture collection for improved metagenomic analyses. PMID:30718869
Convergent gene losses illuminate metabolic and physiological changes in herbivores and carnivores. PMID:30718421
Potential Role for the Gut Microbiota in Modulating Host Circadian Rhythms and Metabolic Health. PMID:30709031
RedCom: A strategy for reduced metabolic modeling of complex microbial communities and its application for analyzing experimental datasets from anaerobic digestion. PMID:30707687
Intestinal Morphologic and Microbiota Responses to Dietary Bacillus spp. in a Broiler Chicken Model. PMID:30705639
Microbiota-nourishing Immunity and Its Relevance for Ulcerative Colitis. PMID:30698700
The unique composition of Indian gut microbiome, gene catalogue, and associated fecal metabolome deciphered using multi-omics approaches. PMID:30698687
Antarctic Krill Are Reservoirs for Distinct Southern Ocean Microbial Communities. PMID:30697197
Urogenital schistosomiasis is associated with signatures of microbiome dysbiosis in Nigerian adolescents. PMID:30696838
iVikodak-A Platform and Standard Workflow for Inferring, Analyzing, Comparing, and Visualizing the Functional Potential of Microbial Communities. PMID:30692979
The Microbiome Stress Project: Toward a Global Meta-Analysis of Environmental Stressors and Their Effects on Microbial Communities. PMID:30687263
A Fungal World: Could the Gut Mycobiome Be Involved in Neurological Disease? PMID:30687254
The Microbiome-Host Interaction as a Potential Driver of Anastomotic Leak. PMID:30684121
The role of chronic kidney disease-associated dysbiosis in cardiovascular disease. PMID:30682892
Outer Membrane Vesicle-Host Cell Interactions. PMID:30681067
A longitudinal assessment of host-microbe-parasite interactions resolves the zebrafish gut microbiome's link to Pseudocapillaria tomentosa infection and pathology. PMID:30678738
Through the Microbial Looking Glass: Premature Labor, Preeclampsia, and Gestational Diabetes: A Scoping Review. PMID:30676461
Taxonomic profiling and populational patterns of bacterial bile salt hydrolase (BSH) genes based on worldwide human gut microbiome. PMID:30674356
A Comparison of Homogenization vs. Enzymatic Lysis for Microbiome Profiling in Clinical Endoscopic Biopsy Tissue Samples. PMID:30671046
Role of the microbiome in human development. PMID:30670574
Juvenile Idiopathic Arthritis and the Gut Microbiome: More Clues, More Questions. PMID:30667170
Population structure of human gut bacteria in a diverse cohort from rural Tanzania and Botswana. PMID:30665461
Bacteroides ovatus ATCC 8483 monotherapy is superior to traditional fecal transplant and multi-strain bacteriotherapy in a murine colitis model. PMID:30663928
Organ transplantation and gut microbiota: current reviews and future challenges. PMID:30662590
Extensive Unexplored Human Microbiome Diversity Revealed by Over 150,000 Genomes from Metagenomes Spanning Age, Geography, and Lifestyle. PMID:30661755
Deciphering the effect of reproductive tract microbiota on human reproduction. PMID:30655720
Association between rhinovirus species and nasopharyngeal microbiota in infants with severe bronchiolitis. PMID:30654045
HMP16SData: Efficient Access to the Human Microbiome Project Through Bioconductor. PMID:30649166
Effects of HIV viremia on the gastrointestinal microbiome of young MSM. PMID:30649052
Metagenomic engineering of the mammalian gut microbiome in situ. PMID:30643213
Comparative metagenomic and metatranscriptomic analyses reveal the breed effect on the rumen microbiome and its associations with feed efficiency in beef cattle. PMID:30642389
Recent Advances on Microbiota Involvement in the Pathogenesis of Autoimmunity. PMID:30642013
The microbiota-gut-brain axis: A promising avenue to foster healthy developmental outcomes. PMID:30640409
Serum Metabolome Is Associated With the Nasopharyngeal Microbiota and Disease Severity Among Infants With Bronchiolitis. PMID:30629185
Microbial embryonal colonization during pipefish male pregnancy. PMID:30626884
Cross-Domain and Viral Interactions in the Microbiome. PMID:30626617
Role of Dietary Lipids in Modulating Inflammation through the Gut Microbiota. PMID:30626117
Comparison of the nasopharynx microbiome between influenza and non-influenza cases of severe acute respiratory infections: A pilot study. PMID:30623080
Assessment of urban microbiome assemblies with the help of targeted in silico gold standards. PMID:30621760
Gut Microbial Metabolism and Nonalcoholic Fatty Liver Disease. PMID:30619992
The Predictive Potentiality of Salivary Microbiome for the Recurrence of Early Childhood Caries. PMID:30619773
Modeling the Role of the Microbiome in Evolution. PMID:30618841
Canine endometrial and vaginal microbiomes reveal distinct and complex ecosystems. PMID:30615657
Probiotics, prebiotics and amelioration of diseases. PMID:30609922
Tantalizing dilemma in risk prediction from disease scoring statistics. PMID:30605512
Libra: scalable k-mer-based tool for massive all-vs-all metagenome comparisons. PMID:30597002
Higher Fecal Short-Chain Fatty Acid Levels Are Associated with Gut Microbiome Dysbiosis, Obesity, Hypertension and Cardiometabolic Disease Risk Factors. PMID:30591685
Genetic diversity of Escherichia coli in gut microbiota of patients with Crohn's disease discovered using metagenomic and genomic analyses. PMID:30587114
Multiomic Strategies Reveal Diversity and Important Functional Aspects of Human Gut Microbiome. PMID:30584534
Differences in the lower airway microbiota of infants with and without cystic fibrosis. PMID:30580994
Composition of the intestinal microbiota in extended-spectrum β-lactamase-producing Enterobacteriaceae carriers and non-carriers in Thailand. PMID:30578963
Inherited nongenetic influences on the gut microbiome and immune system. PMID:30576093
Assessing the Influence of Dietary History on Gut Microbiota. PMID:30569322
A paradigm shift for the prevention and treatment of individual and global obesity. PMID:30568473
Potential of Omega-3 Polyunsaturated Fatty Acids in Managing Chemotherapy- or Radiotherapy-Related Intestinal Microbial Dysbiosis. PMID:30566596
Establishment and Development of Oral Microflora in 12-24 Month-Old Toddlers Monitored by High-Throughput Sequencing. PMID:30564560
Inhibiting antibiotic-resistant Enterobacteriaceae by microbiota-mediated intracellular acidification. PMID:30563917
The impact of intestinal microbiota on bio-medical research: definitions, techniques and physiology of a "new frontier". PMID:30561396
Microbiome characterization by high-throughput transfer RNA sequencing and modification analysis. PMID:30559359
Integrating tumor genomics into studies of the microbiome in colorectal cancer. PMID:30556775
The microbiome in asthma: Role in pathogenesis, phenotype, and response to treatment. PMID:30552986
Comparative analysis of the intestinal bacterial community and expression of gut immunity genes in the Chinese Mitten Crab (Eriocheir sinensis). PMID:30547243
Traumatic Brain Injury in Mice Induces Acute Bacterial Dysbiosis Within the Fecal Microbiome. PMID:30546361
Precision nutrition: hype or hope for public health interventions to reduce obesity? PMID:30544190
Microbiota in cancer development and treatment. PMID:30542789
Roles of the mitochondrial genetics in cancer metastasis: not to be ignored any longer. PMID:30542781
Reassessment of Routine Midstream Culture in Diagnosis of Urinary Tract Infection. PMID:30541935
Impact of Individual Traits, Saturated Fat, and Protein Source on the Gut Microbiome. PMID:30538180
Effects of short-term endurance exercise on gut microbiota in elderly men. PMID:30536648
Recent Advancements in Intestinal Microbiota Analyses: A Review for Non-Microbiologists. PMID:30536055
New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract. PMID:30534599
Diverse Distribution of Resistomes in the Human and Environmental Microbiomes. PMID:30532649
Proteotyping bacteria: Characterization, differentiation and identification of pneumococcus and other species within the Mitis Group of the genus Streptococcus by tandem mass spectrometry proteomics. PMID:30532202
Microbial dysbiosis and mortality during mechanical ventilation: a prospective observational study. PMID:30526610
Mechanisms Underlying Microbial-Mediated Changes in Social Behavior in Mouse Models of Autism Spectrum Disorder. PMID:30522820
Uncovering complex microbiome activities via metatranscriptomics during 24 hours of oral biofilm assembly and maturation. PMID:30522530
Citizen science charts two major "stomatotypes" in the oral microbiome of adolescents and reveals links with habits and drinking water composition. PMID:30522523
Cordycepin reduces weight through regulating gut microbiota in high-fat diet-induced obese rats. PMID:30522511
Composition and Comparison of the Ocular Surface Microbiome in Infants and Older Children. PMID:30519501
Therapeutic faecal microbiota transplantation controls intestinal inflammation through IL10 secretion by immune cells. PMID:30518790
Cohort profile: the Buffalo OsteoPerio microbiome prospective cohort study. PMID:30518590
A Pilot Study: Changes of Gut Microbiota in Post-surgery Colorectal Cancer Patients. PMID:30515141
Gut microbiota diversity across ethnicities in the United States. PMID:30513082
Microbial monotherapy with Prevotella histicola for patients with multiple sclerosis. PMID:30513004
Microbiota-driven interleukin-17-producing cells and eosinophils synergize to accelerate multiple myeloma progression. PMID:30510245
Mycoplasma promotes malignant transformation in vivo, and its DnaK, a bacterial chaperone protein, has broad oncogenic properties. PMID:30509983
Impact of occupational exposure on human microbiota. PMID:30507717
The microbiome and chronic rhinosinusitis. PMID:30506054
Qualitative and Quantitative DNA- and RNA-Based Analysis of the Bacterial Stomach Microbiota in Humans, Mice, and Gerbils. PMID:30505943
Respiratory Viral Infection-Induced Microbiome Alterations and Secondary Bacterial Pneumonia. PMID:30505304
Sex, Microbes, and Polycystic Ovary Syndrome. PMID:30503354
School environmental contamination of methicillin-sensitive Staphylococcus aureus as an independent risk factor for nasal colonization in schoolchildren: An observational, cross-sectional study. PMID:30500843
Effects of proton pump inhibitor on the human gut microbiome profile in multi-ethnic groups in Singapore. PMID:30488079
A view to a kill? - Ambient bacterial load of frames and lenses of spectacles and evaluation of different cleaning methods. PMID:30485312
Thanatomicrobiome composition profiling as a tool for forensic investigation. PMID:30483658
Risk of small intestinal bacterial overgrowth in patients receiving proton pump inhibitors versus proton pump inhibitors plus prokinetics. PMID:30483563
Comparison of Microbiota Variation in Korean Healthy Adolescents with Adults Suggests Notable Maturity Differences. PMID:30481125
Expansive microbial metabolic versatility and biodiversity in dynamic Guaymas Basin hydrothermal sediments. PMID:30479325
Use of next generation sequencing to investigate the microbiota of experimentally induced wounds and the effect of bandaging in horses. PMID:30475922
Virome biogeography in the lower gastrointestinal tract of rhesus macaques with chronic diarrhea. PMID:30468938
The prevalence and transcriptional activity of the mucosal microbiota of ulcerative colitis patients. PMID:30467421
[Prevention of infectious diseases through microecology modulation techniques]. PMID:30465353
Impact of Amoxicillin-Clavulanate followed by Autologous Fecal Microbiota Transplantation on Fecal Microbiome Structure and Metabolic Potential. PMID:30463925
Second-generation antipsychotics and metabolism alterations: a systematic review of the role of the gut microbiome. PMID:30460516
Metabolic functions of the human gut microbiota: the role of metalloenzymes. PMID:30452039
Taxonomic classification for microbiome analysis, which correlates well with the metabolite milieu of the gut. PMID:30445918
Polyphenols and Tryptophan Metabolites Activate the Aryl Hydrocarbon Receptor in an in vitro Model of Colonic Fermentation. PMID:30443985
Gut microbes modulate host response to immune checkpoint inhibitor cancer immunotherapy. PMID:30443490
Characterization of human breast tissue microbiota from core needle biopsies through the analysis of multi hypervariable 16S-rRNA gene regions. PMID:30442969
Metagenomics-Based, Strain-Level Analysis of Escherichia coli From a Time-Series of Microbiome Samples From a Crohn's Disease Patient. PMID:30425690
Gastroduodenal "Dysbiosis": a New Clinical Entity. PMID:30421297
Reassessing the Role of Entamoeba gingivalis in Periodontitis. PMID:30420943
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
HumanNet v2: human gene networks for disease research. PMID:30418591
Interactive Visualization of Hierarchically Structured Data. PMID:30416327
Functional eubacteria species along with trans-domain gut inhabitants favour dysgenic diversity in oxalate stone disease. PMID:30413731
GutLogo: Agent-based modeling framework to investigate spatial and temporal dynamics in the gut microbiome. PMID:30412640
Dietary metabolism, the gut microbiome, and heart failure. PMID:30410105
Visualization-assisted binning of metagenome assemblies reveals potential new pathogenic profiles in idiopathic travelers' diarrhea. PMID:30409177
Considerations When Designing a Microbiome Study: Implications for Nursing Science. PMID:30409024
Microbiomes Associated With Foods From Plant and Animal Sources. PMID:30405589
Candida Interactions with the Oral Bacterial Microbiota. PMID:30400279
First Insights into the Gut Microbiota of Mexican Patients with Celiac Disease and Non-Celiac Gluten Sensitivity. PMID:30400238
DAR (diversity-area relationship): Extending classic SAR (species-area relationship) for biodiversity and biogeography analyses. PMID:30397444
Probiotics Can Break the Toxic Relationship Between the Intestinal Microbiome and the Kidney. PMID:30390235
Is It Time to Use Probiotics to Prevent or Treat Obesity? PMID:30388851
Safety and preliminary efficacy of orally administered lyophilized fecal microbiota product compared with frozen product given by enema for recurrent Clostridium difficile infection: A randomized clinical trial. PMID:30388112
New insights on atherosclerosis: A cross-talk between endocannabinoid systems with gut microbiota. PMID:30386532
Development of the Pediatric Gut Microbiome: Impact on Health and Disease. PMID:30384950
Microbial architecture of pregnant women: A culture independent pilot study. PMID:30381547
Does Modification of the Large Intestinal Microbiome Contribute to the Anti-Inflammatory Activity of Fermentable Fiber? PMID:30377676
Species-level functional profiling of metagenomes and metatranscriptomes. PMID:30377376
Lack of detection of a human placenta microbiome in samples from preterm and term deliveries. PMID:30376898
Suboptimal community growth mediated through metabolite crossfeeding promotes species diversity in the gut microbiota. PMID:30376571
LogMPIE, pan-India profiling of the human gut microbiome using 16S rRNA sequencing. PMID:30375992
Association between Neutrophil-to-Lymphocyte Ratio and Gut Microbiota in a Large Population: a Retrospective Cross-Sectional Study. PMID:30375452
Fusobacterium and Colorectal Cancer. PMID:30374420
Tissue-resident MAIT cell populations in human oral mucosa exhibit an activated profile and produce IL-17. PMID:30372518
The Microbiome and Preterm Birth: A Change in Paradigm with Profound Implications for Pathophysiologic Concepts and Novel Therapeutic Strategies. PMID:30370305
Neonatal gut and respiratory microbiota: coordinated development through time and space. PMID:30367675
Temporal development of the gut microbiome in early childhood from the TEDDY study. PMID:30356187
Association of dietary fibre intake and gut microbiota in adults. PMID:30355393
Ecologically informed microbial biomarkers and accurate classification of mixed and unmixed samples in an extensive cross-study of human body sites. PMID:30355348
Honey bees as models for gut microbiota research. PMID:30353179
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
A diversity-generating retroelement encoded by a globally ubiquitous Bacteroides phage. PMID:30352623
Staphylococcus aureus Nasal Colonization: An Update on Mechanisms, Epidemiology, Risk Factors, and Subsequent Infections. PMID:30349525
Diversity of macaque microbiota compared to the human counterparts. PMID:30349024
The effect of the stress hormone cortisol on the metatranscriptome of the oral microbiome. PMID:30345066
Competitive lottery-based assembly of selected clades in the human gut microbiome. PMID:30340536
Microbial and Nutritional Programming-The Importance of the Microbiome and Early Exposure to Potential Food Allergens in the Development of Allergies. PMID:30340391
Two novel temperate bacteriophages infecting Streptococcus pyogenes: Their genomes, morphology and stability. PMID:30339682
The microbiome of Crohn's disease aphthous ulcers. PMID:30337963
A Comparison of Techniques for Collecting Skin Microbiome Samples: Swabbing Versus Tape-Stripping. PMID:30333815
A most wanted list of conserved microbial protein families with no known domains. PMID:30332487
The Digestive Health among Participants of the Woodstock Rock Festival in Poland-A Cross-Sectional Survey. PMID:30326654
Proinflammatory Sulfur-Reducing Bacteria Are More Abundant in Colonic Biopsies of Patients with Microscopic Colitis Compared to Healthy Controls. PMID:30324555
Vitamin D and the gut microbiome: a systematic review of in vivo studies. PMID:30324342
High-quality genome sequences of uncultured microbes by assembly of read clouds. PMID:30320765
Daily HIV pre-exposure prophylaxis (PrEP) with tenofovir disoproxil fumarate-emtricitabine reduced Streptococcus and increased Erysipelotrichaceae in rectal microbiota. PMID:30315206
Antenatal Microbial Colonization of Mammalian Gut. PMID:30309297
Microbiota and Phage Therapy: Future Challenges in Medicine. PMID:30301167
Rhizosphere microbiome structure alters to enable wilt resistance in tomato. PMID:30295674
Transkingdom network reveals bacterial players associated with cervical cancer gene expression program. PMID:30294508
Modeling microbial communities from atrazine contaminated soils promotes the development of biostimulation solutions. PMID:30291327
Evaluation of patient- versus provider-collected vaginal swabs for microbiome analysis during pregnancy. PMID:30290831
The metabolomic quest for a biomarker in chronic kidney disease. PMID:30288265
The Effect of Gluten-Free Diet on Health and the Gut Microbiota Cannot Be Extrapolated from One Population to Others. PMID:30287726
Qiita: rapid, web-enabled microbiome meta-analysis. PMID:30275573
Glycan recognition at the saliva - oral microbiome interface. PMID:30274839
Gut-Brain Psychology: Rethinking Psychology From the Microbiota-Gut-Brain Axis. PMID:30271330
Air Pollution, Early Life Microbiome, and Development. PMID:30269309
Clinician Guide to Microbiome Testing. PMID:30267172
Metagenomic Insights into the Degradation of Resistant Starch by Human Gut Microbiota. PMID:30266729
On Controls in Ancient Microbiome Studies, and Microbial Resilience in Ancient Samples. PMID:30262781
Effects of Psychological, Environmental and Physical Stressors on the Gut Microbiota. PMID:30258412
The Gut Microbiota and Dysbiosis in Autism Spectrum Disorders. PMID:30251184
Investigation of Detection Limits and the Influence of DNA Extraction and Primer Choice on the Observed Microbial Communities in Drinking Water Samples Using 16S rRNA Gene Amplicon Sequencing. PMID:30245681
Microbiome 101: Studying, Analyzing, and Interpreting Gut Microbiome Data for Clinicians. PMID:30240894
The Human Mesenteric Lymph Node Microbiome Differentiates Between Crohn's Disease and Ulcerative Colitis. PMID:30239655
Bacterial Communities in the Womb During Healthy Pregnancy. PMID:30237795
The microbiome and inborn errors of metabolism: Why we should look carefully at their interplay? PMID:30235399
Emerging Developments in Microbiome and Microglia Research: Implications for Neurodevelopmental Disorders. PMID:30233586
The role of small intestinal bacterial overgrowth in cystic fibrosis: a randomized case-controlled clinical trial with rifaximin. PMID:30232597
Metagenomic analysis with strain-level resolution reveals fine-scale variation in the human pregnancy microbiome. PMID:30232199
Clinical impact of microbiome in patients with decompensated cirrhosis. PMID:30228776
Dynamics of microbial populations mediating biogeochemical cycling in a freshwater lake. PMID:30227897
Experimental evaluation of the importance of colonization history in early-life gut microbiota assembly. PMID:30226190
Actinomyces and Alimentary Tract Diseases: A Review of Its Biological Functions and Pathology. PMID:30225251
KERNEL-PENALIZED REGRESSION FOR ANALYSIS OF MICROBIOME DATA. PMID:30224943
Ceftriaxone Administration Disrupts Intestinal Homeostasis, Mediating Noninflammatory Proliferation and Dissemination of Commensal Enterococci. PMID:30224553
Altered Gut Microbiota in Type 2 Diabetes: Just a Coincidence? PMID:30215149
Second edition of SIMPAR's "Feed Your Destiny" workshop: the role of lifestyle in improving pain management. PMID:30214272
Metagenomic Approaches for Understanding New Concepts in Microbial Science. PMID:30211213
GePMI: A statistical model for personal intestinal microbiome identification. PMID:30210803
Epigenetic Mechanisms Link Maternal Diets and Gut Microbiome to Obesity in the Offspring. PMID:30210530
Captivity-Induced Changes in the Skin Microbial Communities of Hellbenders (Cryptobranchus alleganiensis). PMID:30209587
Insights into the Human Virome Using CRISPR Spacers from Microbiomes. PMID:30205462
Chronic fatigue syndrome patients have alterations in their oral microbiome composition and function. PMID:30204780
A Zero-inflated Beta-binomial Model for Microbiome Data Analysis. PMID:30197785
Consistent microbial dynamics and functional community patterns derived from first principles. PMID:30194430
Human defects in STAT3 promote oral mucosal fungal and bacterial dysbiosis. PMID:30185668
High-resolution ISR amplicon sequencing reveals personalized oral microbiome. PMID:30185233
Alteration of the cutaneous microbiome in psoriasis and potential role in Th17 polarization. PMID:30185226
Global spread of three multidrug-resistant lineages of Staphylococcus epidermidis. PMID:30177740
A two-stage hidden Markov model design for biomarker detection, with application to microbiome research. PMID:30174757
Challenges and Approaches in Microbiome Research: From Fundamental to Applied. PMID:30174681
Methods for automatic reference trees and multilevel phylogenetic placement. PMID:30169747
Aspects of Gut Microbiota and Immune System Interactions in Infectious Diseases, Immunopathology, and Cancer. PMID:30158926
Sketching the Human Microbiome Biogeography with DAR (Diversity-Area Relationship) Profiles. PMID:30155556
Bile Acids Activated Receptors Regulate Innate Immunity. PMID:30150987
16S rRNA Sequencing Reveals Relationship Between Potent Cellulolytic Genera and Feed Efficiency in the Rumen of Bulls. PMID:30147683
Comparative Analyses of the Digestive Tract Microbiota of New Guinean Passerine Birds. PMID:30147680
Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort. PMID:30139999
Human-origin probiotic cocktail increases short-chain fatty acid production via modulation of mice and human gut microbiome. PMID:30139941
Field-collected Triatoma sordida from central Brazil display high microbiota diversity that varies with regard to developmental stage and intestinal segmentation. PMID:30138419
Phylogenetic Clustering of Genes Reveals Shared Evolutionary Trajectories and Putative Gene Functions. PMID:30137329
Assessing and Interpreting the Within-Body Biogeography of Human Microbiome Diversity. PMID:30131772
A meta-analysis reveals the environmental and host factors shaping the structure and function of the shrimp microbiota. PMID:30128187
Determinants of the Nasal Microbiome: Pilot Study of Effects of Intranasal Medication Use. PMID:30128169
Identifying Vancomycin as an Effective Antibiotic for Killing Borrelia burgdorferi. PMID:30126963
Antibacterial soap use impacts skin microbial communities in rural Madagascar. PMID:30125279
Perspective: Fundamental Limitations of the Randomized Controlled Trial Method in Nutritional Research: The Example of Probiotics. PMID:30124741
Altered oral microbiota in chronic hepatitis B patients with different tongue coatings. PMID:30122883
Links between environment, diet, and the hunter-gatherer microbiome. PMID:30118385
Tuning of human MAIT cell activation by commensal bacteria species and MR1-dependent T-cell presentation. PMID:30115998
The activation of the oxidative stress response transcription factor SKN-1 in Caenorhabditis elegans by mitis group streptococci. PMID:30114261
Breast Cancer and Its Relationship with the Microbiota. PMID:30110974
Metagenomic Analysis of Bacteria, Fungi, Bacteriophages, and Helminths in the Gut of Giant Pandas. PMID:30108570
The gut microbiome as a driver of individual variation in cognition and functional behaviour. PMID:30104431
Growth tradeoffs produce complex microbial communities on a single limiting resource. PMID:30097583
Phylogeny-corrected identification of microbial gene families relevant to human gut colonization. PMID:30091981
Intestinal microbiota, chronic inflammation, and colorectal cancer. PMID:30090032
Human pharyngeal microbiota in age-related macular degeneration. PMID:30089174
From metagenomic data to personalized in silico microbiotas: predicting dietary supplements for Crohn's disease. PMID:30083388
Synthetic microbe communities provide internal reference standards for metagenome sequencing and analysis. PMID:30082706
Cargo transport shapes the spatial organization of a microbial community. PMID:30082394
CLOUD: a non-parametric detection test for microbiome outliers. PMID:30081949
Genetically Obese Human Gut Microbiota Induces Liver Steatosis in Germ-Free Mice Fed on Normal Diet. PMID:30079055
Emergent simplicity in microbial community assembly. PMID:30072533
Rapid gastrointestinal loss of Clostridial Clusters IV and XIVa in the ICU associates with an expansion of gut pathogens. PMID:30067768
The pulmonary microbiome: challenges of a new paradigm. PMID:30066739
Deep learning models for bacteria taxonomic classification of metagenomic data. PMID:30066629
Clinical translation of microbe-based therapies: Current clinical landscape and preclinical outlook. PMID:30065967
Drivers of Microbiome Biodiversity: A Review of General Rules, Feces, and Ignorance. PMID:30065092
BARM and BalticMicrobeDB, a reference metagenome and interface to meta-omic data for the Baltic Sea. PMID:30063227
Contribution of Host Defence Proteins and Peptides to Host-Microbiota Interactions in Chronic Inflammatory Lung Diseases. PMID:30060554
Complex Evolutionary History of Translation Elongation Factor 2 and Diphthamide Biosynthesis in Archaea and Parabasalids. PMID:30060184
Are microbiome studies ready for hypothesis-driven research? PMID:30059804
Characterizing Microbiome Dynamics - Flow Cytometry Based Workflows from Pure Cultures to Natural Communities. PMID:30059034
Metagenomic analysis of gut microbial communities from a Central Asian population. PMID:30056386
Types of tobacco consumption and the oral microbiome in the United Arab Emirates Healthy Future (UAEHFS) Pilot Study. PMID:30054546
Gut microbiota is associated with obesity and cardiometabolic disease in a population in the midst of Westernization. PMID:30054529
Risky business: linking Toxoplasma gondii infection and entrepreneurship behaviours across individuals and countries. PMID:30051870
Transcriptional signature primes human oral mucosa for rapid wound healing. PMID:30045979
Minor taxa in human skin microbiome contribute to the personal identification. PMID:30044822
Associations Between Nutrition, Gut Microbiome, and Health in A Novel Nonhuman Primate Model. PMID:30042392
Multiple stable states in microbial communities explained by the stable marriage problem. PMID:30022156
Evaluating the potential of residual Pap test fluid as a resource for the metaproteomic analysis of the cervical-vaginal microbiome. PMID:30022083
Network-based genetic investigation of virulence-associated phenotypes in methicillin-resistant Staphylococcus aureus. PMID:30018396
Establishing a mucosal gut microbial community in vitro using an artificial simulator. PMID:30016326
Microbiota Composition in Upper Respiratory Tracts of Healthy Children in Shenzhen, China, Differed with Respiratory Sites and Ages. PMID:30013985
The Associations between Biochemical and Microbiological Variables and Taste Differ in Whole Saliva and in the Film Lining the Tongue. PMID:30013981
Off-target effects of tribendimidine, tribendimidine plus ivermectin, tribendimidine plus oxantel-pamoate, and albendazole plus oxantel-pamoate on the human gut microbiota. PMID:30007544
Proteomics and pulse azidohomoalanine labeling of newly synthesized proteins: what are the potential applications? PMID:30005169
Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome. PMID:30001516
Reduced microbiome alpha diversity in young patients with ADHD. PMID:30001426
The Microbiological Memory, an Epigenetic Regulator Governing the Balance Between Good Health and Metabolic Disorders. PMID:29997595
Characterisation of the nasal microbiota in granulomatosis with polyangiitis. PMID:29997110
The short-term impact of probiotic consumption on the oral cavity microbiome. PMID:29992994
Interbacterial mechanisms of colonization resistance and the strategies pathogens use to overcome them. PMID:29988120
Shifts of Faecal Microbiota During Sporadic Colorectal Carcinogenesis. PMID:29985435
Tetz's theory and law of longevity. PMID:29978435
Non-nutritive sweeteners possess a bacteriostatic effect and alter gut microbiota in mice. PMID:29975731
Gut microbial diversity in two insectivorous bats: Insights into the effect of different sampling sources. PMID:29971963
Altered Intestinal Microbiota with Increased Abundance of Prevotella Is Associated with High Risk of Diarrhea-Predominant Irritable Bowel Syndrome. PMID:29967640
Characterization of Wild and Captive Baboon Gut Microbiota and Their Antibiotic Resistomes. PMID:29963641
Relationships Between Gastrointestinal Parasite Infections and the Fecal Microbiome in Free-Ranging Western Lowland Gorillas. PMID:29963018
Differential preservation of endogenous human and microbial DNA in dental calculus and dentin. PMID:29959351
Large-scale generation and analysis of filamentous fungal DNA barcodes boosts coverage for kingdom fungi and reveals thresholds for fungal species and higher taxon delimitation. PMID:29955203
Evolution of Salmonella within Hosts. PMID:29954653
MicroPheno: predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples. PMID:29950008
Gut microbiota components are associated with fixed airway obstruction in asthmatic patients living in the tropics. PMID:29941875
WHAM!: a web-based visualization suite for user-defined analysis of metagenomic shotgun sequencing data. PMID:29940835
Bacterial Methionine Metabolism Genes Influence Drosophila melanogaster Starvation Resistance. PMID:29934334
Using glycolysis enzyme sequences to inform Lactobacillus phylogeny. PMID:29932393
Pairing off: a bottom-up approach to the human gut microbiome. PMID:29930201
Conventional wastewater treatment and reuse site practices modify bacterial community structure but do not eliminate some opportunistic pathogens in reclaimed water. PMID:29929281
Gut microbiome in type 1 diabetes: A comprehensive review. PMID:29929213
Community interactions and spatial structure shape selection on antibiotic resistant lineages. PMID:29927925
Fifty Percent Human - how art brings us in touch with our microbial cohabitants. PMID:29927545
Differences in gut microbiota associated with age, sex, and stool consistency in healthy Japanese subjects. PMID:29926167
CoreProbe: A Novel Algorithm for Estimating Relative Abundance Based on Metagenomic Reads. PMID:29925824
Colorectal cancer mutational profiles correlate with defined microbial communities in the tumor microenvironment. PMID:29924794
YAMP: a containerized workflow enabling reproducibility in metagenomics research. PMID:29917068
Sex and strain dependent differences in mucosal immunology and microbiota composition in mice. PMID:29914546
Dose-Dependent Effects of Multispecies Probiotic Supplementation on the Lipopolysaccharide (LPS) Level and Cardiometabolic Profile in Obese Postmenopausal Women: A 12-Week Randomized Clinical Trial. PMID:29914095
The Diversity of Bacterial Lifestyles Hampers Bacteriophage Tenacity. PMID:29914064
Role of Microbiota in Sexually Dimorphic Immunity. PMID:29910797
Taxonomy-aware feature engineering for microbiome classification. PMID:29907097
Elementary Student Outreach Activity Demonstrating the Use of Phage Therapy Heroes to Combat Bacterial Infections. PMID:29904530
Accessing Bioactive Natural Products from the Human Microbiome. PMID:29902438
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
Spatial and Environmental Variation of the Human Hair Microbiota. PMID:29899411
IL-1R and MyD88 Contribute to the Absence of a Bacterial Microbiome on the Healthy Murine Cornea. PMID:29896179
The Human Virome Protein Cluster Database (HVPC): A Human Viral Metagenomic Database for Diversity and Function Annotation. PMID:29896176
The canine gut microbiome is associated with higher risk of gastric dilatation-volvulus and high risk genetic variants of the immune system. PMID:29889838
Current Insights in Microbiome Shifts in Sjogren's Syndrome and Possible Therapeutic Interventions. PMID:29881381
Comprehensive skin microbiome analysis reveals the uniqueness of human skin and evidence for phylosymbiosis within the class Mammalia. PMID:29871947
Identifying and Overcoming Threats to Reproducibility, Replicability, Robustness, and Generalizability in Microbiome Research. PMID:29871915
Mycobacterium tuberculosis: An Adaptable Pathogen Associated With Multiple Human Diseases. PMID:29868514
Stimulated and unstimulated saliva samples have significantly different bacterial profiles. PMID:29856779
Comparison of Oral Microbe Quantities from Tongue Samples and Subgingival Pockets. PMID:29853892
Interactions of Gut Microbiota, Endotoxemia, Immune Function, and Diet in Exertional Heatstroke. PMID:29850597
Intestinal microbiota enhances pancreatic carcinogenesis in preclinical models. PMID:29846515
The interplay between microbes and the immune response in inflammatory bowel disease. PMID:29806140
Microbial competition between Escherichia coli and Candida albicans reveals a soluble fungicidal factor. PMID:29796389
Microbial wars: Competition in ecological niches and within the microbiome. PMID:29796386
American Gut: an Open Platform for Citizen Science Microbiome Research. PMID:29795809
Novel human microbe-disease associations inference based on network consistency projection. PMID:29795313
The contribution of culturomics to the repertoire of isolated human bacterial and archaeal species. PMID:29793532
Maternal omega-3 fatty acids regulate offspring obesity through persistent modulation of gut microbiota. PMID:29793531
Fecal microbiota composition changes after a BW loss diet in Beagle dogs. PMID:29790949
Interplay between gut microbiota metabolism and inflammation in HIV infection. PMID:29789624
The concordance between upper and lower respiratory microbiota in children with Mycoplasma pneumoniae pneumonia. PMID:29789582
Poor feed efficiency in sheep is associated with several structural abnormalities in the community metabolic network of their ruminal microbes. PMID:29788417
Avian Influenza Virus Subtype H9N2 Affects Intestinal Microbiota, Barrier Structure Injury, and Inflammatory Intestinal Disease in the Chicken Ileum. PMID:29783653
Identifying Group-Specific Sequences for Microbial Communities Using Long k-mer Sequence Signatures. PMID:29774017
Large-scale patterning of living colloids for dynamic studies of neutrophil-microbe interactions. PMID:29770423
Using bugs as drugs: Microbial ecosystem therapeutics. PMID:29770104
Food Starch Structure Impacts Gut Microbiome Composition. PMID:29769378
Comparing Microbiome Sampling Methods in a Wild Mammal: Fecal and Intestinal Samples Record Different Signals of Host Ecology, Evolution. PMID:29765359
Discovery and characterization of a prevalent human gut bacterial enzyme sufficient for the inactivation of a family of plant toxins. PMID:29761785
Association between Fusobacterium nucleatum and colorectal cancer: Progress and future directions. PMID:29760804
The gut microbiota and the brain-gut-kidney axis in hypertension and chronic kidney disease. PMID:29760448
Analysis of Gut Microbiome and Diet Modification in Patients with Crohn's Disease. PMID:29756026
Microbiome-Immune Interactions and Liver Disease. PMID:29755735
Impact of a 3-Months Vegetarian Diet on the Gut Microbiota and Immune Repertoire. PMID:29755475
Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia. PMID:29743478
Profiling microbial strains in urban environments using metagenomic sequencing data. PMID:29743119
Compositional and Functional Differences in the Human Gut Microbiome Correlate with Clinical Outcome following Infection with Wild-Type Salmonella enterica Serovar Typhi. PMID:29739901
Microbiome Responses to an Uncontrolled Short-Term Diet Intervention in the Frame of the Citizen Science Project. PMID:29738477
Oral microbiomes: more and more importance in oral cavity and whole body. PMID:29736705
Microbiota epitope similarity either dampens or enhances the immunogenicity of disease-associated antigenic epitopes. PMID:29734356
Oral Bacterial and Fungal Microbiome Impacts Colorectal Carcinogenesis. PMID:29731748
A Large-Scale Comparative Metagenomic Study Reveals the Functional Interactions in Six Bloom-Forming Microcystis-Epibiont Communities. PMID:29731741
Urinary Virome Perturbations in Kidney Transplantation. PMID:29725592
The Role of the Gut Microbiome in Colorectal Cancer. PMID:29720905
SHI7 Is a Self-Learning Pipeline for Multipurpose Short-Read DNA Quality Control. PMID:29719872
Humans as holobionts: implications for prevention and therapy. PMID:29716650
Pharmacomicrobiomics: a novel route towards personalized medicine? PMID:29705929
Malaria and the Microbiome: A Systematic Review. PMID:29701835
Exposure to toxic metals triggers unique responses from the rat gut microbiota. PMID:29700420
Oral microbiota reveals signs of acculturation in Mexican American women. PMID:29694348
The Presence of Genotoxic and/or Pro-inflammatory Bacterial Genes in Gut Metagenomic Databases and Their Possible Link With Inflammatory Bowel Diseases. PMID:29692798
Gut Dysbiosis and Muscle Aging: Searching for Novel Targets against Sarcopenia. PMID:29686533
How human microbiome talks to health and disease. PMID:29682676
MEGAN-LR: new algorithms allow accurate binning and easy interactive exploration of metagenomic long reads and contigs. PMID:29678199
The Role of Gut Microbiota in Obesity and Type 2 and Type 1 Diabetes Mellitus: New Insights into "Old" Diseases. PMID:29673211
Dynamic Alterations in Salivary Microbiota Related to Dental Caries and Age in Preschool Children With Deciduous Dentition: A 2-Year Follow-Up Study. PMID:29670544
Heterogeneous ceramide distributions alter spatially resolved growth of Staphylococcus aureus on human stratum corneum. PMID:29669890
Rapid acquisition and model-based analysis of cell-free transcription-translation reactions from nonmodel bacteria. PMID:29666238
Human Gut Microbiota Predicts Susceptibility to Vibrio cholerae Infection. PMID:29659916
Oral Dysbiotic Communities and Their Implications in Systemic Diseases. PMID:29659479
Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity. PMID:29657970
Personal microbiome analysis improves student engagement and interest in Immunology, Molecular Biology, and Genomics undergraduate courses. PMID:29641525
A large-scale survey of the postmortem human microbiome, and its potential to provide insight into the living health condition. PMID:29636512
Deciphering viral presences: two novel partial giant viruses detected in marine metagenome and in a mine drainage metagenome. PMID:29636072
Surface display of PbrR on Escherichia coli and evaluation of the bioavailability of lead associated with engineered cells in mice. PMID:29632327
Characterizing oral microbial communities across dentition states and colonization niches. PMID:29631628
Exploring Linkages between Taxonomic and Functional Profiles of the Human Microbiome. PMID:29629420
Using Cultivated Microbial Communities To Dissect Microbiome Assembly: Challenges, Limitations, and the Path Ahead. PMID:29629414
Current State of Knowledge on Implications of Gut Microbiome for Surgical Conditions. PMID:29623674
Gut Microbiome Associates With Lipid-Lowering Effect of Rosuvastatin in Vivo. PMID:29623075
Modulations in the offspring gut microbiome are refractory to postnatal synbiotic supplementation among juvenile primates. PMID:29621980
The Vibrio cholerae type VI secretion system can modulate host intestinal mechanics to displace gut bacterial symbionts. PMID:29610339
Quantification of Human Microbiome Stability Over 6 Months: Implications for Epidemiologic Studies. PMID:29608646
In vitro co-cultures of human gut bacterial species as predicted from co-occurrence network analysis. PMID:29601608
From Network Analysis to Functional Metabolic Modeling of the Human Gut Microbiota. PMID:29600286
Metatranscriptomics and Amplicon Sequencing Reveal Mutualisms in Seagrass Microbiomes. PMID:29599758
The In Ovo Feeding Administration (Gallus Gallus)-An Emerging In Vivo Approach to Assess Bioactive Compounds with Potential Nutritional Benefits. PMID:29597266
[Recent achievements in the microbiological etiology of dental caries]. PMID:29595006
Skin Microbiomes of California Terrestrial Salamanders Are Influenced by Habitat More Than Host Phylogeny. PMID:29593686
Commensal orthologs of the human autoantigen Ro60 as triggers of autoimmunity in lupus. PMID:29593104
Allometry and Ecology of the Bilaterian Gut Microbiome. PMID:29588401
taxMaps: comprehensive and highly accurate taxonomic classification of short-read data in reasonable time. PMID:29588360
Enhancing the accuracy of next-generation sequencing for detecting rare and subclonal mutations. PMID:29576615
No effects without causes: the Iron Dysregulation and Dormant Microbes hypothesis for chronic, inflammatory diseases. PMID:29575574
Methodology challenges in studying human gut microbiota - effects of collection, storage, DNA extraction and next generation sequencing technologies. PMID:29572539
The Role of the Food Matrix and Gastrointestinal Tract in the assessment of biological properties of ingested engineered nanomaterials (iENMs): State of the science and knowledge gaps. PMID:29568810
Metagenomics Biomarkers Selected for Prediction of Three Different Diseases in Chinese Population. PMID:29568746
Linking Associations of Rare Low-Abundance Species to Their Environments by Association Networks. PMID:29563898
The impact of liposomal linolenic acid on gastrointestinal microbiota in mice. PMID:29563795
The Impact of Maltitol-Sweetened Chewing Gum on the Dental Plaque Biofilm Microbiota Composition. PMID:29559963
The influence of diet on anti-cancer immune responsiveness. PMID:29558948
Genomic and physiological analyses of an indigenous strain, Enterococcus faecium 17OM39. PMID:29556852
Studying microbial functionality within the gut ecosystem by systems biology. PMID:29556373
Extensive impact of non-antibiotic drugs on human gut bacteria. PMID:29555994
Species classifier choice is a key consideration when analysing low-complexity food microbiome data. PMID:29554948
Which experimental systems should we use for human microbiome science? PMID:29554085
Of Microbes and Minds: A Narrative Review on the Second Brain Aging. PMID:29552561
Species Level Description of the Human Ileal Bacterial Microbiota. PMID:29549283
BURRITO: An Interactive Multi-Omic Tool for Visualizing Taxa-Function Relationships in Microbiome Data. PMID:29545787
The Bacteroidetes Q-Rule: Pyroglutamate in Signal Peptidase I Substrates. PMID:29545777
The role of inflammation in temporal shifts in the inflammatory bowel disease mucosal microbiome. PMID:29543557
Systematic review: Gut microbiota in fecal samples and detection of colorectal neoplasms. PMID:29543545
A Lachnospiraceae-dominated bacterial signature in the fecal microbiota of HIV-infected individuals from Colombia, South America. PMID:29540734
Gut microbiota in adolescents and the association with fatty liver: the EPOCH study. PMID:29538359
The Biosynthesis of Lipooligosaccharide from Bacteroides thetaiotaomicron. PMID:29535205
FUT2 genotype and secretory status are not associated with fecal microbial composition and inferred function in healthy subjects. PMID:29533703
Bacterial growth, flow, and mixing shape human gut microbiota density and composition. PMID:29533125
Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis. PMID:29531234
Immunology of Uterine and Vaginal Mucosae: (Trends in Immunology 39, 302-314, 2018). PMID:29530651
Investigations on the interplays between Schistosoma mansoni, praziquantel and the gut microbiome. PMID:29530088
Synthetic Biology Approaches to Engineer Probiotics and Members of the Human Microbiota for Biomedical Applications. PMID:29528686
Gut microbiota and its implications in small bowel transplantation. PMID:29524068
Microbiome Dynamics in a Large Artificial Seawater Aquarium. PMID:29523545
Computational Sensing of Staphylococcus aureus on Contact Lenses Using 3D Imaging of Curved Surfaces and Machine Learning. PMID:29522316
Influence of Novel Highly Pathogenic Avian Influenza A (H5N1) Virus Infection on Migrating Whooper Swans Fecal Microbiota. PMID:29520341
Environmental and Host Effects on Skin Bacterial Community Composition in Panamanian Frogs. PMID:29520260
Sex differences in gut microbiota in patients with major depressive disorder. PMID:29520144
Gut Microbiome Composition Predicts Infection Risk During Chemotherapy in Children With Acute Lymphoblastic Leukemia. PMID:29518185
Inter-niche and inter-individual variation in gut microbial community assessment using stool, rectal swab, and mucosal samples. PMID:29515151
Organization of supragingival plaque at the micron scale. PMID:29503704
Taxa-function robustness in microbial communities. PMID:29499759
TRIM31 Deficiency Is Associated with Impaired Glucose Metabolism and Disrupted Gut Microbiota in Mice. PMID:29497383
Human milk oligosaccharides protect against the development of autoimmune diabetes in NOD-mice. PMID:29497108
Selective maternal seeding and environment shape the human gut microbiome. PMID:29496731
Plant-based diets and cardiovascular health. PMID:29496410
Gastrointestinal Transit Time, Glucose Homeostasis and Metabolic Health: Modulation by Dietary Fibers. PMID:29495569
The Ruminococci: key symbionts of the gut ecosystem. PMID:29492877
Body Mass Index and Sex Affect Diverse Microbial Niches within the Gut. PMID:29491857
Arginine Metabolism Is Altered in Adults with A-β + Ketosis-Prone Diabetes. PMID:29490093
Western Indian Rural Gut Microbial Diversity in Extreme Prakriti Endo-Phenotypes Reveals Signature Microbes. PMID:29487572
Creating a 3D microbial and chemical snapshot of a human habitat. PMID:29487294
Complete Genome Sequence and Genomic Characterization of Lactobacillus acidophilus LA1 (11869BP). PMID:29472862
Late-onset bleb-associated endophthalmitis and continuous positive airway pressure. PMID:29468205
Short-term Oral Antibiotics Treatment Promotes Inflammatory Activation of Colonic Invariant Natural Killer T and Conventional CD4+ T Cells. PMID:29468162
Gut microbiota: Beyond metagenomics, metatranscriptomics illuminates microbiome functionality in IBD. PMID:29463904
Dietary Fiber Treatment Corrects the Composition of Gut Microbiota, Promotes SCFA Production, and Suppresses Colon Carcinogenesis. PMID:29462896
A microbiome case-control study of recurrent acute otitis media identified potentially protective bacterial genera. PMID:29458340
A new piece in the microbiome puzzle. PMID:29456244
Possible correlation between gut microbiota and immunity among healthy middle-aged and elderly people in southwest China. PMID:29449892
Gut microbiota injury in allogeneic haematopoietic stem cell transplantation. PMID:29449660
Strain Tracking Reveals the Determinants of Bacterial Engraftment in the Human Gut Following Fecal Microbiota Transplantation. PMID:29447696
A spatial gradient of bacterial diversity in the human oral cavity shaped by salivary flow. PMID:29445174
Individual susceptibility to arsenic-induced diseases: the role of host genetics, nutritional status, and the gut microbiome. PMID:29429126
Dysbiosis of Inferior Turbinate Microbiota Is Associated with High Total IgE Levels in Patients with Allergic Rhinitis. PMID:29426044
Identification and Characterization of Blood and Neutrophil-Associated Microbiomes in Patients with Severe Acute Pancreatitis Using Next-Generation Sequencing. PMID:29423379
The Development of Microbiota and Metabolome in Small Intestine of Sika Deer (Cervus nippon) from Birth to Weaning. PMID:29410651
Overview and systematic review of studies of microbiome in schizophrenia and bipolar disorder. PMID:29407287
Modulators of mercury risk to wildlife and humans in the context of rapid global change. PMID:29388128
The Role of Lower Airway Dysbiosis in Asthma: Dysbiosis and Asthma. PMID:29386750
RUMINANT NUTRITION SYMPOSIUM: Tiny but mighty: the role of the rumen microbes in livestock production. PMID:29385535
Host genetic variation and its microbiome interactions within the Human Microbiome Project. PMID:29378630
Immunological roulette: Luck or something more? Considering the connections between host and environment in TB. PMID:29375129
The Role of Bacteria, Probiotics and Diet in Irritable Bowel Syndrome. PMID:29373532
Alterations of oral microbiota distinguish children with autism spectrum disorders from healthy controls. PMID:29371629
Metabolic Interactions between Bacteria and Fungi in Commensal Oral Biofilms. PMID:29371557
Upper Respiratory Symptoms, Gut Health and Mucosal Immunity in Athletes. PMID:29363055
Distinct Effects of Type I and III Interferons on Enteric Viruses. PMID:29361691
Prevalence and Source of Fecal and Oral Bacteria on Infant, Child, and Adult Hands. PMID:29359197
The modulatory effect of polyphenols from green tea, oolong tea and black tea on human intestinal microbiota in vitro. PMID:29358833
Modeling Host-Microbiome Interactions in Caenorhabditis elegans. PMID:29353922
ReprDB and panDB: minimalist databases with maximal microbial representation. PMID:29347966
Choosing non-redundant representative subsets of protein sequence data sets using submodular optimization. PMID:29345009
High-resolution microbiome profiling uncovers Fusobacterium nucleatum, Lactobacillus gasseri/johnsonii, and Lactobacillus vaginalis associated to oral and oropharyngeal cancer in saliva from HPV positive and HPV negative patients treated with surgery and chemo-radiation. PMID:29340028
The Starch Utilization System Assembles around Stationary Starch-Binding Proteins. PMID:29338841
Genomic repeats, misassembly and reannotation: a case study with long-read resequencing of Porphyromonas gingivalis reference strains. PMID:29338683
Adaptive immune education by gut microbiota antigens. PMID:29338074
Metatranscriptome of human faecal microbial communities in a cohort of adult men. PMID:29335555
Stability of the human faecal microbiome in a cohort of adult men. PMID:29335554
Oral Microbiome Characterization in Murine Models. PMID:29333479
Role of human microbiome and selected bacterial infections in the pathogenesis of rheumatoid arthritis. PMID:29332963
Soil contamination alters the willow root and rhizosphere metatranscriptome and the root-rhizosphere interactome. PMID:29330533
Nasopharyngeal Lactobacillus is associated with a reduced risk of childhood wheezing illnesses following acute respiratory syncytial virus infection in infancy. PMID:29330010
Regular Wounding in a Natural System: Bacteria Associated With Reproductive Organs of Bedbugs and Their Quorum Sensing Abilities. PMID:29326722
Catheter-associated urinary tract infections in persons with neurogenic bladders. PMID:29323625
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
Early-life gut microbiome and egg allergy. PMID:29318631
Microbiome and asthma. PMID:29318023
Natural Killer T Cells: An Ecological Evolutionary Developmental Biology Perspective. PMID:29312339
Fungal Microbiota in Chronic Airway Inflammatory Disease and Emerging Relationships with the Host Immune Response. PMID:29312187
Context-Dependent Requirements for FimH and Other Canonical Virulence Factors in Gut Colonization by Extraintestinal Pathogenic Escherichia coli. PMID:29311232
Metagenome Analysis of Bodily Microbiota in a Mouse Model of Alzheimer Disease Using Bacteria-derived Membrane Vesicles in Blood. PMID:29302204
Clinical efficacy of a topical lactic acid bacterial microbiome in chronic rhinosinusitis: A randomized controlled trial. PMID:29299516
Novel human microbe-disease association prediction using network consistency projection. PMID:29297304
Respiratory Syncytial Virus and Rhinovirus Bronchiolitis Are Associated With Distinct Metabolic Pathways. PMID:29293990
Zika virus infection modulates the bacterial diversity associated with Aedes aegypti as revealed by metagenomic analysis. PMID:29293631
Genome watch: Microbial diversity knows no borders. PMID:29292388
The human microbiome in evolution. PMID:29282061
Taxonomic differences of gut microbiomes drive cellulolytic enzymatic potential within hind-gut fermenting mammals. PMID:29281673
Strain profiling and epidemiology of bacterial species from metagenomic sequencing. PMID:29273717
3D molecular cartography using LC-MS facilitated by Optimus and 'ili software. PMID:29266099
Airway microbiome research: a modern perspective on surveillance cultures? PMID:29264362
Gut microbiota in 2017: Contribution of gut microbiota-host cooperation to drug efficacy. PMID:29259330
Enterotypes in the landscape of gut microbial community composition. PMID:29255284
Research Strategies for Nutritional and Physical Activity Epidemiology and Cancer Prevention. PMID:29254934
Alterations in oral bacterial communities are associated with risk factors for oral and oropharyngeal cancer. PMID:29247187
The Seagrass Holobiont and Its Microbiome. PMID:29244764
Gut microbiome: a new player in gastrointestinal disease. PMID:29243124
Colonic Butyrate-Producing Communities in Humans: an Overview Using Omics Data. PMID:29238752
Influence of Microbiota on Intestinal Immune System in Ulcerative Colitis and Its Intervention. PMID:29234327
Adjuvant Probiotics and the Intestinal Microbiome: Enhancing Vaccines and Immunotherapy Outcomes. PMID:29232932
Proteobacteria: A Common Factor in Human Diseases. PMID:29230419
Mapping the ecological networks of microbial communities. PMID:29229902
Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation. PMID:29227468
Impact of Omega-3 Fatty Acids on the Gut Microbiota. PMID:29215589
Hierarchical social networks shape gut microbial composition in wild Verreaux's sifaka. PMID:29212730
Hypoxia and inactivity related physiological changes precede or take place in absence of significant rearrangements in bacterial community structure: The PlanHab randomized trial pilot study. PMID:29211803
Effects of cosmetics on the skin microbiome of facial cheeks with different hydration levels. PMID:29193830
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
Aging Gut Microbiota at the Cross-Road between Nutrition, Physical Frailty, and Sarcopenia: Is There a Gut-Muscle Axis? PMID:29189738
Profiling of Oral Microbiota in Early Childhood Caries Using Single-Molecule Real-Time Sequencing. PMID:29187843
Experimental design and quantitative analysis of microbial community multiomics. PMID:29187204
A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients. PMID:29183332
Skin Immune Landscape: Inside and Outside the Organism. PMID:29180836
The gut mycobiome of the Human Microbiome Project healthy cohort. PMID:29178920
Diversity of bacterial communities on the facial skin of different age-group Thai males. PMID:29177119
2-Way k-Means as a Model for Microbiome Samples. PMID:29177026
Relationship between Gingival Crevicular Fluid Microbiota and Cytokine Profile in Periodontal Host Homeostasis. PMID:29163429
Preconception Prebiotic and Sitagliptin Treatment in Obese Rats Affects Pregnancy Outcomes and Offspring Microbiota, Adiposity, and Glycemia. PMID:29163369
Helicobacter pylori and gut microbiota in multiple sclerosis versus Alzheimer's disease: 10 pitfalls of microbiome studies. PMID:29158778
Fetal and preterm infant microbiomes: a new perspective of necrotizing enterocolitis. PMID:29158764
Computational Approaches for Integrative Analysis of the Metabolome and Microbiome. PMID:29156542
Total Lipopolysaccharide from the Human Gut Microbiome Silences Toll-Like Receptor Signaling. PMID:29152585
A dysbiotic mycobiome dominated by Candida albicans is identified within oral squamous-cell carcinomas. PMID:29152157
Environmental influences on the skin microbiome of humans and cattle in rural Madagascar. PMID:29147568
Body size phenotypes comprehensively assess cardiometabolic risk and refine the association between obesity and gut microbiota. PMID:29142244
High-dimensional linear state space models for dynamic microbial interaction networks. PMID:29141044
A Bayesian method for detecting pairwise associations in compositional data. PMID:29140991
Correlation of placental microbiota with fetal macrosomia and clinical characteristics in mothers and newborns. PMID:29137266
Microbial Ecology along the Gastrointestinal Tract. PMID:29129876
HOMINID: a framework for identifying associations between host genetic variation and microbiome composition. PMID:29126115
Enterococci and Their Interactions with the Intestinal Microbiome. PMID:29125098
Mouse models for human intestinal microbiota research: a critical evaluation. PMID:29124307
Subtle Microbiome Manipulation Using Probiotics Reduces Antibiotic-Associated Mortality in Fish. PMID:29124129
A Microbiomic Analysis in African Americans with Colonic Lesions Reveals Streptococcus sp.VT162 as a Marker of Neoplastic Transformation. PMID:29120399
Gut-Brain Axis in Regulation of Blood Pressure. PMID:29118721
Mucus models to evaluate the diffusion of drugs and particles. PMID:29117512
Microbial biotransformations in the human distal gut. PMID:29116650
Aligner optimization increases accuracy and decreases compute times in multi-species sequence data. PMID:29114401
Vitamin D Axis in Inflammatory Bowel Diseases: Role, Current Uses and Future Perspectives. PMID:29112157
Functional Genomics of Host-Microbiome Interactions in Humans. PMID:29107345
MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments. PMID:29106667
Human microbiome signatures of differential colorectal cancer drug metabolism. PMID:29104759
Prospective cohort study to investigate the burden and transmission of acute gastroenteritis in care homes: a study protocol. PMID:29102999
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
Skin and fur bacterial diversity and community structure on American southwestern bats: effects of habitat, geography and bat traits. PMID:29093998
Accessible, curated metagenomic data through ExperimentHub. PMID:29088129
The making of a miscreant: tobacco smoke and the creation of pathogen-rich biofilms. PMID:29081982
Gut microbiota's effect on mental health: The gut-brain axis. PMID:29071061
Pharmabiotics as an Emerging Medication for Metabolic Syndrome and Its Related Diseases. PMID:29064399
Linking the Gut Microbial Ecosystem with the Environment: Does Gut Health Depend on Where We Live? PMID:29056933
Polygala tenuifolia extract inhibits lipid accumulation in 3T3-L1 adipocytes and high-fat diet-induced obese mouse model and affects hepatic transcriptome and gut microbiota profiles. PMID:29056891
Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung. PMID:29056429
Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance. PMID:29056339
Gut microbiome alterations in Alzheimer's disease. PMID:29051531
Gut microbial diversity in HIV infection post combined antiretroviral therapy: a key target for prevention of cardiovascular disease. PMID:29045253
Amino acid supplements and metabolic health: a potential interplay between intestinal microbiota and systems control. PMID:29043007
Impact of Dietary Resistant Starch on the Human Gut Microbiome, Metaproteome, and Metabolome. PMID:29042495
Links of gut microbiota composition with alcohol dependence syndrome and alcoholic liver disease. PMID:29041989
Enrichment allows identification of diverse, rare elements in metagenomic resistome-virulome sequencing. PMID:29041965
Can the gastrointestinal microbiota be modulated by dietary fibre to treat obesity? PMID:29038988
Trios-promising in silico biomarkers for differentiating the effect of disease on the human microbiome network. PMID:29038470
Microbial Composition Predicts Genital Tract Inflammation and Persistent Bacterial Vaginosis in South African Adolescent Females. PMID:29038128
Prediction of microbe-disease association from the integration of neighbor and graph with collaborative recommendation model. PMID:29037244
A novel data structure to support ultra-fast taxonomic classification of metagenomic sequences with k-mer signatures. PMID:29036588
Extensive Core Microbiome in Drone-Captured Whale Blow Supports a Framework for Health Monitoring. PMID:29034331
High-Fat Diet Changes Fungal Microbiomes and Interkingdom Relationships in the Murine Gut. PMID:29034327
Refining low protein modular feeds for children on low protein tube feeds with organic acidaemias. PMID:29034175
Individual signatures and environmental factors shape skin microbiota in healthy dogs. PMID:29029635
Microbial translocation: translating simian immunodeficiency virus to HIV. PMID:29028666
Role of gut microbiota in aging-related health decline: insights from invertebrate models. PMID:29026921
Viral communities of the human gut: metagenomic analysis of composition and dynamics. PMID:29026445
Gut microbiome and its role in cardiovascular diseases. PMID:29023288
The commensal lifestyle of Staphylococcus aureus and its interactions with the nasal microbiota. PMID:29021598
Identification of 76 novel B1 metallo-β-lactamases through large-scale screening of genomic and metagenomic data. PMID:29020980
DNA sequencing at 40: past, present and future. PMID:29019985
A Massively Parallel Sequence Similarity Search for Metagenomic Sequencing Data. PMID:29019934
How diet can impact gut microbiota to promote or endanger health. PMID:29019865
The P/N (Positive-to-Negative Links) Ratio in Complex Networks-A Promising In Silico Biomarker for Detecting Changes Occurring in the Human Microbiome. PMID:29018902
Transfer and Persistence of a Multi-Drug Resistance Plasmid in situ of the Infant Gut Microbiota in the Absence of Antibiotic Treatment. PMID:29018426
The microbiome as a novel paradigm in studying stress and mental health. PMID:29016169
A GLM-based latent variable ordination method for microbiome samples. PMID:28991375
Microbiome-health interactions in older people. PMID:28986601
Biochemical Features of Beneficial Microbes: Foundations for Therapeutic Microbiology. PMID:28984235
Population-Genomic Insights into Variation in Prevotella intermedia and Prevotella nigrescens Isolates and Its Association with Periodontal Disease. PMID:28983469
Microbiota of Chronic Diabetic Wounds: Ecology, Impact, and Potential for Innovative Treatment Strategies. PMID:28983285
The gastric microbiome, its interaction with Helicobacter pylori, and its potential role in the progression to stomach cancer. PMID:28982167
Synthetic Biology and the Gut Microbiome. PMID:28976641
Evolution in fecal bacterial/viral composition in infants of two central African countries (Gabon and Republic of the Congo) during their first month of life. PMID:28968427
Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software. PMID:28967888
Towards standards for human fecal sample processing in metagenomic studies. PMID:28967887
Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium. PMID:28967885
Metagenomic assessment of the interplay between the environment and the genetic diversification of Acinetobacter. PMID:28967182
Modulation of the gut microbiota by prebiotic fibres and bacteriocins. PMID:28959178
Archaic Hominin Introgression in Africa Contributes to Functional Salivary MUC7 Genetic Variation. PMID:28957509
Clinical Relevance of Gastrointestinal Microbiota During Pregnancy: A Primer for Nurses. PMID:28954525
Strains, functions and dynamics in the expanded Human Microbiome Project. PMID:28953883
Complex Intratissue Microbiota Forms Biofilms in Periodontal Lesions. PMID:28945499
RNA-Seq Profiling of Intestinal Expression of Xenobiotic Processing Genes in Germ-Free Mice. PMID:28939687
Control of Clostridium difficile Infection by Defined Microbial Communities. PMID:28936948
Gut Dysbiosis in Animals Due to Environmental Chemical Exposures. PMID:28936425
DESMAN: a new tool for de novo extraction of strains from metagenomes. PMID:28934976
Forensic genetics and genomics: Much more than just a human affair. PMID:28934201
Comparison of the Microbiota of Older Adults Living in Nursing Homes and the Community. PMID:28932812
The Placental Microbiota Is Altered among Subjects with Gestational Diabetes Mellitus: A Pilot Study. PMID:28932201
Biochemical Mechanisms of Pathogen Restriction by Intestinal Bacteria. PMID:28927699
Tissue-Specific Immunity at the Oral Mucosal Barrier. PMID:28923364
Real-Time Metabolic Interactions between Two Bacterial Species Using a Carbon-Based pH Microsensor as a Scanning Electrochemical Microscopy Probe. PMID:28920437
Lactobacillus rhamnosus GG: An Overview to Explore the Rationale of Its Use in Cancer. PMID:28919861
Recent urbanization in China is correlated with a Westernized microbiome encoding increased virulence and antibiotic resistance genes. PMID:28915922
The Landscape of Type VI Secretion across Human Gut Microbiomes Reveals Its Role in Community Composition. PMID:28910638
Host Genetic Control of the Oral Microbiome in Health and Disease. PMID:28910633
Microbiota-derived uremic retention solutes: perpetrators of altered nonrenal drug clearance in kidney disease. PMID:28905671
Development of Inflammatory Bowel Disease Is Linked to a Longitudinal Restructuring of the Gut Metagenome in Mice. PMID:28904997
Evaluation of the Bacterial Diversity in the Human Tongue Coating Based on Genus-Specific Primers for 16S rRNA Sequencing. PMID:28904972
Targeted Metagenome Based Analyses Show Gut Microbial Diversity of Inflammatory Bowel Disease patients. PMID:28904415
Recent Advances in the Etiopathogenesis of Inflammatory Bowel Disease: The Role of Omics. PMID:28900867
The Human Salivary Microbiome Is Shaped by Shared Environment Rather than Genetics: Evidence from a Large Family of Closely Related Individuals. PMID:28900019
Microbial Disruption Indices to Detect Colonization With Multidrug-Resistant Organisms. PMID:28899445
Shotgun metagenomics, from sampling to analysis. PMID:28898207
Identification of a novel interspecific hybrid yeast from a metagenomic spontaneously inoculated beer sample using Hi-C. PMID:28892574
Host-microbe interaction in the gastrointestinal tract. PMID:28892253
Unraveling the human salivary microbiome diversity in Indian populations. PMID:28886168
Perilipin-2 modulates dietary fat-induced microbial global gene expression profiles in the mouse intestine. PMID:28877764
Aging-related changes in the diversity of women's skin microbiomes associated with oral bacteria. PMID:28874721
Complementary Methodologies To Investigate Human Gut Microbiota in Host Health, Working towards Integrative Systems Biology. PMID:28874411
Pre-pregnancy weight, gestational weight gain, and the gut microbiota of mothers and their infants. PMID:28870230
The intestinal microbiota: Antibiotics, colonization resistance, and enteric pathogens. PMID:28856737
Microbial Communities Associated with Primary and Metastatic Head and Neck Squamous Cell Carcinoma - A High Fusobacterial and Low Streptococcal Signature. PMID:28855542
Commensal bacteria make GPCR ligands that mimic human signalling molecules. PMID:28854168
Lactobacillus plantarum LP‑Onlly alters the gut flora and attenuates colitis by inducing microbiome alteration in interleukin‑10 knockout mice. PMID:28849048
The Human Microbiome in the Lung: Are Infections Contributing to Lung Health and Disease? PMID:28848868
Conservation of Species- and Trait-Based Modeling Network Interactions in Extremely Acidic Microbial Community Assembly. PMID:28848508
The oral microbiome and adverse pregnancy outcomes. PMID:28848365
Inactivated probiotic Bacillus coagulans GBI-30 induces complex immune activating, anti-inflammatory, and regenerative markers in vitro. PMID:28848360
The nasal and gut microbiome in Parkinson's disease and idiopathic rapid eye movement sleep behavior disorder. PMID:28843021
An Expanding Role for Environmental Microbes in Shaping the Immune Response to Infection with Mycobacterium tuberculosis. PMID:28841029
Ecological Therapeutic Opportunities for Oral Diseases. PMID:28840820
Seasonal cycling in the gut microbiome of the Hadza hunter-gatherers of Tanzania. PMID:28839072
Large-scale comparative metagenomics of Blastocystis, a common member of the human gut microbiome. PMID:28837129
Genetic influences on the human oral microbiome. PMID:28836939
New Frontiers in Genetics, Gut Microbiota, and Immunity: A Rosetta Stone for the Pathogenesis of Inflammatory Bowel Disease. PMID:28831399
Numerous uncharacterized and highly divergent microbes which colonize humans are revealed by circulating cell-free DNA. PMID:28830999
Practical considerations for large-scale gut microbiome studies. PMID:28830090
Microbial communities in the reef water at Kham Island, lower Gulf of Thailand. PMID:28828243
Intestinal colonisation patterns in breastfed and formula-fed infants during the first 12 weeks of life reveal sequential microbiota signatures. PMID:28827640
16S rRNA gene sequencing reveals site-specific signatures of the upper and lower airways of cystic fibrosis patients. PMID:28826586
Embracing the unknown: disentangling the complexities of the soil microbiome. PMID:28824177
Human genetic variation and the gut microbiome in disease. PMID:28824167
Fusobacterium nucleatum as a prognostic marker of colorectal cancer in a Japanese population. PMID:28823057
Regulation of autoimmune myocarditis by host responses to the microbiome. PMID:28822770
Microbiota dysbiosis in select human cancers: Evidence of association and causality. PMID:28822617
Type 1 Diabetes: Urinary Proteomics and Protein Network Analysis Support Perturbation of Lysosomal Function. PMID:28819457
Influence of film mulching on soil microbial community in a rainfed region of northeastern China. PMID:28814759
The Potential for Emerging Microbiome-Mediated Therapeutics in Asthma. PMID:28812256
Fluoride Depletes Acidogenic Taxa in Oral but Not Gut Microbial Communities in Mice. PMID:28808691
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis. PMID:28807046
MetaMeta: integrating metagenome analysis tools to improve taxonomic profiling. PMID:28807044
The Role of the Skin and Gut Microbiome in Psoriatic Disease. PMID:28804689
Commensal Fungi in Health and Disease. PMID:28799901
The hypothesis that Helicobacter pylori predisposes to Alzheimer's disease is biologically plausible. PMID:28798312
Profiling the Urinary Microbiome in Men with Positive versus Negative Biopsies for Prostate Cancer. PMID:28797714
Community characteristics of the gut microbiomes of competitive cyclists. PMID:28797298
The microbiome in urogenital schistosomiasis and induced bladder pathologies. PMID:28793309
A 3-dimensional mathematical model of microbial proliferation that generates the characteristic cumulative relative abundance distributions in gut microbiomes. PMID:28792501
Role of Microbial Modulation in Management of Atopic Dermatitis in Children. PMID:28792444
Determination of Resistant Starch Assimilating Bacteria in Fecal Samples of Mice by In vitro RNA-Based Stable Isotope Probing. PMID:28790981
Modeling time-series data from microbial communities. PMID:28786973
Effects of the Exclusive Enteral Nutrition on the Microbiota Profile of Patients with Crohn's Disease: A Systematic Review. PMID:28777338
High diversity and unique composition of gut microbiomes in pygmy (Kogia breviceps) and dwarf (K. sima) sperm whales. PMID:28775301
Ecological Effect of Arginine on Oral Microbiota. PMID:28775282
Heart failure is associated with depletion of core intestinal microbiota. PMID:28772054
The evolution of the host microbiome as an ecosystem on a leash. PMID:28770836
Human Gut Microbiota: Toward an Ecology of Disease. PMID:28769880
A Stoichioproteomic Analysis of Samples from the Human Microbiome Project. PMID:28769875
Assessing gut microbiota perturbations during the early phase of infectious diarrhea in Vietnamese children. PMID:28767339
Exploring the microbiome of healthy and diseased peri-implant sites using Illumina sequencing. PMID:28766745
The oral microbiota in patients with pancreatic cancer, patients with IPMNs, and controls: a pilot study. PMID:28762074
The Skin Microbiome of Cohabiting Couples. PMID:28761935
Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules. PMID:28761934
Large-scale differences in microbial biodiversity discovery between 16S amplicon and shotgun sequencing. PMID:28761145
Differential Recognition of Mycobacterium tuberculosis-Specific Epitopes as a Function of Tuberculosis Disease History. PMID:28759253
Repression of Salmonella Host Cell Invasion by Aromatic Small Molecules from the Human Fecal Metabolome. PMID:28754707
A pilot study demonstrating the altered gut microbiota functionality in stable adults with Cystic Fibrosis. PMID:28751714
Design and validation of a DNA-microarray for phylogenetic analysis of bacterial communities in different oral samples and dental implants. PMID:28740183
The Colorful World of Extracellular Electron Shuttles. PMID:28731847
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
Metagenomics: The Next Culture-Independent Game Changer. PMID:28725217
Comparative analysis of vaginal microbiota sampling using 16S rRNA gene analysis. PMID:28723942
Temporal dynamics of bacterial microbiota in the human oral cavity determined using an in situ model of dental biofilms. PMID:28721251
Piggyback-the-Winner in host-associated microbial communities. PMID:28721247
Functional biomarkers for chronic periodontitis and insights into the roles of Prevotella nigrescens and Fusobacterium nucleatum; a metatranscriptome analysis. PMID:28721234
Microbial biofilms and the human intestinal microbiome. PMID:28721229
Potential for Monitoring Gut Microbiota for Diagnosing Infections and Graft-versus-Host Disease in Cancer and Stem Cell Transplant Patients. PMID:28720679
The Human Microbiome in the Fight Against Tuberculosis. PMID:28719264
Changes in diet associated with cancer: An evolutionary perspective. PMID:28717385
Significance of Microbiota in Obesity and Metabolic Diseases and the Modulatory Potential by Medicinal Plant and Food Ingredients. PMID:28713266
Potential and active functions in the gut microbiota of a healthy human cohort. PMID:28709472
Cleanliness in context: reconciling hygiene with a modern microbial perspective. PMID:28705228
Indoleacrylic Acid Produced by Commensal Peptostreptococcus Species Suppresses Inflammation. PMID:28704649
Impact of environmental microbiota on human microbiota of workers in academic mouse research facilities: An observational study. PMID:28704437
Effects of coconut oil on glycemia, inflammation, and urogenital microbial parameters in female Ossabaw mini-pigs. PMID:28704429
The influence of human exploration on the microbial community structure and ammonia oxidizing potential of the Su Bentu limestone cave in Sardinia, Italy. PMID:28704427
Microbiota composition of the koala (Phascolarctos cinereus) ocular and urogenital sites, and their association with Chlamydia infection and disease. PMID:28701755
Comparisons of Gut Microbiota Among Healthy Control, Patients With Conventional Adenoma, Sessile Serrated Adenoma, and Colorectal Cancer. PMID:28698865
A broadly distributed toxin family mediates contact-dependent antagonism between gram-positive bacteria. PMID:28696203
Gut microbiome in multiple sclerosis: The players involved and the roles they play. PMID:28696139
Geography, Ethnicity or Subsistence-Specific Variations in Human Microbiome Composition and Diversity. PMID:28690602
Intrinsic association between diet and the gut microbiome: current evidence. PMID:28690398
MALDI-TOF MS as a Novel Tool for the Estimation of Postmortem Interval in Liver Tissue Samples. PMID:28687792
The oral bacterial microbiome of occlusal surfaces in children and its association with diet and caries. PMID:28678838
A Metagenomic Analysis Provides a Culture-Independent Pathogen Detection for Atopic Dermatitis. PMID:28677360
16S rRNA Next Generation Sequencing Analysis Shows Bacteria in Alzheimer's Post-Mortem Brain. PMID:28676754
Shaping functional gut microbiota using dietary bioactives to reduce colon cancer risk. PMID:28676459
[Relationship between oral and gut microbes]. PMID:28675020
The Intestinal Eukaryotic and Bacterial Biome of Spotted Hyenas: The Impact of Social Status and Age on Diversity and Composition. PMID:28670573
The Human Microbiome and the Missing Heritability Problem. PMID:28659968
The microbiota in inflammatory bowel disease: current and therapeutic insights. PMID:28652796
Maternal inheritance of bifidobacterial communities and bifidophages in infants through vertical transmission. PMID:28651630
Microbiome in interstitial lung disease: from pathogenesis to treatment target. PMID:28650861
Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis. PMID:28649415
Inter-personal diversity and temporal dynamics of dental, tongue, and salivary microbiota in the healthy oral cavity. PMID:28649403
Microbial biofilms and the human skin microbiome. PMID:28649397
Microbiome, probiotics and neurodegenerative diseases: deciphering the gut brain axis. PMID:28643167
Vaginal and Uterine Bacterial Communities in Postpartum Lactating Cows. PMID:28642755
Chemical transformation of xenobiotics by the human gut microbiota. PMID:28642381
The development of lower respiratory tract microbiome in mice. PMID:28637485
EDEN: evolutionary dynamics within environments. PMID:28637301
Increasing the reach of forensic genetics with massively parallel sequencing. PMID:28631109
Evaluation of an in vitro fibre fermentation method using feline faecal inocula: inter-individual variation. PMID:28630701
Topical Antimicrobial Treatments Can Elicit Shifts to Resident Skin Bacterial Communities and Reduce Colonization by Staphylococcus aureus Competitors. PMID:28630195
Postmortem succession of gut microbial communities in deceased human subjects. PMID:28626612
The resilience of the intestinal microbiota influences health and disease. PMID:28626231
Understanding the Holobiont: How Microbial Metabolites Affect Human Health and Shape the Immune System. PMID:28625867
Intestinal Metabolites Are Profoundly Altered in the Context of HLA-B27 Expression and Functionally Modulate Disease in a Rat Model of Spondyloarthritis. PMID:28622455
Gut Microbiome and Bone: to Build, Destroy, or Both? PMID:28620867
Proteobacteria from the human skin microbiota: Species-level diversity and hypotheses. PMID:28616476
Comprehensive analysis of microorganisms accompanying human archaeological remains. PMID:28609785
Metaproteomic analysis of human gut microbiota: where are we heading? PMID:28606141
Transmission of the gut microbiota: spreading of health. PMID:28603278
Diet shifts provoke complex and variable changes in the metabolic networks of the ruminal microbiome. PMID:28595639
The Human Gut Phage Community and Its Implications for Health and Disease. PMID:28594392
Bacterial Community Associated with the Reef Coral Mussismilia braziliensis's Momentum Boundary Layer over a Diel Cycle. PMID:28588555
Alteration of the gut microbiota in Chinese population with chronic kidney disease. PMID:28588309
Contributions of the maternal oral and gut microbiome to placental microbial colonization in overweight and obese pregnant women. PMID:28588199
Effect of water flow and chemical environment on microbiota growth and composition in the human colon. PMID:28588144
Improved detection of gene-microbe interactions in the mouse skin microbiota using high-resolution QTL mapping of 16S rRNA transcripts. PMID:28587635
Genomics and metagenomics of trimethylamine-utilizing Archaea in the human gut microbiome. PMID:28585938
Type 3 innate lymphoid cell-derived lymphotoxin prevents microbiota-dependent inflammation. PMID:28579615
An Atlas of β-Glucuronidases in the Human Intestinal Microbiome. PMID:28578872
Changes in vaginal community state types reflect major shifts in the microbiome. PMID:28572753
The Goldilocks model of immune symbiosis with Mycobacteria and Candida colonizers. PMID:28570933
Ribosomal PCR assay of excised intervertebral discs from patients undergoing single-level primary lumbar microdiscectomy. PMID:28567591
Single-cell genome sequencing at ultra-high-throughput with microfluidic droplet barcoding. PMID:28553940
Early pregnancy vaginal microbiome trends and preterm birth. PMID:28549981
Microbiota in T-cell homeostasis and inflammatory diseases. PMID:28546563
The immune response to Prevotella bacteria in chronic inflammatory disease. PMID:28542929
Impact of maintenance immunosuppressive therapy on the fecal microbiome of renal transplant recipients: Comparison between an everolimus- and a standard tacrolimus-based regimen. PMID:28542523
An 18S rRNA Workflow for Characterizing Protists in Sewage, with a Focus on Zoonotic Trichomonads. PMID:28540488
A tale of two risks: smoking, diabetes and the subgingival microbiome. PMID:28534880
Microbiome disruption and recovery in the fish Gambusia affinis following exposure to broad-spectrum antibiotic. PMID:28533691
Associations of Nasopharyngeal Metabolome and Microbiome with Severity among Infants with Bronchiolitis. A Multiomic Analysis. PMID:28530140
From the Cover: Aloin, a Component of the Aloe Vera Plant Leaf, Induces Pathological Changes and Modulates the Composition of Microbiota in the Large Intestines of F344/N Male Rats. PMID:28525602
Changes in microbiome during and after travellers' diarrhea: what we know and what we do not. PMID:28521002
Vipie: web pipeline for parallel characterization of viral populations from multiple NGS samples. PMID:28506246
The malleable gut microbiome of juvenile rainbow trout (Oncorhynchus mykiss): Diet-dependent shifts of bacterial community structures. PMID:28498878
Reciprocal Interactions between Nematodes and Their Microbial Environments. PMID:28497029
The Threat of Antimicrobial Resistance on the Human Microbiome. PMID:28492988
Food additives, contaminants and other minor components: effects on human gut microbiota-a review. PMID:28488210
Evolutionary Biology Needs Wild Microbiomes. PMID:28487687
The Female Urinary Microbiota/Microbiome: Clinical and Research Implications. PMID:28467757
A Profile Hidden Markov Model to investigate the distribution and frequency of LanB-encoding lantibiotic modification genes in the human oral and gut microbiome. PMID:28462050
Ménage à trois in the human gut: interactions between host, bacteria and phages. PMID:28461690
A Robust Framework for Microbial Archaeology. PMID:28460196
Effects of stochasticity and division of labor in toxin production on two-strain bacterial competition in Escherichia coli. PMID:28459803
A critical assessment of the "sterile womb" and "in utero colonization" hypotheses: implications for research on the pioneer infant microbiome. PMID:28454555
MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data. PMID:28449106
Development of the cutaneous microbiome in the preterm infant: A prospective longitudinal study. PMID:28448623
Abundance profiling of specific gene groups using precomputed gut metagenomes yields novel biological hypotheses. PMID:28448616
Characterization of the fecal microbiome during neonatal and early pediatric development in puppies. PMID:28448583
Variable habitat conditions drive species covariation in the human microbiota. PMID:28448493
The prenatal gut microbiome: are we colonized with bacteria in utero? PMID:28447406
Single Delivery of High-Diversity Fecal Microbiota Preparation by Colonoscopy Is Safe and Effective in Increasing Microbial Diversity in Active Ulcerative Colitis. PMID:28445246
The Influence of Social Conditions Across the Life Course on the Human Gut Microbiota: A Pilot Project With the Wisconsin Longitudinal Study. PMID:28444239
An insider's perspective: Bacteroides as a window into the microbiome. PMID:28440278
Pediatric Obesity and Cardiometabolic Disorders: Risk Factors and Biomarkers. PMID:28439216
ESPRIT-Forest: Parallel clustering of massive amplicon sequence data in subquadratic time. PMID:28437450
Exploring the oral microflora of preschool children. PMID:28434085
Engineered Regulatory Systems Modulate Gene Expression of Human Commensals in the Gut. PMID:28431252
Tunable Expression Tools Enable Single-Cell Strain Distinction in the Gut Microbiome. PMID:28431251
Mechanisms Underlying HIV-Associated Noninfectious Lung Disease. PMID:28427967
Integrating the microbiota of the respiratory tract with the unified airway model. PMID:28427552
Modeling environmental risk factors of autism in mice induces IBD-related gut microbial dysbiosis and hyperserotonemia. PMID:28427452
Typing and Characterization of Bacteria Using Bottom-up Tandem Mass Spectrometry Proteomics. PMID:28420677
Effect of Antimicrobial and Physical Treatments on Growth of Multispecies Staphylococcal Biofilms. PMID:28411222
New insights into valve-related intramural and intracellular bacterial diversity in infective endocarditis. PMID:28410379
The Maternal Diet, Gut Bacteria, and Bacterial Metabolites during Pregnancy Influence Offspring Asthma. PMID:28408909
Human-derived gut microbiota modulates colonic secretion in mice by regulating 5-HT3 receptor expression via acetate production. PMID:28408644
The Landscape Ecology and Microbiota of the Human Nose, Mouth, and Throat. PMID:28407480
Synthetic associative learning in engineered multicellular consortia. PMID:28404872
A universal primer-independent next-generation sequencing approach for investigations of norovirus outbreaks and novel variants. PMID:28400558
RTK: efficient rarefaction analysis of large datasets. PMID:28398468
Swimming bacteria promote dispersal of non-motile staphylococcal species. PMID:28398350
Targeting of microbe-derived metabolites to improve human health: The next frontier for drug discovery. PMID:28389555
Transcriptomic buffering of cryptic genetic variation contributes to meningococcal virulence. PMID:28388876
Filthy lucre: A metagenomic pilot study of microbes found on circulating currency in New York City. PMID:28384336
Microbial community compositions in the gastrointestinal tract of Chinese Mongolian sheep using Illumina MiSeq sequencing revealed high microbial diversity. PMID:28378284
Microbial Biogeography and Core Microbiota of the Rat Digestive Tract. PMID:28374781
Cutaneous Burn Injury Promotes Shifts in the Bacterial Microbiome in Autologous Donor Skin: Implications for Skin Grafting Outcomes. PMID:28368977
Prediction of virus-host infectious association by supervised learning methods. PMID:28361670
Roles of Probiotic Lactobacilli Inclusion in Helping Piglets Establish Healthy Intestinal Inter-environment for Pathogen Defense. PMID:28361445
Comparison of stool versus rectal swab samples and storage conditions on bacterial community profiles. PMID:28359329
Patterns of variation in diversity of the Mississippi river microbiome over 1,300 kilometers. PMID:28350888
Microbiota, Immune Subversion, and Chronic Inflammation. PMID:28348558
Microbiome and pancreatic cancer: A comprehensive topic review of literature. PMID:28348497
Bacterial bloodstream infections in the allogeneic hematopoietic cell transplant patient: new considerations for a persistent nemesis. PMID:28346417
Circadian oscillations of microbial and functional composition in the human salivary microbiome. PMID:28338745
Precision Metagenomics: Rapid Metagenomic Analyses for Infectious Disease Diagnostics and Public Health Surveillance. PMID:28337072
ResistoMap-online visualization of human gut microbiota antibiotic resistome. PMID:28334267
Exploring the human microbiome from multiple perspectives: factors altering its composition and function. PMID:28333226
An in vitro bacterial surface migration assay underneath sterile barrier material commonly found in a hospital setting. PMID:28333156
Systematic evaluation of immune regulation and modulation. PMID:28331613
Proteobacteria explain significant functional variability in the human gut microbiome. PMID:28330508
Biochemistry: A wine-induced breakdown. PMID:28329754
Gastric microbiota features associated with cancer risk factors and clinical outcomes: A pilot study in gastric cardia cancer patients from Shanxi, China. PMID:28319273
Novel Indications for Fecal Microbial Transplantation: Update and Review of the Literature. PMID:28315032
RNA-Based Stable Isotope Probing Suggests Allobaculum spp. as Particularly Active Glucose Assimilators in a Complex Murine Microbiota Cultured In Vitro. PMID:28299315
Can Consideration of the Microbiome Improve Antimicrobial Utilization and Treatment Outcomes in the Oncology Patient? PMID:28298544
metaSPAdes: a new versatile metagenomic assembler. PMID:28298430
The Host Microbiome Regulates and Maintains Human Health: A Primer and Perspective for Non-Microbiologists. PMID:28292977
Exploring the under-investigated "microbial dark matter" of drinking water treatment plants. PMID:28290543
OptiClust, an Improved Method for Assigning Amplicon-Based Sequence Data to Operational Taxonomic Units. PMID:28289728
Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets. PMID:28289558
Sampling Strategies for Three-Dimensional Spatial Community Structures in IBD Microbiota Research. PMID:28286741
Vaginal Microbiome and Its Relationship to Behavior, Sexual Health, and Sexually Transmitted Diseases. PMID:28277350
PBHMDA: Path-Based Human Microbe-Disease Association Prediction. PMID:28275370
Intestinal dysbiosis in preterm infants preceding necrotizing enterocolitis: a systematic review and meta-analysis. PMID:28274256
Intestinal Microbiota in Type 2 Diabetes and Chronic Kidney Disease. PMID:28271466
Managing uncertainty in metabolic network structure and improving predictions using EnsembleFBA. PMID:28263984
Param-Medic: A Tool for Improving MS/MS Database Search Yield by Optimizing Parameter Settings. PMID:28263070
Beyond Hygiene: Commensal Microbiota and Allergic Diseases. PMID:28261020
Dysbiosis and the immune system. PMID:28260787
The Human Microbiome and Understanding the 16S rRNA Gene in Translational Nursing Science. PMID:28252578
Maternal-Child Microbiome: Specimen Collection, Storage, and Implications for Research and Practice. PMID:28252577
Moderate dietary protein restriction alters the composition of gut microbiota and improves ileal barrier function in adult pig model. PMID:28252026
Characterization of oral and gut microbiome temporal variability in hospitalized cancer patients. PMID:28245856
Structural variability and niche differentiation in the rhizosphere and endosphere bacterial microbiome of field-grown poplar trees. PMID:28231859
Prospects of Phage Application in the Treatment of Acne Caused by Propionibacterium acnes. PMID:28228751
Betel nut chewing, oral premalignant lesions, and the oral microbiome. PMID:28225785
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
The female urinary microbiota, urinary health and common urinary disorders. PMID:28217699
One size doesn't fit all: unraveling the diversity of factors and interactions that drive E. coli urovirulence. PMID:28217693
A phylogenetic transform enhances analysis of compositional microbiota data. PMID:28198697
Diversity and enterotype in gut bacterial community of adults in Taiwan. PMID:28198673
Genomic Microdiversity of Bifidobacterium pseudocatenulatum Underlying Differential Strain-Level Responses to Dietary Carbohydrate Intervention. PMID:28196965
Evolutionary and functional implications of hypervariable loci within the skin virome. PMID:28194314
Dynamics of the human gut microbiome in inflammatory bowel disease. PMID:28191884
A prominent glycyl radical enzyme in human gut microbiomes metabolizes trans-4-hydroxy-l-proline. PMID:28183913
ROCker: accurate detection and quantification of target genes in short-read metagenomic data sets by modeling sliding-window bitscores. PMID:28180325
IgA-coated E. coli enriched in Crohn's disease spondyloarthritis promote TH17-dependent inflammation. PMID:28179509
Revised computational metagenomic processing uncovers hidden and biologically meaningful functional variation in the human microbiome. PMID:28179006
An integrative Bayesian Dirichlet-multinomial regression model for the analysis of taxonomic abundances in microbiome data. PMID:28178947
Diversity and composition of vaginal microbiota of pregnant women at risk for transmitting Group B Streptococcus treated with intrapartum penicillin. PMID:28178310
Charting the Maternal and Infant Microbiome: What Is the Role of Diabetes and Obesity in Pregnancy? PMID:28176229
Microbiomic differences in tumor and paired-normal tissue in head and neck squamous cell carcinomas. PMID:28173873
Microbial strain-level population structure and genetic diversity from metagenomes. PMID:28167665
Draft genome sequence of Lactobacillus plantarum strains E2C2 and E2C5 isolated from human stool culture. PMID:28163824
Survey of (Meta)genomic Approaches for Understanding Microbial Community Dynamics. PMID:28148977
Evolutionary and ecological forces that shape the bacterial communities of the human gut. PMID:28145439
Studying Vertical Microbiome Transmission from Mothers to Infants by Strain-Level Metagenomic Profiling. PMID:28144631
Balance Trees Reveal Microbial Niche Differentiation. PMID:28144630
Host genetic variation in mucosal immunity pathways influences the upper airway microbiome. PMID:28143570
Polysaccharide Utilization Loci: Fueling Microbial Communities. PMID:28138099
Best practices for germ-free derivation and gnotobiotic zebrafish husbandry. PMID:28129860
Profiling Living Bacteria Informs Preparation of Fecal Microbiota Transplantations. PMID:28125667
Motivations of participants in the citizen science of microbiomics: data from the British Gut Project. PMID:28125088
Microbial Contribution to Wine Aroma and Its Intended Use for Wine Quality Improvement. PMID:28125039
Associations of the vaginal microbiota with HIV infection, bacterial vaginosis, and demographic factors. PMID:28121709
Helicobacter pylori infection is associated with an altered gastric microbiota in children. PMID:28120843
Advances in Gut Microbiome Research, Opening New Strategies to Cope with a Western Lifestyle. PMID:28119734
Metagenomic Analysis of Silage. PMID:28117801
Quantitative Comparison of Abundance Structures of Generalized Communities: From B-Cell Receptor Repertoires to Microbiomes. PMID:28114391
Maturation of the infant microbiome community structure and function across multiple body sites and in relation to mode of delivery. PMID:28112736
The gut microbiota of siblings offers insights into microbial pathogenesis of inflammatory bowel disease. PMID:28112583
MetaSort untangles metagenome assembly by reducing microbial community complexity. PMID:28112173
Oral microbiome and history of smoking and colorectal cancer. PMID:28111632
Systematic Characterization and Analysis of the Taxonomic Drivers of Functional Shifts in the Human Microbiome. PMID:28111203
The emerging importance and challenges of the human mycobiome. PMID:28102762
Evaluating the Impact of DNA Extraction Method on the Representation of Human Oral Bacterial and Fungal Communities. PMID:28099455
The mucosal immune system: master regulator of bidirectional gut-brain communications. PMID:28096541
The Gut Microbiome of the Vector Lutzomyia longipalpis Is Essential for Survival of Leishmania infantum. PMID:28096483
Microbiota fingerprints lose individually identifying features over time. PMID:28086968
Comparative Genome Sequencing Reveals Within-Host Genetic Changes in Neisseria meningitidis during Invasive Disease. PMID:28081260
Parallel-META 3: Comprehensive taxonomical and functional analysis platform for efficient comparison of microbial communities. PMID:28079128
Involvement of Reduced Microbial Diversity in Inflammatory Bowel Disease. PMID:28074093
On the ecosystemic network of saliva in healthy young adults. PMID:28072421
tRNA Misacylation with Methionine in the Mouse Gut Microbiome in Situ. PMID:28070678
The Influence of the Microbiome on Allergic Sensitization to Food. PMID:28069753
Host-Microbiota Interactions Shape Local and Systemic Inflammatory Diseases. PMID:28069751
The Denture-Associated Oral Microbiome in Health and Stomatitis. PMID:28066812
Performing Skin Microbiome Research: A Method to the Madness. PMID:28063650
Cheating fosters species co-existence in well-mixed bacterial communities. PMID:28060362
Comparison of sputum microbiome of legionellosis-associated patients and other pneumonia patients: indications for polybacterial infections. PMID:28059171
Characterization of saliva microbiota's functional feature based on metagenomic sequencing. PMID:28053828
Analysis of gut microbiota - An ever changing landscape. PMID:28051919
PaPrBaG: A machine learning approach for the detection of novel pathogens from NGS data. PMID:28051068
Preventing Unintended Pregnancy Among Young Sexually Active Women: Recognizing the Role of Violence, Self-Esteem, and Depressive Symptoms on Use of Contraception. PMID:28045570
Human gut microbiota and healthy aging: Recent developments and future prospective. PMID:28035338
Disruption of the microbiota across multiple body sites in critically ill children. PMID:28034303
The Pathogenetic Effect of Natural and Bacterial Toxins on Atopic Dermatitis. PMID:28025545
Pressing needs of biomedical text mining in biocuration and beyond: opportunities and challenges. PMID:28025348
Impact and Influence of the Natural Vibrio-Squid Symbiosis in Understanding Bacterial-Animal Interactions. PMID:28018314
Host-Microbiome Interaction and Cancer: Potential Application in Precision Medicine. PMID:28018236
A Machine Learning Approach for Using the Postmortem Skin Microbiome to Estimate the Postmortem Interval. PMID:28005908
Nasal Airway Microbiota Profile and Severe Bronchiolitis in Infants: A Case-control Study. PMID:28005692
The balance of metagenomic elements shapes the skin microbiome in acne and health. PMID:28000755
Reconciling evidence-based medicine and precision medicine in the era of big data: challenges and opportunities. PMID:27993174
High-Throughput Sequencing of Microbial Community Diversity and Dynamics during Douchi Fermentation. PMID:27992473
Glycoside Hydrolases across Environmental Microbial Communities. PMID:27992426
Comparative metagenomics reveals taxonomically idiosyncratic yet functionally congruent communities in periodontitis. PMID:27991530
Dietary Changes Impact the Gut Microbe Composition in Overweight and Obese Men with Prostate Cancer Undergoing Radical Prostatectomy. PMID:27988219
Comparison of Collection Methods for Fecal Samples in Microbiome Studies. PMID:27986704
The microbiome: A key regulator of stress and neuroinflammation. PMID:27981187
Dissecting the Interplay Between Intestinal Microbiota and Host Immunity in Health and Disease: Lessons Learned from Germfree and Gnotobiotic Animal Models. PMID:27980855
Microbial Ecology: Where are we now? PMID:27975077
The respiratory tract microbiome and lung inflammation: a two-way street. PMID:27966551
Linking dietary patterns with gut microbial composition and function. PMID:27960648
Influences of pH and Iron Concentration on the Salivary Microbiome in Individual Humans with and without Caries. PMID:27940544
The intestinal microbiota in allogeneic hematopoietic cell transplant and graft-versus-host disease. PMID:27940475
Patient-Specific Bacteroides Genome Variants in Pouchitis. PMID:27935837
Strategies to improve reference databases for soil microbiomes. PMID:27935589
A family of interaction-adjusted indices of community similarity. PMID:27935587
Intestinal Immunity and Gut Microbiota in Atherogenesis. PMID:27928097
Clinical and Microbiological Aspects of β-Lactam Resistance in Staphylococcus lugdunensis. PMID:27927926
Dysbiotic Bacterial and Fungal Communities Not Restricted to Clinically Affected Skin Sites in Dandruff. PMID:27909689
Role of gut microbiota in atherosclerosis. PMID:27905479
Chronic Rhinosinusitis and the Evolving Understanding of Microbial Ecology in Chronic Inflammatory Mucosal Disease. PMID:27903594
Microbiome and metabolic disease: revisiting the bacterial phylum Bacteroidetes. PMID:27900395
Salivary Microbiome Diversity in Caries-Free and Caries-Affected Children. PMID:27898021
Factoring the intestinal microbiome into the pathogenesis of autoimmune hepatitis. PMID:27895415
Gut Homeostasis, Microbial Dysbiosis, and Opioids. PMID:27895265
Bacterial Pathogens and the Microbiome. PMID:27888914
Interaction of gut microbiota with bile acid metabolism and its influence on disease states. PMID:27888332
An Improved Methodology to Overcome Key Issues in Human Fecal Metagenomic DNA Extraction. PMID:27888152
Large-scale benchmarking reveals false discoveries and count transformation sensitivity in 16S rRNA gene amplicon data analysis methods used in microbiome studies. PMID:27884206
Gut Microbiota and Autism: Key Concepts and Findings. PMID:27882443
Metagenomics of Two Severe Foodborne Outbreaks Provides Diagnostic Signatures and Signs of Coinfection Not Attainable by Traditional Methods. PMID:27881416
Dietary grape seed proanthocyanidins (GSPs) improve weaned intestinal microbiota and mucosal barrier using a piglet model. PMID:27880936
Eye of the Finch: characterization of the ocular microbiome of house finches in relation to mycoplasmal conjunctivitis. PMID:27871125
Prevalence of Antibiotic Resistance Genes among Human Gut-Derived Bifidobacteria. PMID:27864179
High Diversity and Variability in the Vaginal Microbiome in Women following Preterm Premature Rupture of Membranes (PPROM): A Prospective Cohort Study. PMID:27861554
Genotyping by PCR and High-Throughput Sequencing of Commercial Probiotic Products Reveals Composition Biases. PMID:27857709
Enteral High Fat-Polyunsaturated Fatty Acid Blend Alters the Pathogen Composition of the Intestinal Microbiome in Premature Infants with an Enterostomy. PMID:27856001
Critically ill patients demonstrate large interpersonal variation in intestinal microbiota dysregulation: a pilot study. PMID:27837233
Microbial Succession and Flavor Production in the Fermented Dairy Beverage Kefir. PMID:27822552
Individualized Responses of Gut Microbiota to Dietary Intervention Modeled in Humanized Mice. PMID:27822551
Urban Transit System Microbial Communities Differ by Surface Type and Interaction with Humans and the Environment. PMID:27822528
Preservation Methods Differ in Fecal Microbiome Stability, Affecting Suitability for Field Studies. PMID:27822526
From Sample to Multi-Omics Conclusions in under 48 Hours. PMID:27822524
cual-id: Globally Unique, Correctable, and Human-Friendly Sample Identifiers for Comparative Omics Studies. PMID:27822516
Open-Source Sequence Clustering Methods Improve the State Of the Art. PMID:27822515
Characterization and antimicrobial susceptibility of one antibiotic-sensitive and one multidrug-resistant Corynebacterium kroppenstedtii strain isolated from patients with granulomatous mastitis. PMID:27818775
Shotgun Metagenomics of 250 Adult Twins Reveals Genetic and Environmental Impacts on the Gut Microbiome. PMID:27818083
Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity. PMID:27814509
Designing Micro- and Nanoswimmers for Specific Applications. PMID:27809479
Association of nasopharyngeal microbiota profiles with bronchiolitis severity in infants hospitalised for bronchiolitis. PMID:27799386
Nutritional Correlates of Human Oral Microbiome. PMID:27797671
How multi-partner endosymbioses function. PMID:27795568
Transitioning from Microbiome Composition to Microbial Community Interactions: The Potential of the Metaorganism Hydra as an Experimental Model. PMID:27790207
Microorganisms in Confined Habitats: Microbial Monitoring and Control of Intensive Care Units, Operating Rooms, Cleanrooms and the International Space Station. PMID:27790191
[Gut microbiome and major depressive disorder : The other side of ourselves]. PMID:27787576
Sebum and Hydration Levels in Specific Regions of Human Face Significantly Predict the Nature and Diversity of Facial Skin Microbiome. PMID:27786295
Exploring Relationships between Host Genome and Microbiome: New Insights from Genome-Wide Association Studies. PMID:27785127
Emerging Skin T-Cell Functions in Response to Environmental Insults. PMID:27784595
VSEARCH: a versatile open source tool for metagenomics. PMID:27781170
The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data. PMID:27781166
Siderophore-mediated iron acquisition and modulation of host-bacterial interactions. PMID:27780750
Computational pan-genomics: status, promises and challenges. PMID:27769991
Roles for Intestinal Bacteria, Viruses, and Fungi in Pathogenesis of Inflammatory Bowel Diseases and Therapeutic Approaches. PMID:27769810
Filtration and Normalization of Sequencing Read Data in Whole-Metagenome Shotgun Samples. PMID:27760173
Topographical and physiological differences of the skin mycobiome in health and disease. PMID:27754756
Gastric microbiota in the functional dyspepsia patients treated with probiotic yogurt. PMID:27752337
Microbiome in healthy skin, update for dermatologists. PMID:27735094
Composition and immunological significance of the upper respiratory tract microbiota. PMID:27730630
FMAP: Functional Mapping and Analysis Pipeline for metagenomics and metatranscriptomics studies. PMID:27724866
Fecal Microbiota-based Therapeutics for Recurrent Clostridium difficile Infection, Ulcerative Colitis and Obesity. PMID:27720396
The structure and diversity of human, animal and environmental resistomes. PMID:27717408
Signals from the gut microbiota to distant organs in physiology and disease. PMID:27711063
Genetic and transcriptional analysis of human host response to healthy gut microbiota. PMID:27709125
Beyond 16S rRNA Community Profiling: Intra-Species Diversity in the Gut Microbiota. PMID:27708630
From Mouth to Model: Combining in vivo and in vitro Oral Biofilm Growth. PMID:27708626
Mining gut microbiome oligopeptides by functional metaproteome display. PMID:27703179
Paucibacterial Microbiome and Resident DNA Virome of the Healthy Conjunctiva. PMID:27699405
The Hoops, Hopes, and Hypes of Human Microbiome Research. PMID:27698620
The Influence of the Gut Microbiota on Host Physiology: In Pursuit of Mechanisms. PMID:27698613
Probing the diversity of healthy oral microbiome with bioinformatics approaches. PMID:27697111
Xenobiotic Metabolism and Gut Microbiomes. PMID:27695034
Emerging pathogenic links between microbiota and the gut-lung axis. PMID:27694885
Nanosized Drug Delivery Systems in Gastrointestinal Targeting: Interactions with Microbiota. PMID:27690060
Impact of maternal nutrition in pregnancy and lactation on offspring gut microbial composition and function. PMID:27686144
Metabolic Interactions in the Gastrointestinal Tract (GIT): Host, Commensal, Probiotics, and Bacteriophage Influences. PMID:27682125
Effect of flow and peristaltic mixing on bacterial growth in a gut-like channel. PMID:27681630
Bacteroides intestinalis DSM 17393, a member of the human colonic microbiome, upregulates multiple endoxylanases during growth on xylan. PMID:27681607
Emerging role of bacteria in oral carcinogenesis: a review with special reference to perio-pathogenic bacteria. PMID:27677454
Next generation sequencing data of a defined microbial mock community. PMID:27673566
When pathogenic bacteria meet the intestinal microbiota. PMID:27672153
Shifts in the Fecal Microbiota Associated with Adenomatous Polyps. PMID:27672054
Topical Decolonization Does Not Eradicate the Skin Microbiota of Community-Dwelling or Hospitalized Adults. PMID:27671074
Biomarkers in Search of Precision Medicine in IBD. PMID:27670602
Culturing: Looking it up in our gut. PMID:27670121
Metabolic modeling with Big Data and the gut microbiome. PMID:27668170
Colonic biogeography in health and ulcerative colitis. PMID:27662587
The vaginal mycobiome: A contemporary perspective on fungi in women's health and diseases. PMID:27657355
Microbiome Composition and Function Drives Wound-Healing Impairment in the Female Genital Tract. PMID:27656899
Associations between the gut microbiota and host immune markers in pediatric multiple sclerosis and controls. PMID:27652609
MetaMLST: multi-locus strain-level bacterial typing from metagenomic samples. PMID:27651451
Phylogenomic networks reveal limited phylogenetic range of lateral gene transfer by transduction. PMID:27648812
The Relationship between Branched-Chain Amino Acid Related Metabolomic Signature and Insulin Resistance: A Systematic Review. PMID:27642608
Functional Genomics and Its Bench-to-Bedside Translation Pertaining to the Identified Susceptibility Alleles and Loci in Ankylosing Spondylitis. PMID:27641916
Household siblings and nasal and fecal microbiota in infants. PMID:27638139
Clinical Significance of Commensal Gram-Positive Rods Routinely Isolated from Patient Samples. PMID:27629905
The Oral Microbiome of Children: Development, Disease, and Implications Beyond Oral Health. PMID:27628595
Investigation of sinonasal microbiome spatial organization in chronic rhinosinusitis. PMID:27627048
Correlations of Host Genetics and Gut Microbiome Composition. PMID:27625642
Parallel Mutations Result in a Wide Range of Cooperation and Community Consequences in a Two-Species Bacterial Consortium. PMID:27617746
Non-alcoholic fatty liver and the gut microbiota. PMID:27617201
The Role of the Microbiota in Shaping Infectious Immunity. PMID:27616558
Microbiome Changes during Tuberculosis and Antituberculous Therapy. PMID:27608937
The microbiome in asthma. PMID:27606957
Extreme Dysbiosis of the Microbiome in Critical Illness. PMID:27602409
Gut Bifidobacteria Populations in Human Health and Aging. PMID:27594848
The Core Gut Microbiome of the American Cockroach, Periplaneta americana, Is Stable and Resilient to Dietary Shifts. PMID:27590811
MMinte: an application for predicting metabolic interactions among the microbial species in a community. PMID:27590448
Systematic review and meta-analysis of sutures coated with triclosan for the prevention of surgical site infection after elective colorectal surgery according to the PRISMA statement. PMID:27583844
Diversity of Gut Microbiota Metabolic Pathways in 10 Pairs of Chinese Infant Twins. PMID:27583441
Identification and Analysis of Informative Single Nucleotide Polymorphisms in 16S rRNA Gene Sequences of the Bacillus cereus Group. PMID:27582514
Healthy human gut phageome. PMID:27573828
Species-function relationships shape ecological properties of the human gut microbiome. PMID:27573110
Uncovering oral Neisseria tropism and persistence using metagenomic sequencing. PMID:27572971
A multi-omic future for microbiome studies. PMID:27572648
Metagenomics uncovers gaps in amplicon-based detection of microbial diversity. PMID:27572438
PhyloCore: A phylogenetic approach to identifying core taxa in microbial communities. PMID:27567683
Development of an Integrated Pipeline for Profiling Microbial Proteins from Mouse Fecal Samples by LC-MS/MS. PMID:27559751
Skin fungal community and its correlation with bacterial community of urban Chinese individuals. PMID:27558504
Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome. PMID:27555308
Mechanisms of inflammation-driven bacterial dysbiosis in the gut. PMID:27554295
Bacterial Communities: Interactions to Scale. PMID:27551280
Eosinophils, probiotics, and the microbiome. PMID:27549754
Diet and Gut Microbial Function in Metabolic and Cardiovascular Disease Risk. PMID:27541295
Age and Gender Affect the Composition of Fungal Population of the Human Gastrointestinal Tract. PMID:27536299
Stool microbiome reveals diverse bacterial ureases as confounders of oral urea breath testing for Helicobacter pylori and Mycobacterium tuberculosis in Bamako, Mali. PMID:27532494
The gut microbiota: a key regulator of metabolic diseases. PMID:27530685
Microbiota in Breast Milk of Chinese Lactating Mothers. PMID:27529821
Systematic Review: Adverse Events of Fecal Microbiota Transplantation. PMID:27529553
Gastrointestinal microbial populations can distinguish pediatric and adolescent Acute Lymphoblastic Leukemia (ALL) at the time of disease diagnosis. PMID:27527070
Comparative metagenome of a stream impacted by the urbanization phenomenon. PMID:27522532
The Woodrat Gut Microbiota as an Experimental System for Understanding Microbial Metabolism of Dietary Toxins. PMID:27516760
Environment shapes the fecal microbiome of invasive carp species. PMID:27514729
MixMC: A Multivariate Statistical Framework to Gain Insight into Microbial Communities. PMID:27513472
High-resolution characterization of the human microbiome. PMID:27513210
Fap2 Mediates Fusobacterium nucleatum Colorectal Adenocarcinoma Enrichment by Binding to Tumor-Expressed Gal-GalNAc. PMID:27512904
Gut Microbiome Associates With Lifetime Cardiovascular Disease Risk Profile Among Bogalusa Heart Study Participants. PMID:27507222
Insights into human evolution from ancient and contemporary microbiome studies. PMID:27507098
The early infant gut microbiome varies in association with a maternal high-fat diet. PMID:27503374
Distinct interacting core taxa in co-occurrence networks enable discrimination of polymicrobial oral diseases with similar symptoms. PMID:27499042
The intestinal microbiome and surgical disease. PMID:27497246
High Frequency and Diversity of Antimicrobial Activities Produced by Nasal Staphylococcus Strains against Bacterial Competitors. PMID:27490492
Antibiotic-Induced Gut Microbiota Disruption Decreases TNF-α Release by Mononuclear Cells in Healthy Adults. PMID:27489950
The Microbiome of Aseptically Collected Human Breast Tissue in Benign and Malignant Disease. PMID:27485780
A Single-Batch Fermentation System to Simulate Human Colonic Microbiota for High-Throughput Evaluation of Prebiotics. PMID:27483470
Early gut colonizers shape parasite susceptibility and microbiota composition in honey bee workers. PMID:27482088
A new way to contemplate Darwin's tangled bank: how DNA barcodes are reconnecting biodiversity science and biomonitoring. PMID:27481782
Does the vaginal microbiota play a role in the development of cervical cancer? PMID:27477083
Metabolites: messengers between the microbiota and the immune system. PMID:27474437
Characterizing human lung tissue microbiota and its relationship to epidemiological and clinical features. PMID:27468850
The Gut Microbiota in Immune-Mediated Inflammatory Diseases. PMID:27462309
Smoking, pregnancy and the subgingival microbiome. PMID:27461975
A First Insight into the Gut Microbiota of the Sea Turtle Caretta caretta. PMID:27458451
GABA-producing Bifidobacterium dentium modulates visceral sensitivity in the intestine. PMID:27458085
Bifidobacteria and Butyrate-Producing Colon Bacteria: Importance and Strategies for Their Stimulation in the Human Gut. PMID:27446020
Identification, Recovery, and Refinement of Hitherto Undescribed Population-Level Genomes from the Human Gastrointestinal Tract. PMID:27445992
Pathogenic shifts in endogenous microbiota impede tissue regeneration via distinct activation of TAK1/MKK/p38. PMID:27441386
On the pathogenesis of insulin-dependent diabetes mellitus: the role of microbiota. PMID:27421719
Decoding molecular interactions in microbial communities. PMID:27417261
Functional Comparison of Bacteria from the Human Gut and Closely Related Non-Gut Bacteria Reveals the Importance of Conjugation and a Paucity of Motility and Chemotaxis Functions in the Gut Environment. PMID:27416027
Microbiota Dysbiosis Controls the Neuroinflammatory Response after Stroke. PMID:27413153
Analysis of the mouse gut microbiome using full-length 16S rRNA amplicon sequencing. PMID:27411898
Mobile genes in the human microbiome are structured from global to individual scales. PMID:27409808
Risk factors for an acute exacerbation of idiopathic pulmonary fibrosis. PMID:27401332
Metagenome and Metatranscriptome Analyses Using Protein Family Profiles. PMID:27400380
Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights. PMID:27400279
Metagenome-wide association studies: fine-mining the microbiome. PMID:27396567
Airway Microbiota and the Implications of Dysbiosis in Asthma. PMID:27393699
Association of sputum microbiota profiles with severity of community-acquired pneumonia in children. PMID:27391033
Commensal-Pathogen Interactions along the Human Nasal Passages. PMID:27389401
The microbiome in early life: implications for health outcomes. PMID:27387886
Integrated network-diversity analyses suggest suppressive effect of Hodgkin's lymphoma and slightly relieving effect of chemotherapy on human milk microbiome. PMID:27386954
Re-evaluation of the mechanisms of dietary fibre and implications for macronutrient bioaccessibility, digestion and postprandial metabolism. PMID:27385119
Microbiome-wide association studies link dynamic microbial consortia to disease. PMID:27383984
Interactions between the microbiota and pathogenic bacteria in the gut. PMID:27383983
Diet-microbiota interactions as moderators of human metabolism. PMID:27383980
A microbial perspective of human developmental biology. PMID:27383979
Navigating the Microbial Basis of Inflammatory Bowel Diseases: Seeing the Light at the End of the Tunnel. PMID:27377740
The Role of Gut Microflora and the Cholinergic Anti-inflammatory Neuroendocrine System in Diabetes Mellitus. PMID:27375553
The intestinal microbiome, barrier function, and immune system in inflammatory bowel disease: a tripartite pathophysiological circuit with implications for new therapeutic directions. PMID:27366227
The interplay between the microbiome and the adaptive immune response in cancer development. PMID:27366226
Plantar Purpura as the Initial Presentation of Viridians Streptococcal Shock Syndrome Secondary to Streptococcus gordonii Bacteremia. PMID:27366188
Capturing the diversity of the human gut microbiota through culture-enriched molecular profiling. PMID:27363992
Next-Generation Sequencing in the Mycology Lab. PMID:27358660
Predominance of Lactobacillus spp. Among Patients Who Do Not Acquire Multidrug-Resistant Organisms. PMID:27358350
Unlocking the bacterial and fungal communities assemblages of sugarcane microbiome. PMID:27358031
Sex differences and hormonal effects on gut microbiota composition in mice. PMID:27355107
The Fecal Microbiota Profile and Bronchiolitis in Infants. PMID:27354456
FolC2-mediated folate metabolism contributes to suppression of inflammation by probiotic Lactobacillus reuteri. PMID:27353144
Alterations of the human gut microbiome in multiple sclerosis. PMID:27352007
Integration of multiple "OMIC" biomarkers: A precision medicine strategy for lung cancer. PMID:27344275
Necrotizing enterocolitis and preterm infant gut bacteria. PMID:27343151
Azithromycin therapy during respiratory syncytial virus bronchiolitis: Upper airway microbiome alterations and subsequent recurrent wheeze. PMID:27339392
Comparison of placenta samples with contamination controls does not provide evidence for a distinct placenta microbiota. PMID:27338728
The Janus-Face of Bacteriophages across Human Body Habitats. PMID:27337144
Phenylketonuria and Gut Microbiota: A Controlled Study Based on Next-Generation Sequencing. PMID:27336782
The oral microbiome of patients with axial spondyloarthritis compared to healthy individuals. PMID:27330858
Identification of Veillonella Species in the Tongue Biofilm by Using a Novel One-Step Polymerase Chain Reaction Method. PMID:27326455
Microbial forensics: next-generation sequencing as catalyst: The use of new sequencing technologies to analyze whole microbial communities could become a powerful tool for forensic and criminal investigations. PMID:27325822
Characterization of the microbiome of nipple aspirate fluid of breast cancer survivors. PMID:27324944
The Future of Vascular Biology and Medicine. PMID:27324355
Mash: fast genome and metagenome distance estimation using MinHash. PMID:27323842
Shotgun Metagenomic Profiles Have a High Capacity To Discriminate Samples of Activated Sludge According to Wastewater Type. PMID:27316957
Microbial Reconstitution Reverses Maternal Diet-Induced Social and Synaptic Deficits in Offspring. PMID:27315483
Antibiotic use during pregnancy: how bad is it? PMID:27312712
Community-level cohesion without cooperation. PMID:27310530
Diversity, structure and convergent evolution of the global sponge microbiome. PMID:27306690
Antibiotics, birth mode, and diet shape microbiome maturation during early life. PMID:27306664
Natural history of the infant gut microbiome and impact of antibiotic treatment on bacterial strain diversity and stability. PMID:27306663
Manipulation of the Gut Microbiota Reveals Role in Colon Tumorigenesis. PMID:27303681
Universality of human microbial dynamics. PMID:27279224
Host-microbe interaction: Rules of the game for microbiota. PMID:27279206
The role of the gut microbiota in NAFLD. PMID:27273168
The metabolic role of the gut microbiota in health and rheumatic disease: mechanisms and interventions. PMID:27256713
The Gut Microbiome and Obesity. PMID:27255389
Predictive value of the composition of the vaginal microbiota in bacterial vaginosis, a dynamic study to identify recurrence-related flora. PMID:27253522
Microbial succession in an inflated lunar/Mars analog habitat during a 30-day human occupation. PMID:27250991
Does the Intestinal Microbiota Explain Differences in the Epidemiology of Liver Disease between East and West? PMID:27243019
The Common Gut Microbe Eubacterium hallii also Contributes to Intestinal Propionate Formation. PMID:27242734
Tracking Strains in the Microbiome: Insights from Metagenomics and Models. PMID:27242733
Performance of 16s rDNA Primer Pairs in the Study of Rhizosphere and Endosphere Bacterial Microbiomes in Metabarcoding Studies. PMID:27242686
An Improved Method for High Quality Metagenomics DNA Extraction from Human and Environmental Samples. PMID:27240745
Microbial population analysis improves the evidential value of faecal traces in forensic investigations. PMID:27236465
The influence of skin microorganisms on cutaneous immunity. PMID:27231051
Gut microbiota, metabolites and host immunity. PMID:27231050
Probiotics as an Adjuvant Therapy in Major Depressive Disorder. PMID:27226112
Inner Workings: Ancient teeth reveal clues about microbiome evolution. PMID:27222564
A practical guide to the oral microbiome and its relation to health and disease. PMID:27219464
The roles of the outdoors and occupants in contributing to a potential pan-microbiome of the built environment: a review. PMID:27216717
DADA2: High-resolution sample inference from Illumina amplicon data. PMID:27214047
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
Experimental Evolution on a Wild Mammal Species Results in Modifications of Gut Microbial Communities. PMID:27199960
Metagenomics, Metatranscriptomics, and Metabolomics Approaches for Microbiome Analysis. PMID:27199545
Triclosan Exposure Is Associated with Rapid Restructuring of the Microbiome in Adult Zebrafish. PMID:27191725
Status of the Archaeal and Bacterial Census: an Update. PMID:27190214
Topological distortion and reorganized modular structure of gut microbial co-occurrence networks in inflammatory bowel disease. PMID:27188829
Stool-based biomarkers of interstitial cystitis/bladder pain syndrome. PMID:27188581
Gut microbiome in chronic kidney disease: challenges and opportunities. PMID:27187743
Intricacies of assessing the human microbiome in epidemiologic studies. PMID:27180112
Toward a Predictive Understanding of Earth's Microbiomes to Address 21st Century Challenges. PMID:27178263
Genetic Determinants of the Gut Microbiome in UK Twins. PMID:27173935
Colorectal Cancer and the Human Gut Microbiome: Reproducibility with Whole-Genome Shotgun Sequencing. PMID:27171425
Enumerating Virus-Like Particles and Bacterial Populations in the Sinuses of Chronic Rhinosinusitis Patients Using Flow Cytometry. PMID:27171169
Efficient Nucleic Acid Extraction and 16S rRNA Gene Sequencing for Bacterial Community Characterization. PMID:27168460
Microbe Motels: An Interactive Method to Introduce the Human Microbiome. PMID:27158310
Microbiome therapeutics - Advances and challenges. PMID:27158095
An algorithm for designing minimal microbial communities with desired metabolic capacities. PMID:27153571
Temporal Stability of the Human Skin Microbiome. PMID:27153496
Characterization of the Gut Microbiome Using 16S or Shotgun Metagenomics. PMID:27148170
Invasive candidiasis: from mycobiome to infection, therapy, and prevention. PMID:27146877
Microbiome diversity in the sputum of patients with pulmonary tuberculosis. PMID:27142586
The role of the gastrointestinal microbiome in infectious complications during induction chemotherapy for acute myeloid leukemia. PMID:27142181
StreptoBase: An Oral Streptococcus mitis Group Genomic Resource and Analysis Platform. PMID:27138013
Impact of Prematurity and Perinatal Antibiotics on the Developing Intestinal Microbiota: A Functional Inference Study. PMID:27136545
Use of Metatranscriptomics in Microbiome Research. PMID:27127406
Gut microbiota: an Indicator to Gastrointestinal Tract Diseases. PMID:27126590
Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity. PMID:27126040
Cross-species comparisons of host genetic associations with the microbiome. PMID:27126034
Microbiology: the road to strain-level identification. PMID:27123815
H2 metabolism is widespread and diverse among human colonic microbes. PMID:27123663
The healthy human microbiome. PMID:27122046
Pretreatment gut microbiome predicts chemotherapy-related bloodstream infection. PMID:27121964
Mechanistic and Technical Challenges in Studying the Human Microbiome and Cancer Epidemiology. PMID:27121074
A healthy gastrointestinal microbiome is dependent on dietary diversity. PMID:27110483
Detection of Campylobacter jejuni in rectal swab samples from Rousettus amplexicaudatus in the Philippines. PMID:27109214
Molecular assessment of bacterial vaginosis by Lactobacillus abundance and species diversity. PMID:27107961
Details Matter: Designing Skin Microbiome Studies. PMID:27107375
Ultra-deep and quantitative saliva proteome reveals dynamics of the oral microbiome. PMID:27102203
Diverted Total Synthesis of Promysalin Analogs Demonstrates That an Iron-Binding Motif Is Responsible for Its Narrow-Spectrum Antibacterial Activity. PMID:27096543
The Microbiome, Timing, and Barrier Function in the Context of Allergic Disease. PMID:27096316
Antibiotics in Hematopoietic Cell Transplantation: Adversaries or Allies? PMID:27095689
Ray Owen and the history of naturally acquired chimerism. PMID:27093621
Impact of the Chromatin Remodeling Factor CHD1 on Gut Microbiome Composition of Drosophila melanogaster. PMID:27093431
Rationale and Safety Assessment of a Novel Intravaginal Drug-Delivery System with Sustained DL-Lactic Acid Release, Intended for Long-Term Protection of the Vaginal Microbiome. PMID:27093291
Olfactory epithelium changes in germfree mice. PMID:27089944
Altered Mucosal Microbiome Diversity and Disease Severity in Sjögren Syndrome. PMID:27087247
Tongue Coating and the Salivary Microbial Communities Vary in Children with Halitosis. PMID:27080513
Overcoming Enterotoxigenic Escherichia coli Pathogen Diversity: Translational Molecular Approaches to Inform Vaccine Design. PMID:27076141
The effects of antibiotics on the microbiome throughout development and alternative approaches for therapeutic modulation. PMID:27074706
Faecal Metaproteomic Analysis Reveals a Personalized and Stable Functional Microbiome and Limited Effects of a Probiotic Intervention in Adults. PMID:27070903
Sequencing 16S rRNA gene fragments using the PacBio SMRT DNA sequencing system. PMID:27069806
Interpreting Prevotella and Bacteroides as biomarkers of diet and lifestyle. PMID:27068581
Gut microbiome remodeling induces depressive-like behaviors through a pathway mediated by the host's metabolism. PMID:27067014
Gut Microbiota Diversity and Human Diseases: Should We Reintroduce Key Predators in Our Ecosystem? PMID:27065999
Respiratory syncytial virus and rhinovirus severe bronchiolitis are associated with distinct nasopharyngeal microbiota. PMID:27061249
The human gut microbiome in health: establishment and resilience of microbiota over a lifetime. PMID:27059297
Age-Related Differences in the Gastrointestinal Microbiota of Chinstrap Penguins (Pygoscelis antarctica). PMID:27055030
Potential use of bacterial community succession for estimating post-mortem interval as revealed by high-throughput sequencing. PMID:27052375
[Oral microbiota: a promising predictor of human oral and systemic diseases]. PMID:27051943
Turning Participatory Microbiome Research into Usable Data: Lessons from the American Gut Project. PMID:27047589
Characterization of the gut microbiome in epidemiologic studies: the multiethnic cohort experience. PMID:27039047
Mucosal and salivary microbiota associated with recurrent aphthous stomatitis. PMID:27036492
Holes in the Hologenome: Why Host-Microbe Symbioses Are Not Holobionts. PMID:27034285
Colonization Resistance of the Gut Microbiota against Clostridium difficile. PMID:27025628
A Study of the Infant Nasal Microbiome Development over the First Year of Life and in Relation to Their Primary Adult Caregivers Using cpn60 Universal Target (UT) as a Phylogenetic Marker. PMID:27019455
Genomic insights into ayurvedic and western approaches to personalized medicine. PMID:27019453
The microbiota-derived metabolite indole decreases mucosal inflammation and injury in a murine model of NSAID enteropathy. PMID:27007819
Changes in the Eye Microbiota Associated with Contact Lens Wearing. PMID:27006462
Strain-level microbial epidemiology and population genomics from shotgun metagenomics. PMID:26999001
The human microbiota: novel targets for hospital-acquired infections and antibiotic resistance. PMID:26994507
Shaping of cutaneous function by encounters with commensals. PMID:26988937
Probiotic Gut Microbiota Isolate Interacts with Dendritic Cells via Glycosylated Heterotrimeric Pili. PMID:26985831
Role of Intestinal Microbiota in Baicalin-Induced Drug Interaction and Its Pharmacokinetics. PMID:26978333
Influences of Plant Species, Season and Location on Leaf Endophytic Bacterial Communities of Non-Cultivated Plants. PMID:26974817
The microbiome and its potential as a cancer preventive intervention. PMID:26970128
The relationship between prior antimicrobial prescription and meningitis: a case-control study. PMID:26965030
Human symbionts inject and neutralize antibacterial toxins to persist in the gut. PMID:26957597
Fecal Microbiota Transplantation: Current Applications, Effectiveness, and Future Perspectives. PMID:26956193
Alterations in the mucosa-associated bacterial composition in Crohn's disease: a pilot study. PMID:26951181
The gut microbiome of healthy Japanese and its microbial and functional uniqueness. PMID:26951067
Chronic Psychological Stress Disrupted the Composition of the Murine Colonic Microbiota and Accelerated a Murine Model of Inflammatory Bowel Disease. PMID:26950850
Deletion of the Toll-Like Receptor 5 Gene Per Se Does Not Determine the Gut Microbiome Profile That Induces Metabolic Syndrome: Environment Trumps Genotype. PMID:26950299
Obesity and Asthma: Microbiome-Metabolome Interactions. PMID:26949916
Respiratory Microbiome of New-Born Infants. PMID:26942168
The Thanatomicrobiome: A Missing Piece of the Microbial Puzzle of Death. PMID:26941736
Metagenomic evidence for taxonomic dysbiosis and functional imbalance in the gastrointestinal tracts of children with cystic fibrosis. PMID:26940651
The interplay between intestinal bacteria and host metabolism in health and disease: lessons from Drosophila melanogaster. PMID:26935105
Relationship between removable prosthesis and some systemics disorders. PMID:26929530
The New Era of Treatment for Obesity and Metabolic Disorders: Evidence and Expectations for Gut Microbiome Transplantation. PMID:26925392
Does the intestinal microbial community of Korean Crohn's disease patients differ from that of western patients? PMID:26922889
Regional Similarities and Consistent Patterns of Local Variation in Beach Sand Bacterial Communities throughout the Northern Hemisphere. PMID:26921429
Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota. PMID:26918244
Human colorectal mucosal microbiota correlates with its host niche physiology revealed by endomicroscopy. PMID:26916597
Expansion of Microbial Forensics. PMID:26912746
Mitigation of Biofilm Formation on Corrugated Cardboard Fresh Produce Packaging Surfaces Using a Novel Thiazolidinedione Derivative Integrated in Acrylic Emulsion Polymers. PMID:26909074
Chemical conversations in the gut microbiota. PMID:26901101
Agent Based Modeling of Human Gut Microbiome Interactions and Perturbations. PMID:26894828
Obesity, Asthma, and the Microbiome. PMID:26889016
Sub-clinical detection of gut microbial biomarkers of obesity and type 2 diabetes. PMID:26884067
Reply. PMID:26881820
Networking in the Plant Microbiome. PMID:26871440
Risperidone-induced weight gain is mediated through shifts in the gut microbiome and suppression of energy expenditure. PMID:26870798
Human Microbiota of the Argentine Population- A Pilot Study. PMID:26870014
A benchmark study on error-correction by read-pairing and tag-clustering in amplicon-based deep sequencing. PMID:26868371
On the Origins and Control of Community Types in the Human Microbiome. PMID:26866806
Oestrogen promotes healing in a bacterial LPS model of delayed cutaneous wound repair. PMID:26855364
Expanding role of gut microbiota in lipid metabolism. PMID:26855231
Vikodak--A Modular Framework for Inferring Functional Potential of Microbial Communities from 16S Metagenomic Datasets. PMID:26848568
16S rRNA gene-based metagenomic analysis reveals differences in bacteria-derived extracellular vesicles in the urine of pregnant and non-pregnant women. PMID:26846451
Maximum Entropy Estimation of Probability Distribution of Variables in Higher Dimensions from Lower Dimensional Data. PMID:26843809
Race-specific Association of Caesarean-Section Delivery with Body Size at Age 2 Years. PMID:26843797
Resistant starch alters gut microbiome and metabolomic profiles concurrent with amelioration of chronic kidney disease in rats. PMID:26841824
Diet, microbiota, and dysbiosis: a 'recipe' for colorectal cancer. PMID:26840037
Impact of demographics on human gut microbial diversity in a US Midwest population. PMID:26839739
Marine mammals harbor unique microbiotas shaped by and yet distinct from the sea. PMID:26839246
Intestinal microbiome analyses identify melanoma patients at risk for checkpoint-blockade-induced colitis. PMID:26837003
Development of the Chick Microbiome: How Early Exposure Influences Future Microbial Diversity. PMID:26835461
Sex differences in the gut microbiome-brain axis across the lifespan. PMID:26833840
Skin Microbiome Surveys Are Strongly Influenced by Experimental Design. PMID:26829039
Social behavior shapes the chimpanzee pan-microbiome. PMID:26824072
Signatures of early frailty in the gut microbiota. PMID:26822992
NINJA-OPS: Fast Accurate Marker Gene Alignment Using Concatenated Ribosomes. PMID:26820746
The role of microbiota in cancer therapy. PMID:26820225
Propionibacterium acnes: Disease-Causing Agent or Common Contaminant? Detection in Diverse Patient Samples by Next-Generation Sequencing. PMID:26818667
Gut microbiota imbalance and colorectal cancer. PMID:26811603
Biogeography of a human oral microbiome at the micron scale. PMID:26811460
Single-cell genome sequencing: current state of the science. PMID:26806412
Assembly of the Caenorhabditis elegans gut microbiota from diverse soil microbial environments. PMID:26800234
T-cell recognition is shaped by epitope sequence conservation in the host proteome and microbiome. PMID:26789414
COMPUTATIONAL APPROACHES TO STUDY MICROBES AND MICROBIOMES. PMID:26776218
Assessment of k-mer spectrum applicability for metagenomic dissimilarity analysis. PMID:26774270
Can We Prevent Obesity-Related Metabolic Diseases by Dietary Modulation of the Gut Microbiota? PMID:26773017
Immune-Microbiota Interactions: Dysbiosis as a Global Health Issue. PMID:26768621
Bacterial microbiome of breast milk and child saliva from low-income Mexican-American women and children. PMID:26756784
Composition, Diversity and Abundance of Gut Microbiome in Prediabetes and Type 2 Diabetes. PMID:26756039
Lignin engineering in field-grown poplar trees affects the endosphere bacterial microbiome. PMID:26755604
Microbial Diversity in the Early In Vivo-Formed Dental Biofilm. PMID:26746720
Stress and the microbiome: linking glucocorticoids to bacterial community dynamics in wild red squirrels. PMID:26740566
Human milk microbiota profiles in relation to birthing method, gestation and infant gender. PMID:26739322
Corynebacterium accolens Releases Antipneumococcal Free Fatty Acids from Human Nostril and Skin Surface Triacylglycerols. PMID:26733066
Prebiotic Potential of a Maize-Based Soluble Fibre and Impact of Dose on the Human Gut Microbiota. PMID:26731113
Epidemiologic studies of the human microbiome and cancer. PMID:26730578
Different gastric microbiota compositions in two human populations with high and low gastric cancer risk in Colombia. PMID:26729566
Proton pump inhibitors alter the composition of the gut microbiota. PMID:26719299
Analysis of the microbiome: Advantages of whole genome shotgun versus 16S amplicon sequencing. PMID:26718401
The biogeography of polymicrobial infection. PMID:26714431
Insights into bacterial protein glycosylation in human microbiota. PMID:26712033
Beneficial Microbes: The pharmacy in the gut. PMID:26709457
The role of the calcium-sensing receptor in gastrointestinal inflammation. PMID:26709005
Gut Microbiota Alterations can predict Hospitalizations in Cirrhosis Independent of Diabetes Mellitus. PMID:26692421
High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED. PMID:26682918
Endocannabinoids--at the crossroads between the gut microbiota and host metabolism. PMID:26678807
Scaling and root planning, and locally delivered minocycline reduces the load of Prevotella intermedia in an interdependent pattern, correlating with symptomatic improvements of chronic periodontitis: a short-term randomized clinical trial. PMID:26676022
The microbiome of the built environment and mental health. PMID:26674771
A simple coculture system shows mutualism between anaerobic faecalibacteria and epithelial Caco-2 cells. PMID:26667159
Survival in Idiopathic pulmonary fibrosis acute exacerbations: the non-steroid approach. PMID:26666385
Cracking the Code of Human Diseases Using Next-Generation Sequencing: Applications, Challenges, and Perspectives. PMID:26665001
The human microbiome, asthma, and allergy. PMID:26664362
Microbiome: Paediatricians' perspective. PMID:26658584
The Interplay of Host Microbiota and Parasitic Protozoans at Mucosal Interfaces: Implications for the Outcomes of Infections and Diseases. PMID:26658061
Computational approaches to predict bacteriophage-host relationships. PMID:26657537
The Microbiome, Systemic Immune Function, and Allotransplantation. PMID:26656674
Synthetic long-read sequencing reveals intraspecies diversity in the human microbiome. PMID:26655498
The microbiome quality control project: baseline study design and future directions. PMID:26653756
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
Metagenomic Approach for Identification of the Pathogens Associated with Diarrhea in Stool Specimens. PMID:26637379
Mechanisms of Microbe-Host Interaction in Crohn's Disease: Dysbiosis vs. Pathobiont Selection. PMID:26635787
Metagenomic sequencing of bile from gallstone patients to identify different microbial community patterns and novel biliary bacteria. PMID:26625708
Non-pathogenic microflora of a spring water with regenerative properties. PMID:26623012
Production of butyrate from lysine and the Amadori product fructoselysine by a human gut commensal. PMID:26620920
Variation in Rural African Gut Microbiota Is Strongly Correlated with Colonization by Entamoeba and Subsistence. PMID:26619199
A distributed cell division counter reveals growth dynamics in the gut microbiota. PMID:26615910
Identification of low abundance microbiome in clinical samples using whole genome sequencing. PMID:26614063
Global prevalence and distribution of genes and microorganisms involved in mercury methylation. PMID:26601305
Vaginal Microbiome Characterization of Nellore Cattle Using Metagenomic Analysis. PMID:26599789
Animal-microbe interactions and the evolution of nervous systems. PMID:26598731
Phenotypic and Physiological Characterization of the Epibiotic Interaction Between TM7x and Its Basibiont Actinomyces. PMID:26597961
Role of intestinal microbiota in transplantation outcomes. PMID:26590773
Role of the Gut Microbiome in Uremia: A Potential Therapeutic Target. PMID:26590448
EBI metagenomics in 2016--an expanding and evolving resource for the analysis and archiving of metagenomic data. PMID:26582919
The human gut sterolbiome: bile acid-microbiome endocrine aspects and therapeutics. PMID:26579434
Cross-biome comparison of microbial association networks. PMID:26579106
HGTree: database of horizontally transferred genes determined by tree reconciliation. PMID:26578597
HPMCD: the database of human microbial communities from metagenomic datasets and microbial reference genomes. PMID:26578596
Circulating microbial RNA and health. PMID:26576508
The role of innate immune signaling in the pathogenesis of atopic dermatitis and consequences for treatments. PMID:26573298
The Microbiome and Cancer: Is the 'Oncobiome' Mirage Real? PMID:26568984
Metabolic network-guided binning of metagenomic sequence fragments. PMID:26568626
Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes. PMID:26565399
Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification. PMID:26563586
The enteric microbiome in hepatobiliary health and disease. PMID:26561779
Evaluating DNA Extraction Methods for Community Profiling of Pig Hindgut Microbial Community. PMID:26560873
Implementation of a Pan-Genomic Approach to Investigate Holobiont-Infecting Microbe Interaction: A Case Report of a Leukemic Patient with Invasive Mucormycosis. PMID:26556047
Gut microbiota and diet in patients with different glucose tolerance. PMID:26555712
Stable and sporadic symbiotic communities of coral and algal holobionts. PMID:26555246
Identification of Small-Molecule Inhibitors against Meso-2, 6-Diaminopimelate Dehydrogenase from Porphyromonas gingivalis. PMID:26544875
What is living on your dog's skin? Characterization of the canine cutaneous mycobiota and fungal dysbiosis in canine allergic dermatitis. PMID:26542075
Context and the human microbiome. PMID:26530830
Arsenic induces structural and compositional colonic microbiome change and promotes host nitrogen and amino acid metabolism. PMID:26529668
Subtractive assembly for comparative metagenomics, and its application to type 2 diabetes metagenomes. PMID:26527161
Donor Species Richness Determines Faecal Microbiota Transplantation Success in Inflammatory Bowel Disease. PMID:26519463
Diversity of key players in the microbial ecosystems of the human body. PMID:26514870
The Influence of Age and Gender on Skin-Associated Microbial Communities in Urban and Rural Human Populations. PMID:26510185
Bifidobacteria exhibit social behavior through carbohydrate resource sharing in the gut. PMID:26506949
Microbiomes of the dust particles collected from the International Space Station and Spacecraft Assembly Facilities. PMID:26502721
Alcohol and the Intestine. PMID:26501334
mBLAST: Keeping up with the sequencing explosion for (meta)genome analysis. PMID:26500804
Selective Manipulation of the Gut Microbiota Improves Immune Status in Vertebrates. PMID:26500650
Human microbiomes and their roles in dysbiosis, common diseases, and novel therapeutic approaches. PMID:26500616
Gut biogeography of the bacterial microbiota. PMID:26499895
Resistance and tolerance to foreign elements by prokaryotic immune systems - curating the genome. PMID:26494050
The human skin double-stranded DNA virome: topographical and temporal diversity, genetic enrichment, and dynamic associations with the host microbiome. PMID:26489866
Interactions Between the Gastrointestinal Microbiome and Clostridium difficile. PMID:26488281
Biogeography of a defensive symbiosis. PMID:26479018
Mammalian Lipopolysaccharide Receptors Incorporated into the Retroviral Envelope Augment Virus Transmission. PMID:26468748
Noninvasive monitoring of infection and rejection after lung transplantation. PMID:26460048
Linking Biosynthetic Gene Clusters to their Metabolites via Pathway- Targeted Molecular Networking. PMID:26456470
SUPER-FOCUS: a tool for agile functional analysis of shotgun metagenomic data. PMID:26454280
Contribution of Gut Bacteria to Lipid Levels: Another Metabolic Role for Microbes? PMID:26450886
Gut Microbiome: What We Do and Don't Know. PMID:26449893
Clinical science workshop: targeting the gut-liver-brain axis. PMID:26446022
Microbial metabolic networks in a complex electrogenic biofilm recovered from a stimulus-induced metatranscriptomics approach. PMID:26443302
Goals in Nutrition Science 2015-2020. PMID:26442272
The human gut virome: a multifaceted majority. PMID:26441861
Microbiomes: unifying animal and plant systems through the lens of community ecology theory. PMID:26441846
Use of the second-generation antipsychotic, risperidone, and secondary weight gain are associated with an altered gut microbiota in children. PMID:26440540
Colonization of C57BL/6 Mice by a Potential Probiotic Bifidobacterium bifidum Strain under Germ-Free and Specific Pathogen-Free Conditions and during Experimental Colitis. PMID:26439388
Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering. PMID:26434730
The intersection of microbiome and host at the skin interface: genomic- and metagenomic-based insights. PMID:26430162
Biological data sciences in genome research. PMID:26430150
Time-series metagenomic analysis reveals robustness of soil microbiome against chemical disturbance. PMID:26428854
Gastrointestinal microbiome modulator improves glucose tolerance in overweight and obese subjects: A randomized controlled pilot trial. PMID:26424589
Gut Microbiome of an 11th Century A.D. Pre-Columbian Andean Mummy. PMID:26422376
mmnet: An R Package for Metagenomics Systems Biology Analysis. PMID:26421278
The players may change but the game remains: network analyses of ruminal microbiomes suggest taxonomic differences mask functional similarity. PMID:26420832
A Phase-Variable Surface Layer from the Gut Symbiont Bacteroides thetaiotaomicron. PMID:26419879
Cultivation of stable, reproducible microbial communities from different fecal donors using minibioreactor arrays (MBRAs). PMID:26419531
Prebiotic and Probiotic Regulation of Bone Health: Role of the Intestine and its Microbiome. PMID:26419466
MetaPhlAn2 for enhanced metagenomic taxonomic profiling. PMID:26418763
Fertility and early pregnancy outcomes after conservative treatment for cervical intraepithelial neoplasia. PMID:26417855
Humans differ in their personal microbial cloud. PMID:26417541
Local bacteria affect the efficacy of chemotherapeutic drugs. PMID:26416623
In vitro culture of previously uncultured oral bacterial phylotypes. PMID:26407883
Enhanced virome sequencing using targeted sequence capture. PMID:26395152
Lactobacillus rhamnosus GG-supplemented formula expands butyrate-producing bacterial strains in food allergic infants. PMID:26394008
Strand-specific community RNA-seq reveals prevalent and dynamic antisense transcription in human gut microbiota. PMID:26388849
Metabolome of human gut microbiome is predictive of host dysbiosis. PMID:26380076
Host genetic variation impacts microbiome composition across human body sites. PMID:26374288
Skin-Derived C-Terminal Filaggrin-2 Fragments Are Pseudomonas aeruginosa-Directed Antimicrobials Targeting Bacterial Replication. PMID:26371476
Minimally Invasive Sampling Method Identifies Differences in Taxonomic Richness of Nasal Microbiomes in Young Infants Associated with Mode of Delivery. PMID:26370110
Structure and Inhibition of Microbiome β-Glucuronidases Essential to the Alleviation of Cancer Drug Toxicity. PMID:26364932
The Gut Microbiome Contributes to a Substantial Proportion of the Variation in Blood Lipids. PMID:26358192
ConStrains identifies microbial strains in metagenomic datasets. PMID:26344404
Pathways and functions of gut microbiota metabolism impacting host physiology. PMID:26340103
The composition of the zebrafish intestinal microbial community varies across development. PMID:26339860
Microbiome in Inflammatory Arthritis and Human Rheumatic Diseases. PMID:26331579
Utilizing de Bruijn graph of metagenome assembly for metatranscriptome analysis. PMID:26319390
Population-Sequencing as a Biomarker for Sample Characterization. PMID:26317024
Fecal Microbial Community Structure Is Stable over Time and Related to Variation in Macronutrient and Micronutrient Intakes in Lactating Women. PMID:26311809
Structure and function of the healthy pre-adolescent pediatric gut microbiome. PMID:26306392
Primer and platform effects on 16S rRNA tag sequencing. PMID:26300854
Stool microbiota composition is associated with the prospective risk of Plasmodium falciparum infection. PMID:26296559
Contribution of neutral processes to the assembly of gut microbial communities in the zebrafish over host development. PMID:26296066
Obesity as a Determinant of Staphylococcus aureus Colonization Among Inmates in Maximum-Security Prisons in New York State. PMID:26292691
The Presence of Oxalobacter formigenes in the Microbiome of Healthy Young Adults. PMID:26292041
Humanized microbiota mice as a model of recurrent Clostridium difficile disease. PMID:26289776
The Placental Microbiome Varies in Association with Low Birth Weight in Full-Term Neonates. PMID:26287241
Intestinal Microbiota and Celiac Disease: Cause, Consequence or Co-Evolution? PMID:26287240
Host Biology in Light of the Microbiome: Ten Principles of Holobionts and Hologenomes. PMID:26284777
Functional metagenomic discovery of bacterial effectors in the human microbiome and isolation of commendamide, a GPCR G2A/132 agonist. PMID:26283367
In vivo imaging and tracking of host-microbiota interactions via metabolic labeling of gut anaerobic bacteria. PMID:26280120
Collection media and delayed freezing effects on microbial composition of human stool. PMID:26269741
Role of the normal gut microbiota. PMID:26269668
Genetic and environmental control of host-gut microbiota interactions. PMID:26260972
The Human Gut Microbiome as a Transporter of Antibiotic Resistance Genes between Continents. PMID:26259788
The gut microbiota in human energy homeostasis and obesity. PMID:26257300
From cultured to uncultured genome sequences: metagenomics and modeling microbial ecosystems. PMID:26254872
The intestinal microbiome and health. PMID:26237547
The microbiome of uncontacted Amerindians. PMID:26229982
Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples. PMID:26229116
First-Pass Meconium Samples from Healthy Term Vaginally-Delivered Neonates: An Analysis of the Microbiota. PMID:26218283
Topographical Mapping of the Rainbow Trout (Oncorhynchus mykiss) Microbiome Reveals a Diverse Bacterial Community with Antifungal Properties in the Skin. PMID:26209676
The Influence of the Autoimmunity-Associated Ancestral HLA Haplotype AH8.1 on the Human Gut Microbiota: A Cross-Sectional Study. PMID:26207384
Colonization, safety, and tolerability study of the Streptococcus salivarius 24SMBc nasal spray for its application in upper respiratory tract infections. PMID:26205666
The Impact of Immunosenescence on Pulmonary Disease. PMID:26199462
Evolutionary Transition from Pathogenicity to Commensalism: Global Regulator Mutations Mediate Fitness Gains through Virulence Attenuation. PMID:26199376
Microbiology and ecology are vitally important to premedical curricula. PMID:26198190
Structure and Function of CutC Choline Lyase from Human Microbiota Bacterium Klebsiella pneumoniae. PMID:26187464
Insights into the pan-microbiome: skin microbial communities of Chinese individuals differ from other racial groups. PMID:26177982
Virulence genes are a signature of the microbiome in the colorectal tumor microenvironment. PMID:26170900
Compact graphical representation of phylogenetic data and metadata with GraPhlAn. PMID:26157614
Metagenomic sequencing reveals altered metabolic pathways in the oral microbiota of sailors during a long sea voyage. PMID:26154405
The role of the local microbial ecosystem in respiratory health and disease. PMID:26150660
Improving microbial fitness in the mammalian gut by in vivo temporal functional metagenomics. PMID:26148351
Bridging the knowledge gap: from microbiome composition to function. PMID:26148349
Targeted capture in evolutionary and ecological genomics. PMID:26137993
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Cohort Study of Airway Mycobiome in Adult Cystic Fibrosis Patients: Differences in Community Structure between Fungi and Bacteria Reveal Predominance of Transient Fungal Elements. PMID:26135861
Revealing microbial recognition by specific antibodies. PMID:26134992
Pros and cons of methylation-based enrichment methods for ancient DNA. PMID:26134828
Effects of high doses of vitamin D3 on mucosa-associated gut microbiome vary between regions of the human gastrointestinal tract. PMID:26130323
Dual Transcriptomic Profiling of Host and Microbiota during Health and Disease in Pediatric Asthma. PMID:26125632
Omics Metadata Management Software (OMMS). PMID:26124554
The Influence of Smoking on the Peri-Implant Microbiome. PMID:26124222
The bacterial microbiota in inflammatory lung diseases. PMID:26122174
Bacterial Exposures and Associations with Atopy and Asthma in Children. PMID:26121165
Metabolome progression during early gut microbial colonization of gnotobiotic mice. PMID:26118551
Needs Assessment for Research Use of High-Throughput Sequencing at a Large Academic Medical Center. PMID:26115441
Vitamin B12 modulates the transcriptome of the skin microbiota in acne pathogenesis. PMID:26109103
Allometry of animal-microbe interactions and global census of animal-associated microbes. PMID:26108631
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
Harnessing the Microbiome to Enhance Cancer Immunotherapy. PMID:26101781
Engineering the gut microbiota to treat hyperammonemia. PMID:26098218
Innate immunity at mucosal surfaces: the IRE1-RIDD-RIG-I pathway. PMID:26093676
Current nutritional recommendations and novel dietary strategies to manage sarcopenia. PMID:26082911
Regulation of NKT Cell Localization in Homeostasis and Infection. PMID:26074921
Emerging concepts in tissue-resident T cells: lessons from humans. PMID:26072286
Unraveling the environmental and genetic interactions in atherosclerosis: Central role of the gut microbiota. PMID:26071662
Inter- and intra-individual variations in seasonal and daily stabilities of the human gut microbiota in Japanese. PMID:26068535
Influence of Proton-Pump Inhibitors on the Luminal Microbiota in the Gastrointestinal Tract. PMID:26065717
The Fecal Microbiome in Pediatric Patients With Short Bowel Syndrome. PMID:26059898
Monitoring host responses to the gut microbiota. PMID:26057846
The gut microbiota and Type 1 Diabetes. PMID:26051037
Salt, chloride, bleach, and innate host defense. PMID:26048979
CCLasso: correlation inference for compositional data through Lasso. PMID:26048598
The brain's Geppetto-microbes as puppeteers of neural function and behaviour? PMID:26047662
Pheromone killing of multidrug-resistant Enterococcus faecalis V583 by native commensal strains. PMID:26039987
Investigation of the association between the fecal microbiota and breast cancer in postmenopausal women: a population-based case-control pilot study. PMID:26032724
Developmental Regulation of Drug-Processing Genes in Livers of Germ-Free Mice. PMID:26032512
Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism. PMID:26023872
Pyrosequencing analysis reveals changes in intestinal microbiota of healthy adults who received a daily dose of immunomodulatory probiotic strains. PMID:26016655
Elucidating microbial codes to distinguish individuals. PMID:26015565
Human seroreactivity to gut microbiota antigens. PMID:26014812
High-throughput sequencing technologies. PMID:26000844
Mouthguards: does the indigenous microbiome play a role in maintaining oral health? PMID:26000251
Noncoding RNAs in human saliva as potential disease biomarkers. PMID:25999984
Cervicovaginal bacteria are a major modulator of host inflammatory responses in the female genital tract. PMID:25992865
Changes in gut microbiota in rats fed a high fat diet correlate with obesity-associated metabolic parameters. PMID:25992554
The human microbiome. PMID:25991836
Human microbiota-associated swine: current progress and future opportunities. PMID:25991699
Gut microbial succession follows acute secretory diarrhea in humans. PMID:25991682
The bamboo-eating giant panda harbors a carnivore-like gut microbiota, with excessive seasonal variations. PMID:25991678
Draft Whole-Genome Sequence of Lactobacillus fermentum LfQi6, Derived from the Human Microbiome. PMID:25977424
Colitogenic Bacteroides thetaiotaomicron Antigens Access Host Immune Cells in a Sulfatase-Dependent Manner via Outer Membrane Vesicles. PMID:25974305
Antibiotics, pediatric dysbiosis, and disease. PMID:25974298
The human microbiota: the rise of an "empire". PMID:25973270
PCR-Based Multiple Species Cell Counting for In Vitro Mixed Culture. PMID:25970462
Identifying personal microbiomes using metagenomic codes. PMID:25964341
Variation in koala microbiomes within and between individuals: effect of body region and captivity status. PMID:25960327
Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data. PMID:25957349
Sparse and compositionally robust inference of microbial ecological networks. PMID:25950956
Archaeal Lineages within the Human Microbiome: Absent, Rare or Elusive? PMID:25950865
Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes. PMID:25941533
A breakthrough in probiotics: Clostridium butyricum regulates gut homeostasis and anti-inflammatory response in inflammatory bowel disease. PMID:25940150
Systems biology of host-microbe metabolomics. PMID:25929487
Elviz - exploration of metagenome assemblies with an interactive visualization tool. PMID:25928663
Using populations of human and microbial genomes for organism detection in metagenomes. PMID:25926546
Fat, fibre and cancer risk in African Americans and rural Africans. PMID:25919227
The human gut resistome. PMID:25918444
Sequencing and beyond: integrating molecular 'omics' for microbial community profiling. PMID:25915636
Novel systems modeling methodology in comparative microbial metabolomics: identifying key enzymes and metabolites implicated in autism spectrum disorders. PMID:25913376
The gut microbiome: a new frontier for alcohol investigation. PMID:25912525
From benchtop to desktop: important considerations when designing amplicon sequencing workflows. PMID:25902146
Systematic prediction of health-relevant human-microbial co-metabolism through a computational framework. PMID:25901891
Type 2 diabetes and gut microbiome: at the intersection of known and unknown. PMID:25901889
Identification of metabolic signatures linked to anti-inflammatory effects of Faecalibacterium prausnitzii. PMID:25900655
The role of microbial amino acid metabolism in host metabolism. PMID:25894657
A proposed framework for an appropriate evaluation scheme for microorganisms as novel foods with a health claim in Europe. PMID:25889559
Temporal and technical variability of human gut metagenomes. PMID:25888008
Divergences in gene repertoire among the reference Prevotella genomes derived from distinct body sites of human. PMID:25887946
Associations between host gene expression, the mucosal microbiome, and clinical outcome in the pelvic pouch of patients with inflammatory bowel disease. PMID:25887922
Comparative analysis of gut microbiota in elderly people of urbanized towns and longevity villages. PMID:25887483
Site-specific programming of the host epithelial transcriptome by the gut microbiota. PMID:25887251
MUSiCC: a marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome. PMID:25885687
Individualized medicine and the microbiome in reproductive tract. PMID:25883569
Feather bacterial load shapes the trade-off between preening and immunity in pigeons. PMID:25881311
Development and pyrosequencing analysis of an in-vitro oral biofilm model. PMID:25880819
The truth about metagenomics: quantifying and counteracting bias in 16S rRNA studies. PMID:25880246
CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers. PMID:25879410
NGS-eval: NGS Error analysis and novel sequence VAriant detection tooL. PMID:25878034
When our genome is targeted by pathogenic bacteria. PMID:25877988
Whole-genome sequencing in outbreak analysis. PMID:25876885
Characterization and detection of a widely distributed gene cluster that predicts anaerobic choline utilization by human gut bacteria. PMID:25873372
Helminths and the microbiota: parts of the hygiene hypothesis. PMID:25869420
Beyond microbial community composition: functional activities of the oral microbiome in health and disease. PMID:25862077
Bacteriophage and their potential roles in the human oral cavity. PMID:25861745
Lactobacillus species as biomarkers and agents that can promote various aspects of vaginal health. PMID:25859220
Average genome size estimation improves comparative metagenomics and sheds light on the functional ecology of the human microbiome. PMID:25853934
The microbiota and microbiome in aging: potential implications in health and age-related diseases. PMID:25851728
The diversity and host interactions of Propionibacterium acnes bacteriophages on human skin. PMID:25848871
Recent advances in characterizing the gastrointestinal microbiome in Crohn's disease: a systematic review. PMID:25844959
The role of the commensal microbiota in the regulation of tolerance to dietary allergens. PMID:25827065
Molecular cartography of the human skin surface in 3D. PMID:25825778
The gut microbiome in cardio-metabolic health. PMID:25825594
Towards a more comprehensive concept for prebiotics. PMID:25824997
The role of innate immunity receptors in the pathogenesis of inflammatory bowel disease. PMID:25821356
Salivary microbiota reflects changes in gut microbiota in cirrhosis with hepatic encephalopathy. PMID:25820757
Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA. PMID:25819674
Associations between Gut Microbial Colonization in Early Life and Respiratory Outcomes in Cystic Fibrosis. PMID:25818499
Gut microbiota and tacrolimus dosing in kidney transplantation. PMID:25815766
Perturbation and restoration of the fathead minnow gut microbiome after low-level triclosan exposure. PMID:25815185
Bacterial rose garden for metagenomic SNP-based phylogeny visualization. PMID:25815061
Spatial Variation in the Healthy Human Lung Microbiome and the Adapted Island Model of Lung Biogeography. PMID:25803243
Harnessing regulatory T cells for the treatment of inflammatory bowel disease. PMID:25793328
Nutri(meta)genetics and cardiovascular disease: novel concepts in the interaction of diet and genomic variation. PMID:25782777
Novel microbiome-based therapeutics for chronic rhinosinusitis. PMID:25777787
The perinatal microbiome and pregnancy: moving beyond the vaginal microbiome. PMID:25775922
Being human is a gut feeling. PMID:25774294
Salivary Microbiota Associated with Immunoglobulin A Nephropathy. PMID:25763757
16S gut community of the Cameron County Hispanic Cohort. PMID:25763184
The lung mycobiome: an emerging field of the human respiratory microbiome. PMID:25762987
Intestinal microbiota as modulators of the immune system and neuroimmune system: impact on the host health and homeostasis. PMID:25759850
The multifaceted role of commensal microbiota in homeostasis and gastrointestinal diseases. PMID:25759839
Towards large-cohort comparative studies to define the factors influencing the gut microbial community structure of ASD patients. PMID:25758371
Beta-diversity metrics of the upper digestive tract microbiome are associated with body mass index. PMID:25755147
Type 1 diabetes and gut microbiota: Friend or foe? PMID:25747961
An overview of malaria transmission from the perspective of Amazon Anopheles vectors. PMID:25742262
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
Analysis of the upper respiratory tract microbiotas as the source of the lung and gastric microbiotas in healthy individuals. PMID:25736890
Microbial communities on flower surfaces act as signatures of pollinator visitation. PMID:25733079
Microbial ecology in Hydra: why viruses matter. PMID:25732740
Biogeography of the intestinal mucosal and lumenal microbiome in the rhesus macaque. PMID:25732063
Ecology and exploration of the rare biosphere. PMID:25730701
Insights from 20 years of bacterial genome sequencing. PMID:25722247
Cystic fibrosis mouse model-dependent intestinal structure and gut microbiome. PMID:25721416
Sewage reflects the microbiomes of human populations. PMID:25714718
The shared microbiota of humans and companion animals as evaluated from Staphylococcus carriage sites. PMID:25705378
Characterization of the human gut microbiome during travelers' diarrhea. PMID:25695334
Dynamic changes in the subgingival microbiome and their potential for diagnosis and prognosis of periodontitis. PMID:25691586
Mitochondrial DNA sequence variation is largely conserved at birth with rare de novo mutations in neonates. PMID:25687567
The hidden 'mycobacteriome' of the human healthy oral cavity and upper respiratory tract. PMID:25683180
Human Microbiome: When a Friend Becomes an Enemy. PMID:25682593
High individuality of respiratory bacterial communities in a large cohort of adult cystic fibrosis patients under continuous antibiotic treatment. PMID:25671713
Characterization and comparison of bacterial communities in benign vocal fold lesions. PMID:25671105
The dynamics of the human infant gut microbiome in development and in progression toward type 1 diabetes. PMID:25662751
Modulation of host responses by oral commensal bacteria. PMID:25661061
Use of 16S rRNA gene for identification of a broad range of clinically relevant bacterial pathogens. PMID:25658760
Intestinal lesions are associated with altered intestinal microbiome and are more frequent in children and young adults with cystic fibrosis and cirrhosis. PMID:25658710
On the dynamics of root canal infections-what we understand and what we don't. PMID:25654162
A phylo-functional core of gut microbiota in healthy young Chinese cohorts across lifestyles, geography and ethnicities. PMID:25647347
Exploring gut microbes in human health and disease: Pushing the envelope. PMID:25642449
Extensive strain-level copy-number variation across human gut microbiome species. PMID:25640238
Placental Microbiome and Its Role in Preterm Birth. PMID:25635174
The human gut microbiota with reference to autism spectrum disorder: considering the whole as more than a sum of its parts. PMID:25634609
Comparison of microbiomes from different niches of upper and lower airways in children and adolescents with cystic fibrosis. PMID:25629612
Dynamics of the surgical microbiota along the cardiothoracic surgery pathway. PMID:25628618
Aging and the human gut microbiota-from correlation to causality. PMID:25628610
High-throughput metagenomic technologies for complex microbial community analysis: open and closed formats. PMID:25626903
Cigarette butt decomposition and associated chemical changes assessed by 13C CPMAS NMR. PMID:25625643
Application of metagenomics in the human gut microbiome. PMID:25624713
VizBin - an application for reference-independent visualization and human-augmented binning of metagenomic data. PMID:25621171
Association of the invasion ability of Porphyromonas gingivalis with the severity of periodontitis. PMID:25616643
Application of a neutral community model to assess structuring of the human lung microbiome. PMID:25604788
Topographic diversity of the respiratory tract mycobiome and alteration in HIV and lung disease. PMID:25603113
Where next for microbiome research? PMID:25602283
The microbiome of the urinary tract--a role beyond infection. PMID:25600098
Fecal Microbiota Transplantation for Clostridium difficile Infection: The Ochsner Experience. PMID:25598718
Alterations in antigen-specific naive CD4 T cell precursors after sepsis impairs their responsiveness to pathogen challenge. PMID:25595784
Structure and sequence analyses of Bacteroides proteins BVU_4064 and BF1687 reveal presence of two novel predominantly-beta domains, predicted to be involved in lipid and cell surface interactions. PMID:25592227
The gut microbial endocrine organ: bacterially derived signals driving cardiometabolic diseases. PMID:25587655
The microbiome mutiny hypothesis: can our microbiome turn against us when we are old or seriously ill? PMID:25585878
The cutaneous microbiome in outpatients presenting with acute skin abscesses. PMID:25583170
Microbiota-mediated inflammation and antimicrobial defense in the intestine. PMID:25581310
Using non-enzymatic chemistry to influence microbial metabolism. PMID:25579453
Identifying strains that contribute to complex diseases through the study of microbial inheritance. PMID:25576328
Innate sensing of microbial products promotes wound-induced skin cancer. PMID:25575023
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
The microbiome in asthma. PMID:25567040
Microbiology of diabetic foot infections: from Louis Pasteur to 'crime scene investigation'. PMID:25564342
The influence of the microbiota on the immune response to transplantation. PMID:25563985
How informative is the mouse for human gut microbiota research? PMID:25561744
Ancient human microbiomes. PMID:25559298
The preterm placental microbiome varies in association with excess maternal gestational weight gain. PMID:25557210
Temporal dynamics of the very premature infant gut dominant microbiota. PMID:25551282
Enterolignan-producing phenotypes are associated with increased gut microbial diversity and altered composition in premenopausal women in the United States. PMID:25542830
Gene, environment, microbiome and mucosal immune tolerance in rheumatoid arthritis. PMID:25539828
The influence of the human microbiome and probiotics on cardiovascular health. PMID:25529048
The composition of the gut microbiota shapes the colon mucus barrier. PMID:25525071
Colonization of the upper genital tract by vaginal bacterial species in nonpregnant women. PMID:25524398
Dynamic interactions of neutrophils and biofilms. PMID:25523872
Microbial community pattern detection in human body habitats via ensemble clustering framework. PMID:25521415
Transcriptional fingerprints of antigen-presenting cell subsets in the human vaginal mucosa and skin reflect tissue-specific immune microenvironments. PMID:25520755
Metagenomic analyses of bacteria on human hairs: a qualitative assessment for applications in forensic science. PMID:25516795
Spatial and temporal features of the growth of a bacterial species colonizing the zebrafish gut. PMID:25516613
Bacteria-bacteria interactions within the microbiota of the ancestral metazoan Hydra contribute to fungal resistance. PMID:25514534
Exploring preterm birth as a polymicrobial disease: an overview of the uterine microbiome. PMID:25505898
Dietary effects on human gut microbiome diversity. PMID:25498959
The gut microbiota of Colombians differs from that of Americans, Europeans and Asians. PMID:25495462
The establishment of the infant intestinal microbiome is not affected by rotavirus vaccination. PMID:25491920
Bacteria and methanogens differ along the gastrointestinal tract of Chinese roe deer (Capreolus pygargus). PMID:25490208
The role of the gut and microbes in the pathogenesis of spondyloarthritis. PMID:25488778
A new era in palaeomicrobiology: prospects for ancient dental calculus as a long-term record of the human oral microbiome. PMID:25487328
The bacterial genotoxin colibactin promotes colon tumor growth by modifying the tumor microenvironment. PMID:25483338
Stability of gut enterotypes in Korean monozygotic twins and their association with biomarkers and diet. PMID:25482875
Proteomic tools to decipher microbial community structure and functioning. PMID:25475614
Bacteria dialog with Santa Rosalia: Are aggregations of cosmopolitan bacteria mainly explained by habitat filtering or by ecological interactions? PMID:25472003
Mechanistic links between gut microbial community dynamics, microbial functions and metabolic health. PMID:25469018
The rest of the story: the microbiome and gastrointestinal infections. PMID:25461582
Cellular and molecular pathways through which commensal bacteria modulate sensitization to dietary antigens. PMID:25458998
Evaluative profiling of arsenic sensing and regulatory systems in the human microbiome project genomes. PMID:25452698
Determining microbial products and identifying molecular targets in the human microbiome. PMID:25440055
A bitter aftertaste: unintended effects of artificial sweeteners on the gut microbiome. PMID:25440050
Microbiome in human immunodeficiency virus infection. PMID:25439273
No evidence of harms of probiotic Lactobacillus rhamnosus GG ATCC 53103 in healthy elderly-a phase I open label study to assess safety, tolerability and cytokine responses. PMID:25438151
Perturbation of the human microbiome as a contributor to inflammatory bowel disease. PMID:25438009
Prospects of oral disease control in the future - an opinion. PMID:25432790
Potential of fecal microbiota for early-stage detection of colorectal cancer. PMID:25432777
Faster sequence homology searches by clustering subsequences. PMID:25432166
MetaVelvet-SL: an extension of the Velvet assembler to a de novo metagenomic assembler utilizing supervised learning. PMID:25431440
Initial insights into bacterial succession during human decomposition. PMID:25431049
Dynamics of tongue microbial communities with single-nucleotide resolution using oligotyping. PMID:25426106
Microbiome associations of therapeutic enteral nutrition. PMID:25421531
Human genetics shape the gut microbiome. PMID:25417156
Does the microbiota play a role in the pathogenesis of autoimmune diseases? PMID:25416067
Comparison of assembly algorithms for improving rate of metatranscriptomic functional annotation. PMID:25411636
Friends with social benefits: host-microbe interactions as a driver of brain evolution and development? PMID:25401092
Probiotics and pregnancy. PMID:25398206
The gut microbiome in health and in disease. PMID:25394236
Gut microbes and the brain: paradigm shift in neuroscience. PMID:25392516
Profiling bacterial community in upper respiratory tracts. PMID:25391813
Heterogeneity across the murine small and large intestine. PMID:25386070
Comparison of genome sequencing technology and assembly methods for the analysis of a GC-rich bacterial genome. PMID:25377284
The same microbiota and a potentially discriminant metabolome in the saliva of omnivore, ovo-lacto-vegetarian and Vegan individuals. PMID:25372853
Intestinal microbiota is different in women with preterm birth: results from terminal restriction fragment length polymorphism analysis. PMID:25372390
Host-microbe interactions in microgravity: assessment and implications. PMID:25370197
Rapid changes in the gut microbiome during human evolution. PMID:25368157
Paneth cell α-defensin 6 (HD-6) is an antimicrobial peptide. PMID:25354318
Fertility and early pregnancy outcomes after treatment for cervical intraepithelial neoplasia: systematic review and meta-analysis. PMID:25352501
Current status and prospects of intestinal microbiome studies. PMID:25349591
The association between the upper digestive tract microbiota by HOMIM and oral health in a population-based study in Linxian, China. PMID:25348940
The nasal and sinus microbiome in health and disease. PMID:25342392
An antimicrobial protein of the gut symbiont Bacteroides fragilis with a MACPF domain of host immune proteins. PMID:25339613
Precision microbiome reconstitution restores bile acid mediated resistance to Clostridium difficile. PMID:25337874
An emerging mycoplasma associated with trichomoniasis, vaginal infection and disease. PMID:25337710
Census-based rapid and accurate metagenome taxonomic profiling. PMID:25336203
The evolution of comparative genomics. PMID:25333060
Seed: a user-friendly tool for exploring and visualizing microbial community data. PMID:25332377
Microbiome/microbiota and allergies. PMID:25326106
Minimum entropy decomposition: unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences. PMID:25325381
Meta-analyses of human gut microbes associated with obesity and IBD. PMID:25307765
The microbiota, chemical symbiosis, and human disease. PMID:25305474
Gut microbial community structure and complications after kidney transplantation: a pilot study. PMID:25289916
Biogeography and individuality shape function in the human skin metagenome. PMID:25279917
Alcohol and tobacco consumption affects bacterial richness in oral cavity mucosa biofilms. PMID:25278091
Antibiotics and the gut microbiota. PMID:25271726
The contributory role of gut microbiota in cardiovascular disease. PMID:25271725
The microbiome revolution. PMID:25271724
Metagenome-wide association of microbial determinants of host phenotype in Drosophila melanogaster. PMID:25271286
Sigma: strain-level inference of genomes from metagenomic analysis for biosurveillance. PMID:25266224
Microbial imbalance and intestinal pathologies: connections and contributions. PMID:25256712
Bacterial colonization and intestinal mucosal barrier development. PMID:25254174
The intestinal microbiome in early life: health and disease. PMID:25250028
16S rRNA gene pyrosequencing of reference and clinical samples and investigation of the temperature stability of microbiome profiles. PMID:25228989
Metagenomic assay for identification of microbial pathogens in tumor tissues. PMID:25227467
Respiratory tract clinical sample selection for microbiota analysis in patients with pulmonary tuberculosis. PMID:25225609
Relationships between phyllosphere bacterial communities and plant functional traits in a neotropical forest. PMID:25225376
Host-microbe interactions shaping the gastrointestinal environment. PMID:25220948
Binning metagenomic contigs by coverage and composition. PMID:25218180
A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics. PMID:25215495
Metagenomic analysis of double-stranded DNA viruses in healthy adults. PMID:25212266
The Integrative Human Microbiome Project: dynamic analysis of microbiome-host omics profiles during periods of human health and disease. PMID:25211071
Systematic analysis of the association between gut flora and obesity through high-throughput sequencing and bioinformatics approaches. PMID:25202708
Disrupted human-pathogen co-evolution: a model for disease. PMID:25202324
Hidden state prediction: a modification of classic ancestral state reconstruction algorithms helps unravel complex symbioses. PMID:25202302
Discovering new indicators of fecal pollution. PMID:25199597
Draft genome sequences and description of Lactobacillus rhamnosus strains L31, L34, and L35. PMID:25197459
Identification of diversity-generating retroelements in human microbiomes. PMID:25196521
A holobiont birth narrative: the epigenetic transmission of the human microbiome. PMID:25191338
Functional genomics of lactic acid bacteria: from food to health. PMID:25186768
The sweet tooth of bacteria: common themes in bacterial glycoconjugates. PMID:25184559
Functional expression of dental plaque microbiota. PMID:25177549
Indoor-air microbiome in an urban subway network: diversity and dynamics. PMID:25172855
Immunoglobulin A coating identifies colitogenic bacteria in inflammatory bowel disease. PMID:25171403
Which is more important for classifying microbial communities: who's there or what they can do? PMID:25171332
Detecting epistatic interactions in metagenome-wide association studies by metaBOOST. PMID:25165702
Microbial determinants of biochemical individuality and their impact on toxicology and pharmacology. PMID:25156450
The role of the microbiome in exacerbations of chronic lung diseases. PMID:25152271
The vaginal microbiota: what have we learned after a decade of molecular characterization? PMID:25148517
Comparative analysis of functional metagenomic annotation and the mappability of short reads. PMID:25148512
Biotic interactions and temporal dynamics of the human gastrointestinal microbiota. PMID:25148482
The microbiome and the lung. PMID:25148429
Immunomodulation by gut microbiota: role of Toll-like receptor expressed by T cells. PMID:25147831
The oral microbiome diversity and its relation to human diseases. PMID:25147055
Commensal-pathogen interactions in the intestinal tract: lactobacilli promote infection with, and are promoted by, helminth parasites. PMID:25144609
The nasal cavity microbiota of healthy adults. PMID:25143824
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm. PMID:25136443
Xylan utilization in human gut commensal bacteria is orchestrated by unique modular organization of polysaccharide-degrading enzymes. PMID:25136124
Microbial communities associated with human decomposition and their potential use as postmortem clocks. PMID:25129823
Disturbance and temporal partitioning of the activated sludge metacommunity. PMID:25126758
Metabolic modeling of common Escherichia coli strains in human gut microbiome. PMID:25126572
Cancer-promoting effects of microbial dysbiosis. PMID:25123079
Advancements toward a systems level understanding of the human oral microbiome. PMID:25120956
An evolving perspective about the origins of childhood undernutrition and nutritional interventions that includes the gut microbiome. PMID:25118072
Patterned progression of bacterial populations in the premature infant gut. PMID:25114261
Probing of microbial biofilm communities for coadhesion partners. PMID:25107971
Bacteroides fragilis subverts mucosal biology: from symbiont to colon carcinogenesis. PMID:25105360
Phylogenetics and the human microbiome. PMID:25102857
Validation of high throughput sequencing and microbial forensics applications. PMID:25101166
GHOSTX: an improved sequence homology search algorithm using a query suffix array and a database suffix array. PMID:25099887
Acquisition and maturation of oral microbiome throughout childhood: An update. PMID:25097637
The skin microbiome: potential for novel diagnostic and therapeutic approaches to cutaneous disease. PMID:25085669
Gut commensalism, cytokines, and central nervous system demyelination. PMID:25084177
Alterations of the human gut microbiome in liver cirrhosis. PMID:25079328
Analysis of culture-dependent versus culture-independent techniques for identification of bacteria in clinically obtained bronchoalveolar lavage fluid. PMID:25078910
Local domestication of lactic acid bacteria via cassava beer fermentation. PMID:25071997
A type VI secretion-related pathway in Bacteroidetes mediates interbacterial antagonism. PMID:25070807
The dynamics of a family's gut microbiota reveal variations on a theme. PMID:25061514
The semen microbiome and its relationship with local immunology and viral load in HIV infection. PMID:25058515
Metagenomic identification of a novel salt tolerance gene from the human gut microbiome which encodes a membrane protein with homology to a brp/blh-family β-carotene 15,15'-monooxygenase. PMID:25058308
Propionibacterium-produced coproporphyrin III induces Staphylococcus aureus aggregation and biofilm formation. PMID:25053784
Survival and synergistic growth of mixed cultures of bifidobacteria and lactobacilli combined with prebiotic oligosaccharides in a gastrointestinal tract simulator. PMID:25045346
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
Clostridium difficile and the microbiota. PMID:25036699
Conducting a microbiome study. PMID:25036628
Mobile phones carry the personal microbiome of their owners. PMID:25024916
Interpreting 16S metagenomic data without clustering to achieve sub-OTU resolution. PMID:25012900
Deep Illumina-based shotgun sequencing reveals dietary effects on the structure and function of the fecal microbiome of growing kittens. PMID:25010839
Metagenomic data utilization and analysis (MEDUSA) and construction of a global gut microbial gene catalogue. PMID:25010449
The female urinary microbiome: a comparison of women with and without urgency urinary incontinence. PMID:25006228
Tipping elements in the human intestinal ecosystem. PMID:25003530
Communities of microbial eukaryotes in the mammalian gut within the context of environmental eukaryotic diversity. PMID:24995004
The domain landscape of virus-host interactomes. PMID:24991570
The vaginal microbiota of pregnant women who subsequently have spontaneous preterm labor and delivery and those with a normal delivery at term. PMID:24987521
Immune-directed support of rich microbial communities in the gut has ancient roots. PMID:24984114
An introduction to the analysis of shotgun metagenomic data. PMID:24982662
Combination of metagenomics and culture-based methods to study the interaction between ochratoxin a and gut microbiota. PMID:24973096
Oligotyping analysis of the human oral microbiome. PMID:24965363
Finding the missing links among metabolites, microbes, and the host. PMID:24950202
FOCUS: an alignment-free model to identify organisms in metagenomes using non-negative least squares. PMID:24949242
The effects of intestinal tract bacterial diversity on mortality following allogeneic hematopoietic stem cell transplantation. PMID:24939656
Hot topics in gut microbiota. PMID:24917977
A biologist, a statistician, and a bioinformatician walk into a conference room… and walk out with a great metagenomics project plan. PMID:24917875
Teleost microbiomes: the state of the art in their characterization, manipulation and importance in aquaculture and fisheries. PMID:24917852
The intestinal archaea Methanosphaera stadtmanae and Methanobrevibacter smithii activate human dendritic cells. PMID:24915454
Microbial succession in the gut: directional trends of taxonomic and functional change in a birth cohort of Spanish infants. PMID:24901968
Autoimmunity and the gut. PMID:24900918
Pregnancy's stronghold on the vaginal microbiome. PMID:24896831
Minireview: Gut microbiota: the neglected endocrine organ. PMID:24892638
Diversity: from diet to flora to life. PMID:24891988
Bacterial diversity assessment in Antarctic terrestrial and aquatic microbial mats: a comparison between bidirectional pyrosequencing and cultivation. PMID:24887330
Exploration of bacterial community classes in major human habitats. PMID:24887286
Cohabitation--relationships of corynebacteria and staphylococci on human skin. PMID:24880250
Metagenomic analysis of the medicinal leech gut microbiota. PMID:24860552
Bats as reservoir hosts of human bacterial pathogen, Bartonella mayotimonensis. PMID:24856523
Species-level deconvolution of metagenome assemblies with Hi-C-based contact probability maps. PMID:24855317
Pancreatic cancer, inflammation, and microbiome. PMID:24855007
Diet, the gut microbiome, and epigenetics. PMID:24855003
The mycobiota: interactions between commensal fungi and the host immune system. PMID:24854590
Frequent occurrence of fever in patients who have undergone endoscopic submucosal dissection for colorectal tumor, but bacteremia is not a significant cause. PMID:24853844
Helminth colonization is associated with increased diversity of the gut microbiota. PMID:24851867
The placenta harbors a unique microbiome. PMID:24848255
High-fat maternal diet during pregnancy persistently alters the offspring microbiome in a primate model. PMID:24846660
Exploration and retrieval of whole-metagenome sequencing samples. PMID:24845653
Relating the metatranscriptome and metagenome of the human gut. PMID:24843156
The microbiota, the immune system and the allograft. PMID:24840316
Gut microbiota-generated metabolites in animal health and disease. PMID:24838170
The role of the bacterial flagellum in adhesion and virulence. PMID:24833223
Probiotics and antimicrobial peptides: the creatures' and substances' future in the twenty-first century: an opinion letter. PMID:24832155
Changes in the lung microbiome following lung transplantation include the emergence of two distinct Pseudomonas species with distinct clinical associations. PMID:24831685
The prevalence of species and strains in the human microbiome: a resource for experimental efforts. PMID:24827833
Analysis of multiple tsetse fly populations in Uganda reveals limited diversity and species-specific gut microbiota. PMID:24814785
Impact of the gut microbiota on the development of obesity and type 2 diabetes mellitus. PMID:24808896
Defining dysbiosis and its influence on host immunity and disease. PMID:24798552
Supra-organismal interactions in the human intestine. PMID:24795867
Elucidating the interactions between the human gut microbiota and its host through metabolic modeling. PMID:24795748
Targeted and highly multiplexed detection of microorganisms by employing an ensemble of molecular probes. PMID:24795371
The microbiome, parturition, and timing of birth: more questions than answers. PMID:24793619
Gut microbiota and GLP-1. PMID:24789701
Pharmacomicrobiomics: the impact of human microbiome variations on systems pharmacology and personalized therapeutics. PMID:24785449
Reprograming of gut microbiome energy metabolism by the FUT2 Crohn's disease risk polymorphism. PMID:24781901
Analysis of double-stranded RNA from microbial communities identifies double-stranded RNA virus-like elements. PMID:24767992
Impact of diet and individual variation on intestinal microbiota composition and fermentation products in obese men. PMID:24763370
Ecological consistency of SSU rRNA-based operational taxonomic units at a global scale. PMID:24763141
From promotion to management: the wide impact of bacteria on cancer and its treatment. PMID:24752750
Streptococcus mitis strains causing severe clinical disease in cancer patients. PMID:24750901
Dynamics and associations of microbial community types across the human body. PMID:24739969
Diversity and genomic insights into the uncultured Chloroflexi from the human microbiota. PMID:24738594
Epidemic Clostridium difficile strains demonstrate increased competitive fitness compared to nonepidemic isolates. PMID:24733099
Commensal bacteria mediated defenses against pathogens. PMID:24727150
Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX. PMID:24722405
Exome capture from saliva produces high quality genomic and metagenomic data. PMID:24708091
The personal touch: strategies toward personalized vaccines and predicting immune responses to them. PMID:24702429
Anti-infective activities of lactobacillus strains in the human intestinal microbiota: from probiotics to gastrointestinal anti-infectious biotherapeutic agents. PMID:24696432
Microbiome of prebiotic-treated mice reveals novel targets involved in host response during obesity. PMID:24694712
mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities. PMID:24694284
Epidermal barriers. PMID:24692192
Rural and urban microbiota: To be or not to be? PMID:24691073
War and peace: social interactions in infections. PMID:24686936
Upregulation of colonic luminal polyamines produced by intestinal microbiota delays senescence in mice. PMID:24686447
Metagenomic analysis of nitrate-reducing bacteria in the oral cavity: implications for nitric oxide homeostasis. PMID:24670812
A metabolomic perspective on coeliac disease. PMID:24665364
Salivary microbiota and metabolome associated with celiac disease. PMID:24657864
Human oral viruses are personal, persistent and gender-consistent. PMID:24646696
Biogeochemical forces shape the composition and physiology of polymicrobial communities in the cystic fibrosis lung. PMID:24643867
Application of metagenomics in understanding oral health and disease. PMID:24642489
Gut microbiota influences low fermentable substrate diet efficacy in children with irritable bowel syndrome. PMID:24637601
Metagenomic systems biology and metabolic modeling of the human microbiome: from species composition to community assembly rules. PMID:24637600
Comparative genome analysis of Lactobacillus rhamnosus clinical isolates from initial stages of dental pulp infection: identification of a new exopolysaccharide cluster. PMID:24632842
The intestinal metabolome: an intersection between microbiota and host. PMID:24631493
The intestinal microbiome in type 1 diabetes. PMID:24628412
Bile acids and the gut microbiome. PMID:24625896
Functional and phylogenetic assembly of microbial communities in the human microbiome. PMID:24618403
Microbiota of human breast tissue. PMID:24610844
Harnessing microbiota to kill a pathogen: the sweet tooth of Clostridium difficile. PMID:24603797
Bacterial communities on classroom surfaces vary with human contact. PMID:24602274
Nasopharyngeal microbiota in healthy children and pneumonia patients. PMID:24599973
Genomic and metabolomic insights into the natural product biosynthetic diversity of a feral-hog-associated Brevibacillus laterosporus strain. PMID:24595070
Development of HuMiChip for functional profiling of human microbiomes. PMID:24595026
Vagina dialogues. PMID:24594865
The mucosal microbiome in shaping health and disease. PMID:24592323
Carnitine metabolism to trimethylamine by an unusual Rieske-type oxygenase from human microbiota. PMID:24591617
The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing. PMID:24586470
A compositional look at the human gastrointestinal microbiome and immune activation parameters in HIV infected subjects. PMID:24586144
Metabolic alterations to the mucosal microbiota in inflammatory bowel disease. PMID:24583479
Genetic dysbiosis: the role of microbial insults in chronic inflammatory diseases. PMID:24578801
Gut microbiota dictates the metabolic response of Drosophila to diet. PMID:24577449
Inflammation and colorectal cancer, when microbiota-host mutualism breaks. PMID:24574765
The microbiome: what it means for medicine. PMID:24567626
Phenol soluble modulin (PSM) variants of community-associated methicillin-resistant Staphylococcus aureus (MRSA) captured using mass spectrometry-based molecular networking. PMID:24567418
MetaID: a novel method for identification and quantification of metagenomic samples. PMID:24564518
Pathogens and host immunity in the ancient human oral cavity. PMID:24562188
The microbiome in inflammatory bowel disease: current status and the future ahead. PMID:24560869
An improved dual-indexing approach for multiplexed 16S rRNA gene sequencing on the Illumina MiSeq platform. PMID:24558975
Saliva microbiota carry caries-specific functional gene signatures. PMID:24533043
Altered fecal microbiota composition associated with food allergy in infants. PMID:24532064
Current understanding on the role of standard and immunoproteasomes in inflammatory/immunological pathways of multiple sclerosis. PMID:24523959
Strain/species identification in metagenomes using genome-specific markers. PMID:24523352
Human papillomavirus community in healthy persons, defined by metagenomics analysis of human microbiome project shotgun sequencing data sets. PMID:24522917
Urinary bacteria in adult women with urgency urinary incontinence. PMID:24515544
Composition of microbial oral biofilms during maturation in young healthy adults. PMID:24503584
Symbiosis as a general principle in eukaryotic evolution. PMID:24492707
Architectural design drives the biogeography of indoor bacterial communities. PMID:24489843
Identification of a proton-chloride antiporter (EriC) by Himar1 transposon mutagenesis in Lactobacillus reuteri and its role in histamine production. PMID:24488273
Compositional and functional features of the gastrointestinal microbiome and their effects on human health. PMID:24486050
In vivo Pyro-SIP assessing active gut microbiota of the cotton leafworm, Spodoptera littoralis. PMID:24475063
Bacterial communities in Malagasy soils with differing levels of disturbance affecting botanical diversity. PMID:24465484
A discrete genetic locus confers xyloglucan metabolism in select human gut Bacteroidetes. PMID:24463512
Modulation of Intestinal TLR4-Inflammatory Signaling Pathways by Probiotic Microorganisms: Lessons Learned from Lactobacillus jensenii TL2937. PMID:24459463
Recruiting human microbiome shotgun data to site-specific reference genomes. PMID:24454771
Comparison of Gut Microbiota between Sasang Constitutions. PMID:24454486
The marriage of nutrigenomics with the microbiome: the case of infant-associated bifidobacteria and milk. PMID:24452239
Community differentiation of the cutaneous microbiota in psoriasis. PMID:24451201
HIV Infection is associated with compositional and functional shifts in the rectal mucosal microbiota. PMID:24451087
An in vitro biofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome. PMID:24451062
Integrative analysis of the microbiome and metabolome of the human intestinal mucosal surface reveals exquisite inter-relationships. PMID:24450808
From meta-omics to causality: experimental models for human microbiome research. PMID:24450613
Ecological succession and stochastic variation in the assembly of Arabidopsis thaliana phyllosphere communities. PMID:24449749
Human gut microbes use multiple transporters to distinguish vitamin B₁₂ analogs and compete in the gut. PMID:24439897
Technology and techniques for microbial ecology via DNA sequencing. PMID:24437399
The role of metagenomics in understanding the human microbiome in health and disease. PMID:24429972
Prenatal and childhood infections: implications for the development and treatment of childhood asthma. PMID:24429277
Autism: metabolism, mitochondria, and the microbiome. PMID:24416709
A taxonomic signature of obesity in the microbiome? Getting to the guts of the matter. PMID:24416266
Staphylococcus aureus Colonization: Modulation of Host Immune Response and Impact on Human Vaccine Design. PMID:24409186
Great expectorations: the potential of salivary 'omic' approaches in neonatal intensive care. PMID:24406743
Immunologic Factors in Human Milk and Disease Prevention in the Preterm Infant. PMID:24392283
Development and validation of a microarray for the investigation of the CAZymes encoded by the human gut microbiome. PMID:24391873
In silico analysis of antibiotic resistance genes in the gut microflora of individuals from diverse geographies and age-groups. PMID:24391833
The microbiome of the middle meatus in healthy adults. PMID:24386477
Comparison of the bacterial composition and structure in symptomatic and asymptomatic endodontic infections associated with root-filled teeth using pyrosequencing. PMID:24386438
Regulatory circuits that enable proliferation of the fungus Candida albicans in a mammalian host. PMID:24385896
Microbiome analysis of stool samples from African Americans with colon polyps. PMID:24376500
Genomics, personalized medicine, and pediatrics. PMID:24369865
Illness and death in the universe. PMID:24361027
The potential link between gut microbiota and IgE-mediated food allergy in early life. PMID:24351744
Sputum microbiota associated with new, recurrent and treatment failure tuberculosis. PMID:24349510
Evaluating the impact of different sequence databases on metaproteome analysis: insights from a lab-assembled microbial mixture. PMID:24349410
A metagenomic framework for the study of airborne microbial communities. PMID:24349140
The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes. PMID:24336862
Nasal microenvironments and interspecific interactions influence nasal microbiota complexity and S. aureus carriage. PMID:24331461
The environment ontology: contextualising biological and biomedical entities. PMID:24330602
Expanding the catalog of cas genes with metagenomes. PMID:24319142
Metagenomics and novel gene discovery: promise and potential for novel therapeutics. PMID:24317337
Human gut microbiome and risk for colorectal cancer. PMID:24316595
Microbial terroir for wine grapes. PMID:24309378
Microbiota dynamics in patients treated with fecal microbiota transplantation for recurrent Clostridium difficile infection. PMID:24303043
Emerging roles of the microbiome in cancer. PMID:24302613
Microbial ecology of the skin in the era of metagenomics and molecular microbiology. PMID:24296350
Evolutionary origins and diversification of proteobacterial mutualists. PMID:24285193
EMPeror: a tool for visualizing high-throughput microbial community data. PMID:24280061
What Lives On Our Skin: Ecology, Genomics and Therapeutic Opportunities Of the Skin Microbiome. PMID:24273587
Functions of the skin microbiota in health and disease. PMID:24268438
Identification of Streptococcus parasanguinis DNA contamination in human buccal DNA samples. PMID:24266944
A modular organization of the human intestinal mucosal microbiota and its association with inflammatory bowel disease. PMID:24260458
Microbiome and mucosal inflammation as extra-articular triggers for rheumatoid arthritis and autoimmunity. PMID:24247114
Structure and function of the human skin microbiome. PMID:24238601
Resistant starch: promise for improving human health. PMID:24228189
High-resolution microbial community reconstruction by integrating short reads from multiple 16S rRNA regions. PMID:24214960
Next generation sequencing shows high variation of the intestinal microbial species composition in Atlantic cod caught at a single location. PMID:24206635
The living dead: bacterial community structure of a cadaver at the onset and end of the bloat stage of decomposition. PMID:24204941
Two new computational methods for universal DNA barcoding: a benchmark using barcode sequences of bacteria, archaea, animals, fungi, and land plants. PMID:24204702
Utilisation of mucin glycans by the human gut symbiont Ruminococcus gnavus is strain-dependent. PMID:24204617
MetaRef: a pan-genomic database for comparative and community microbial genomics. PMID:24203705
Metabolomics as a diagnostic tool in gastroenterology. PMID:24199025
Gut microbiome and metabolic diseases. PMID:24196453
Frequent replenishment sustains the beneficial microbiome of Drosophila melanogaster. PMID:24194543
Expansion of intestinal Prevotella copri correlates with enhanced susceptibility to arthritis. PMID:24192039
Gut Lactobacillales are associated with higher CD4 and less microbial translocation during HIV infection. PMID:24180001
The role of the human microbiome in otolaryngology-head and neck surgery: a contemporary review. PMID:24178066
Diet alters both the structure and taxonomy of the ovine gut microbial ecosystem. PMID:24170804
The altered landscape of the human skin microbiome in patients with primary immunodeficiencies. PMID:24170601
Microbiome assembly across multiple body sites in low-birthweight infants. PMID:24169577
Peripheral education of the immune system by the colonic microbiota. PMID:24169518
Understanding and modulating mammalian-microbial communication for improved human health. PMID:24160697
Inflammation-induced cancer: crosstalk between tumours, immune cells and microorganisms. PMID:24154716
Gas and the microbiome. PMID:24150797
Bringing the gut microbiota into focus through microbial culture: recent progress and future perspective. PMID:24148301
Reconstructing the genomic content of microbiome taxa through shotgun metagenomic deconvolution. PMID:24146609
The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria. PMID:24137540
The microbiome and cancer. PMID:24132111
Fungal adenylyl cyclase acts as a signal sensor and integrator and plays a central role in interaction with bacteria. PMID:24130478
Patent human infections with the whipworm, Trichuris trichiura, are not associated with alterations in the faecal microbiota. PMID:24124574
Lactobacillus reuteri-specific immunoregulatory gene rsiR modulates histamine production and immunomodulation by Lactobacillus reuteri. PMID:24123819
The impact of Helicobacter pylori infection on the gastric microbiota of the rhesus macaque. PMID:24116104
Gene-targeted metagenomic analysis of glucan-branching enzyme gene profiles among human and animal fecal microbiota. PMID:24108330
Intestinal microbiome and digoxin inactivation: meal plan for digoxin users? PMID:24105082
Microbiota-mediated colonization resistance against intestinal pathogens. PMID:24096337
Assembling single-cell genomes and mini-metagenomes from chimeric MDA products. PMID:24093227
A new method for extracting skin microbes allows metagenomic analysis of whole-deep skin. PMID:24073227
Advancing our understanding of the human microbiome using QIIME. PMID:24060131
Exploring variation-aware contig graphs for (comparative) metagenomics using MaryGold. PMID:24058058
Metagenomics for pathogen detection in public health. PMID:24050114
Bacterial diversity associated with the tunic of the model chordate Ciona intestinalis. PMID:24048225
Advances in inflammatory bowel disease pathogenesis: linking host genetics and the microbiome. PMID:24037875
Human gut microbiota community structures in urban and rural populations in Russia. PMID:24036685
The saliva microbiome of Pan and Homo. PMID:24025115
Experimental approaches for defining functional roles of microbes in the human gut. PMID:24024637
Systems biology approaches to epidemiological studies of complex diseases. PMID:24019288
Current status and future promise of the human microbiome. PMID:24010110
Gut microbiota from twins discordant for obesity modulate metabolism in mice. PMID:24009397
Pathogenesis of human enterovirulent bacteria: lessons from cultured, fully differentiated human colon cancer cell lines. PMID:24006470
Trans-acting small interfering RNA4: key to nutraceutical synthesis in grape development? PMID:23993483
Short-chain fatty acid fermentation products of the gut microbiome: implications in autism spectrum disorders. PMID:23990817
Understanding the interactions between bacteria in the human gut through metabolic modeling. PMID:23982459
Complement modulates the cutaneous microbiome and inflammatory milieu. PMID:23980152
Fungi of the murine gut: episodic variation and proliferation during antibiotic treatment. PMID:23977147
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PMID:23976882
Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences. PMID:23975157
The role of the gastrointestinal microbiome in Helicobacter pylori pathogenesis. PMID:23962822
Clinical implications of shared genetics and pathogenesis in autoimmune diseases. PMID:23959365
UPARSE: highly accurate OTU sequences from microbial amplicon reads. PMID:23955772
Bacterial colonization factors control specificity and stability of the gut microbiota. PMID:23955152
Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment. PMID:23954159
Intestinal microbiota composition of interleukin-10 deficient C57BL/6J mice and susceptibility to Helicobacter hepaticus-induced colitis. PMID:23951007
Two-stage microbial community experimental design. PMID:23949665
Candida albicans and Enterococcus faecalis in the gut: synergy in commensalism? PMID:23941906
Investigating the impact of storage conditions on microbial community composition in soil samples. PMID:23936206
Human intestinal microbiota and type 1 diabetes. PMID:23934614
The relationship between advances in understanding the microbiome and the maturing hygiene hypothesis. PMID:23934550
Sequence-based discovery of Bradyrhizobium enterica in cord colitis syndrome. PMID:23924002
Interactions in the microbiome: communities of organisms and communities of genes. PMID:23909933
Functional profiling of the gut microbiome in disease-associated inflammation. PMID:23906180
Lifestyle, dietary factors, and antibody levels to oral bacteria in cancer-free participants of a European cohort study. PMID:23901020
The human mycobiome in health and disease. PMID:23899327
Interspecies communication among commensal and pathogenic streptococci. PMID:23882015
Prospecting environmental mycobacteria: combined molecular approaches reveal unprecedented diversity. PMID:23874704
Production of α-galactosylceramide by a prominent member of the human gut microbiota. PMID:23874157
Looking at microbial metabolism by high-resolution (2)H-NMR spectroscopy. PMID:23862103
Meta-analyses of studies of the human microbiota. PMID:23861384
Metabolic modeling of species interaction in the human microbiome elucidates community-level assembly rules. PMID:23858463
The Bfp60 surface adhesin is an extracellular matrix and plasminogen protein interacting in Bacteroides fragilis. PMID:23850366
Perturbation of the indigenous rat oral microbiome by ciprofloxacin dosing. PMID:23844936
Reduced incidence of Prevotella and other fermenters in intestinal microflora of autistic children. PMID:23844187
Replenishing our defensive microbes. PMID:23836415
Resident commensals shaping immunity. PMID:23830047
The long-term stability of the human gut microbiota. PMID:23828941
The microbial metabolites, short-chain fatty acids, regulate colonic Treg cell homeostasis. PMID:23828891
Natural selection in a bangladeshi population from the cholera-endemic ganges river delta. PMID:23825302
Real-time metabolomics on living microorganisms using ambient electrospray ionization flow-probe. PMID:23819546
Role of the gut microbiota in health and chronic gastrointestinal disease: understanding a hidden metabolic organ. PMID:23814609
Gut microbiota and type 1 diabetes. PMID:23804264
Beyond classification: gene-family phylogenies from shotgun metagenomic reads enable accurate community analysis. PMID:23799973
Identification of bacterial infection in neotropical primates. PMID:23797292
Skin microbiome imbalance in patients with STAT1/STAT3 defects impairs innate host defense responses. PMID:23796786
Systems biological approaches to measure and understand vaccine immunity in humans. PMID:23796714
Microbial brokers of insect-plant interactions revisited. PMID:23793897
Development of a dual-index sequencing strategy and curation pipeline for analyzing amplicon sequence data on the MiSeq Illumina sequencing platform. PMID:23793624
Commensal bacteria at the interface of host metabolism and the immune system. PMID:23778795
The role of the immune system in governing host-microbe interactions in the intestine. PMID:23778793
Compartmentalized and systemic control of tissue immunity by commensals. PMID:23778791
NOD2 prevents emergence of disease-predisposing microbiota. PMID:23778641
Archaea on human skin. PMID:23776475
Oral microbiome of deep and shallow dental pockets in chronic periodontitis. PMID:23762384
Random sampling process leads to overestimation of β-diversity of microbial communities. PMID:23760464
Pyrosequencing analysis of the human microbiota of healthy Chinese undergraduates. PMID:23758874
The abundance and variety of carbohydrate-active enzymes in the human gut microbiota. PMID:23748339
Pathways in microbe-induced obesity. PMID:23747247
The moron comes of age. PMID:23739268
A metabolomic view of how the human gut microbiota impacts the host metabolome using humanized and gnotobiotic mice. PMID:23739052
Challenges and opportunities for faecal microbiota transplantation therapy. PMID:23735045
Viral pathogen discovery. PMID:23725672
The inconstant gut microbiota of Drosophila species revealed by 16S rRNA gene analysis. PMID:23719154
Diversity of the vaginal microbiome correlates with preterm birth. PMID:23715799
Topographic diversity of fungal and bacterial communities in human skin. PMID:23698366
Molecular insights into microbial β-glucuronidase inhibition to abrogate CPT-11 toxicity. PMID:23690068
The human microbiome is a source of therapeutic drug targets. PMID:23680493
Volatile metabolites of pathogens: a systematic review. PMID:23675295
Metagenomic sequencing reveals microbiota and its functional potential associated with periodontal disease. PMID:23673380
Microbial genomics: an increasingly revealing interface in human health and disease. PMID:23673079
Analyses of the stability and core taxonomic memberships of the human microbiome. PMID:23671663
Computational meta'omics for microbial community studies. PMID:23670539
Genomic diversity and fitness of E. coli strains recovered from the intestinal and urinary tracts of women with recurrent urinary tract infection. PMID:23658245
After the gold rush. PMID:23657273
The genome solver website: a virtual space fostering high impact practices for undergraduate biology. PMID:23653812
Mobile genetic elements of the human gastrointestinal tract: potential for spread of antibiotic resistance genes. PMID:23651955
The role of the environment in the development of pediatric inflammatory bowel disease. PMID:23640032
Significant changes in the skin microbiome mediated by the sport of roller derby. PMID:23638391
Pan-genome and comparative genome analyses of propionibacterium acnes reveal its genomic diversity in the healthy and diseased human skin microbiome. PMID:23631911
phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PMID:23630581
Structure, function, and biology of the Enterococcus faecalis cytolysin. PMID:23628786
CRISPR-Cas systems target a diverse collection of invasive mobile genetic elements in human microbiomes. PMID:23628424
Investigators' perspectives on translating human microbiome research into clinical practice. PMID:23615375
Investigation of the effect of type 2 diabetes mellitus on subgingival plaque microbiota by high-throughput 16S rDNA pyrosequencing. PMID:23613868
The microbiota and human health: beyond exploration. PMID:23611431
Microbiomes. PMID:23604403
Cohabiting family members share microbiota with one another and with their dogs. PMID:23599893
Beyond phylotyping: understanding the impact of gut microbiota on host biology. PMID:23594242
Identification of optimum sequencing depth especially for de novo genome assembly of small genomes using next generation sequencing data. PMID:23593174
Exploring host-microbiota interactions in animal models and humans. PMID:23592793
Diversity and heritability of the maize rhizosphere microbiome under field conditions. PMID:23576752
Fame and future of faecal transplantations--developing next-generation therapies with synthetic microbiomes. PMID:23574632
Towards polypharmacokinetics: pharmacokinetics of multicomponent drugs and herbal medicines using a metabolomics approach. PMID:23573155
The human gut microbiome: a review of the effect of obesity and surgically induced weight loss. PMID:23571517
Country-specific antibiotic use practices impact the human gut resistome. PMID:23568836
Data-independent microbial metabolomics with ambient ionization mass spectrometry. PMID:23568029
Medicines from microbiota. PMID:23563425
The startup bugs. PMID:23563414
Multiple single-cell genomes provide insight into functions of uncultured Deltaproteobacteria in the human oral cavity. PMID:23555659
From gut changes to type 2 diabetes remission after gastric bypass surgeries. PMID:23553469
Quantifying the metabolic activities of human-associated microbial communities across multiple ecological scales. PMID:23550823
Upper gastrointestinal microbiota and digestive diseases. PMID:23539678
Diversity and abundance of the bacterial community of the red Macroalga Porphyra umbilicalis: did bacterial farmers produce macroalgae? PMID:23526971
The dental plaque microbiome in health and disease. PMID:23520516
A novel metatranscriptomic approach to identify gene expression dynamics during extracellular electron transfer. PMID:23511466
UGA is an additional glycine codon in uncultured SR1 bacteria from the human microbiota. PMID:23509275
Comparison of the respiratory microbiome in healthy nonsmokers and smokers. PMID:23491408
The skin microbiome: current perspectives and future challenges. PMID:23489584
From molecules to dynamic biological communities. PMID:23483075
Man and his spaceships: Vehicles for extraterrestrial colonization? PMID:23481263
'Blooming' in the gut: how dysbiosis might contribute to pathogen evolution. PMID:23474681
Xenobiotics and the human gut microbiome: metatranscriptomics reveal the active players. PMID:23473028
Fecal microbiota diversity in survivors of adolescent/young adult Hodgkin lymphoma: a study of twins. PMID:23443674
Patterns of prokaryotic lateral gene transfers affecting parasitic microbial eukaryotes. PMID:23442822
Cellulose supplementation early in life ameliorates colitis in adult mice. PMID:23437211
The gut microbiota--masters of host development and physiology. PMID:23435359
From evolution to revolution: miRNAs as pharmacological targets for modulating cholesterol efflux and reverse cholesterol transport. PMID:23435093
Protein signature-based estimation of metagenomic abundances including all domains of life and viruses. PMID:23418187
Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions. PMID:23416520
The human gut microbiome and body metabolism: implications for obesity and diabetes. PMID:23401286
Ketone body metabolism and cardiovascular disease. PMID:23396451
The microbiome extends to subepidermal compartments of normal skin. PMID:23385576
The role of the microbiome in rheumatic diseases. PMID:23378145
Maximum likelihood estimation of frequencies of known haplotypes from pooled sequence data. PMID:23364324
Sequence assembly demystified. PMID:23358380
Distinct distal gut microbiome diversity and composition in healthy children from Bangladesh and the United States. PMID:23349750
Diet-microbiota interactions and their implications for healthy living. PMID:23344252
Understanding the microbiota in the midst of Renaissance architecture and olive groves. PMID:23334821
Xenobiotics shape the physiology and gene expression of the active human gut microbiome. PMID:23332745
The human microbiome: from symbiosis to pathogenesis. PMID:23327521
A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets. PMID:23326225
Regulation of intestinal microbiota by the NLR protein family. PMID:23325116
MetAMOS: a modular and open source metagenomic assembly and analysis pipeline. PMID:23320958
Effects of probiotics on gut microbiota: mechanisms of intestinal immunomodulation and neuromodulation. PMID:23320049
Biogeography of the ecosystems of the healthy human body. PMID:23316946
The subgingival microbiome in health and periodontitis and its relationship with community biomass and inflammation. PMID:23303375
Chapter 12: Human microbiome analysis. PMID:23300406
Quantitation and composition of cutaneous microbiota in diabetic and nondiabetic men. PMID:23300163
Implications of the human microbiome project for epidemiology. PMID:23296358
Immune mechanisms and the impact of the disrupted lung microbiome in chronic bacterial lung infection and bronchiectasis. PMID:23286938
Microbial analysis of bite marks by sequence comparison of streptococcal DNA. PMID:23284761
Ray Meta: scalable de novo metagenome assembly and profiling. PMID:23259615
Proteome-wide selected reaction monitoring assays for the human pathogen Streptococcus pyogenes. PMID:23250431
New insights into probiotic mechanisms: a harvest from functional and metagenomic studies. PMID:23249742
High-resolution deep sequencing reveals biodiversity, population structure, and persistence of HIV-1 quasispecies within host ecosystems. PMID:23244298
Regulation of wound healing and organ fibrosis by toll-like receptors. PMID:23220258
Symptomatic atherosclerosis is associated with an altered gut metagenome. PMID:23212374
Integrated metagenomics/metaproteomics reveals human host-microbiota signatures of Crohn's disease. PMID:23209564
Bioinformatics for the Human Microbiome Project. PMID:23209389
Molecular nutrition research: the modern way of performing nutritional science. PMID:23208524
Gut Pharmacomicrobiomics: the tip of an iceberg of complex interactions between drugs and gut-associated microbes. PMID:23194438
Physiological role for nitrate-reducing oral bacteria in blood pressure control. PMID:23183324
Next-generation sequencing in the clinic: promises and challenges. PMID:23174106
The Human Microbiome Project strategy for comprehensive sampling of the human microbiome and why it matters. PMID:23165986
Interactions between parasites and microbial communities in the human gut. PMID:23162802
[Skin bacteria direct the immune response]. PMID:23160452
Microbiome dynamics of human epidermis following skin barrier disruption. PMID:23153041
Knowing your friends: invertebrate innate immunity fosters beneficial bacterial symbioses. PMID:23147708
Are there acyl-homoserine lactones within mammalian intestines? PMID:23144246
Biodiversity and functional genomics in the human microbiome. PMID:23140990
Estimation of distribution overlap of urn models. PMID:23139734
Genome sequencing in clinical microbiology. PMID:23138305
The response of human skin commensal bacteria as a reflection of UV radiation: UV-B decreases porphyrin production. PMID:23133525
Disruption of the human gut microbiota following Norovirus infection. PMID:23118957
Intestinal commensal microbes as immune modulators. PMID:23084918
Species-level analysis of DNA sequence data from the NIH Human Microbiome Project. PMID:23071716
Categorization of the gut microbiota: enterotypes or gradients? PMID:23066529
MR1 presents microbial vitamin B metabolites to MAIT cells. PMID:23051753
Shifts in human skin and nares microbiota of healthy children and adults. PMID:23050952
Probiotics, prebiotics, and synbiotics: gut and beyond. PMID:23049548
Antibiotic exposure promotes fat gain. PMID:23040064
Microbial regulation of glucose metabolism and cell-cycle progression in mammalian colonocytes. PMID:23029553
A metagenome-wide association study of gut microbiota in type 2 diabetes. PMID:23023125
Dysfunction of the intestinal microbiome in inflammatory bowel disease and treatment. PMID:23013615
Molecular analysis of model gut microbiotas by imaging mass spectrometry and nanodesorption electrospray ionization reveals dietary metabolite transformations. PMID:23009651
Plasma antibodies to oral bacteria and risk of pancreatic cancer in a large European prospective cohort study. PMID:22990306
The hidden hordes. PMID:22977920
Genomic approaches to studying the human microbiota. PMID:22972298
Diversity, stability and resilience of the human gut microbiota. PMID:22972295
Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour. PMID:22968153
A direct PCR approach to accelerate analyses of human-associated microbial communities. PMID:22962617
Metagenomics with guts. PMID:22961340
Novel device to sample the esophageal microbiome--the esophageal string test. PMID:22957025
The Human Microbiome Project: a community resource for the healthy human microbiome. PMID:22904687
Developing a metagenomic view of xenobiotic metabolism. PMID:22902524
A complex microworld in the gut: gut microbiota and cardiovascular disease connectivity. PMID:22869188
The "most wanted" taxa from the human microbiome for whole genome sequencing. PMID:22848458
Compartmentalized control of skin immunity by resident commensals. PMID:22837383
Microbial co-occurrence relationships in the human microbiome. PMID:22807668
Microbial interactions: from networks to models. PMID:22796884
Microbes en masse: The sequencing machine. PMID:22785293
Microbiology: Learning about who we are. PMID:22699602
Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples. PMID:22698087
A framework for human microbiome research PubMed citations: 937.

937 articles citing: A framework for human microbiome research

The Core Human Microbiome: Does It Exist and How Can We Find It? A Critical Review of the Concept. PMID:35889831
Mechanisms of Short-Chain Fatty Acids Derived from Gut Microbiota in Alzheimer's Disease. PMID:35855330
Ecosystem-specific microbiota and microbiome databases in the era of big data. PMID:35842686
Dietary Fatty Acid Intake and the Colonic Gut Microbiota in Humans. PMID:35807903
Human Adult Microbiota in a Static Colon Model: AhR Transcriptional Activity at the Crossroads of Host-Microbe Interaction. PMID:35804761
Current State and Challenges of the Global Outcomes of Dental Caries Research in the Meta-Omics Era. PMID:35782115
Immune Activation, Exhaustion and Senescence Profiles as Possible Predictors of Cancer in Liver Transplanted Patients. PMID:35769714
A Platform for Co-Culture of Primary Human Colonic Epithelium With Anaerobic Probiotic Bacteria. PMID:35757791
Variability in the Pre-Analytical Stages Influences Microbiome Laboratory Analyses. PMID:35741831
Short- and long-read metagenomics expand individualized structural variations in gut microbiomes. PMID:35676264
Machine Learning Based Microbiome Signature to Predict Inflammatory Bowel Disease Subtypes. PMID:35663898
High-Resolution Metagenomics of Human Gut Microbiota Generated by Nanopore and Illumina Hybrid Metagenome Assembly. PMID:35633679
A Resistome Roadmap: From the Human Body to Pristine Environments. PMID:35633673
Genetic Elements Orchestrating Lactobacillus crispatus Glycogen Metabolism in the Vagina. PMID:35628398
Efficacy of Combining an Extraoral High-Volume Evacuator with Preprocedural Mouth Rinsing in Reducing Aerosol Contamination Produced by Ultrasonic Scaling. PMID:35627588
The Emerging Role of the Gut Microbiome in Cardiovascular Disease: Current Knowledge and Perspectives. PMID:35625685
Gallbladder microbiota composition is associated with pancreaticobiliary and gallbladder cancer prognosis. PMID:35624429
Review article: the future of microbiome-based therapeutics. PMID:35611465
The standardisation of the approach to metagenomic human gut analysis: from sample collection to microbiome profiling. PMID:35589762
Generation and application of pseudo-long reads for metagenome assembly. PMID:35579554
Metagenomic Shotgun Sequencing of Endocervical, Vaginal, and Rectal Samples among Fijian Women with and without Chlamydia trachomatis Reveals Disparate Microbial Populations and Function across Anatomic Sites: a Pilot Study. PMID:35579443
Rapid evolution and strain turnover in the infant gut microbiome. PMID:35545448
Standards for Collection, Preservation, and Transportation of Fecal Samples in TCM Clinical Trials. PMID:35521221
Gut microbiota: a new angle for traditional herbal medicine research. PMID:35519900
Functional role of the cancer microbiome in the solid tumour niche. PMID:35492394
MicrobioSee: A Web-Based Visualization Toolkit for Multi-Omics of Microbiology. PMID:35464838
Possible Interactions between Malaria, Helminthiases and the Gut Microbiota: A Short Review. PMID:35456772
Non-Invasive Physical Plasma Generated by a Medical Argon Plasma Device Induces the Expression of Regenerative Factors in Human Gingival Keratinocytes, Fibroblasts, and Tissue Biopsies. PMID:35453639
Early indicators of microbial strain dysbiosis in the human gastrointestinal microbial community of certain healthy humans and hospitalized COVID-19 patients. PMID:35449389
Effect of Cistanche deserticola on Rumen Microbiota and Rumen Function in Grazing Sheep. PMID:35432287
Precise genotyping of circular mobile elements from metagenomic data uncovers human-associated plasmids with recent common ancestors. PMID:35414589
Depression, Is It Treatable in Adults Utilising Dietary Interventions? A Systematic Review of Randomised Controlled Trials. PMID:35406011
Assess the diversity of gut microbiota among healthy adults for forensic application. PMID:35331204
A Systematic Review of Psychobiotic Interventions in Children and Adolescents to Enhance Cognitive Functioning and Emotional Behavior. PMID:35276975
Integrated metagenomics identifies a crucial role for trimethylamine-producing Lachnoclostridium in promoting atherosclerosis. PMID:35273169
IFAA: Robust Association Identification and Inference for Absolute Abundance in Microbiome Analyses. PMID:35241863
Metagenomic Sequencing for Microbial DNA in Human Samples: Emerging Technological Advances. PMID:35216302
Thicker Retinal Nerve Fiber Layer with Age among Schoolchildren: The Hong Kong Children Eye Study. PMID:35204590
Intratumoral Microbiome of Human Primary Liver Cancer. PMID:35191218
Increasing prediction performance of colorectal cancer disease status using random forests classification based on metagenomic shotgun sequencing data. PMID:35155839
The emerging potential of microbiome transplantation on human health interventions. PMID:35140882
Beware to ignore the rare: how imputing zero-values can improve the quality of 16S rRNA gene studies results. PMID:35130833
Association Between Vaginal Gardnerella and Tubal Pregnancy in Women With Symptomatic Early Pregnancies in China: A Nested Case-Control Study. PMID:35111691
Molecular diagnostics of Salmonella and Campylobacter in human/animal fecal samples remain feasible after long-term sample storage without specific requirements. PMID:35071939
Functional roles of the microbiota-gut-brain axis in Alzheimer's disease: Implications of gut microbiota-targeted therapy. PMID:35070442
Exploring the universal healthy human gut microbiota around the World. PMID:35035791
Age-Associated Gut Dysbiosis, Marked by Loss of Butyrogenic Potential, Correlates With Altered Plasma Tryptophan Metabolites in Older People Living With HIV. PMID:35015746
Hepatic stellate cell activation and senescence induced by intrahepatic microbiota disturbances drive progression of liver cirrhosis toward hepatocellular carcinoma. PMID:34996812
Advances in the Progression and Prognosis Biomarkers of Chronic Kidney Disease. PMID:34992536
Distinct Metagenomic Signatures in the SARS-CoV-2 Infection. PMID:34926314
Streptozotocin-induced hyperglycemia alters the cecal metabolome and exacerbates antibiotic-induced dysbiosis. PMID:34910917
Inconsistent Patterns of Microbial Diversity and Composition Between Highly Similar Sequencing Protocols: A Case Study With Reef-Building Corals. PMID:34899629
Impact of sleep on the microbiome of oral biofilms. PMID:34882696
The oral microbiome in alcohol use disorder: a longitudinal analysis during inpatient treatment. PMID:34880965
Metagenome-genome-wide association studies reveal human genetic impact on the oral microbiome. PMID:34873157
Dysbiosis in the Human Microbiome of Cholangiocarcinoma. PMID:34867436
Use of Physiologically Based Pharmacokinetic Modeling to Predict Human Gut Microbial Conversion of Daidzein to S-Equol. PMID:34855380
VFDB 2022: a general classification scheme for bacterial virulence factors. PMID:34850947
Altered gut bacterial and metabolic signatures and their interaction in inflammatory bowel disease. PMID:34820530
Airway microbiome dynamics and relationship to ventilator-associated infection in intubated pediatric patients. PMID:34811963
Microbiota links to neural dynamics supporting threat processing. PMID:34811847
It takes guts to learn: machine learning techniques for disease detection from the gut microbiome. PMID:34779841
Visualized analysis of trends and hotspots in global oral microbiome research: A bibliometric study. PMID:34766127
Computational Studies of the Intestinal Host-Microbiota Interactome. PMID:34765258
The Influence of FUT2 and FUT3 Polymorphisms and Nasopharyngeal Microbiome on Respiratory Infections in Breastfed Bangladeshi Infants from the Microbiota and Health Study. PMID:34756056
Probiotic supplementation: A prospective approach in the treatment of COVID-19. PMID:34747257
Metagenomic profiling of placental tissue suggests DNA virus infection of the placenta is rare. PMID:34723784
Multi-Similarities Bilinear Matrix Factorization-Based Method for Predicting Human Microbe-Disease Associations. PMID:34721543
Research progress of gut microbiota and frailty syndrome. PMID:34712824
Vascular Changes and Hypoxia in Periodontal Disease as a Link to Systemic Complications. PMID:34684229
Microbiome Forensic Biobanking: A Step toward Microbial Profiling for Forensic Human Identification. PMID:34683051
The importance of age in compositional and functional profiling of the human intestinal microbiome. PMID:34662347
Effects of Previous Kasai Surgery on Gut Microbiota and Bile Acid in Biliary Atresia With End-Stage Liver Disease. PMID:34646837
Diversity Scaling of Human Digestive Tract (DT) Microbiomes: The Intra-DT and Inter-individual Patterns. PMID:34630520
Procedures for Fecal Microbiota Transplantation in Murine Microbiome Studies. PMID:34621688
A Systematic Strategy to Find Potential Therapeutic Targets for Pseudomonas aeruginosa Using Integrated Computational Models. PMID:34616771
Probiotic lactobacilli in formulas and hygiene products for the health of the urogenital tract. PMID:34609059
A case of Castleman disease with hemophagocytic syndrome derived from HHV8 infection. PMID:34602082
In Situ Live Imaging of Gut Microbiota. PMID:34585961
Identification and Characterization of Human Observational Studies in Nutritional Epidemiology on Gut Microbiomics for Joint Data Analysis. PMID:34579168
Cigarette Smoking and Opium Use in Relation to the Oral Microbiota in Iran. PMID:34523990
The inflammatory microenvironment and the urinary microbiome in the initiation and progression of bladder cancer. PMID:34522708
The Challenge of ICIs Resistance in Solid Tumours: Could Microbiota and Its Diversity Be Our Secret Weapon? PMID:34489956
SalmoSim: the development of a three-compartment in vitro simulator of the Atlantic salmon GI tract and associated microbial communities. PMID:34465363
Molecular profiling and identification of prognostic factors in Chinese patients with small bowel adenocarcinoma. PMID:34449929
Altered Microbial Composition of Drug-Sensitive and Drug-Resistant TB Patients Compared with Healthy Volunteers. PMID:34442841
Understanding the Interactions Between the Ocular Surface Microbiome and the Tear Proteome. PMID:34369983
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
Culturable and Non-Culturable Blood Microbiota of Healthy Individuals. PMID:34361900
Recent developments in cancer research: Expectations for a new remedy. PMID:34337290
Gut Microbiome and Metabolites in Systemic Lupus Erythematosus: Link, Mechanisms and Intervention. PMID:34335588
Genomic Expansions in the Human Gut Microbiome. PMID:34332502
HumGut: a comprehensive human gut prokaryotic genomes collection filtered by metagenome data. PMID:34330336
A comprehensive approach for microbiota and health monitoring in mouse colonies using metagenomic shotgun sequencing. PMID:34325744
Association between Oral Microbiome and Esophageal Diseases: A State-of-the-Art Review. PMID:34315165
How stress, discrimination, acculturation and the gut microbiome affect depression, anxiety and sleep among Chinese and Korean immigrants in the USA: a cross-sectional pilot study protocol. PMID:34290066
Association between Human Genetic Variants and the Vaginal Bacteriome of Pregnant Women. PMID:34282934
Gut-microbiota-targeted diets modulate human immune status. PMID:34256014
Beating Naive Bayes at Taxonomic Classification of 16S rRNA Gene Sequences. PMID:34220738
Immune deserts in head and neck squamous cell carcinoma: A review of challenges and opportunities for modulating the tumor immune microenvironment. PMID:34218062
Exploring the Oral Microbiome in Rheumatic Diseases, State of Art and Future Prospective in Personalized Medicine with an AI Approach. PMID:34209167
Identifying a Novel Bile Salt Hydrolase from the Keystone Gut Bacterium Christensenella minuta. PMID:34207623
The maintenance of microbial community in human fecal samples by a cost effective preservation buffer. PMID:34188136
Gut microbiome and its meta-omics perspectives: profound implications for cardiovascular diseases. PMID:34170211
Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome. PMID:34168315
Binary Metabolic Phenotypes and Phenotype Diversity Metrics for the Functional Characterization of Microbial Communities. PMID:34113324
Expanding the taxonomic range in the fecal metagenome. PMID:34107881
Chemiluminescent Protease Probe for Rapid, Sensitive, and Inexpensive Detection of Live Mycobacterium tuberculosis. PMID:34079897
The pathogenic oral-gut-liver axis: new understandings and clinical implications. PMID:34057877
Shiftwork, functional bowel symptoms, and the microbiome. PMID:34026361
Fast and Accurate Classification of Meta-Genomics Long Reads With deSAMBA. PMID:34012962
Site- and Taxa-Specific Disease-Associated Oral Microbial Structures Distinguish Inflammatory Bowel Diseases. PMID:34002220
A cross-sectional analysis from the Mykinso Cohort Study: establishing reference ranges for Japanese gut microbial indices. PMID:33996369
Reconstruction of ancient microbial genomes from the human gut. PMID:33981035
Analysis of microbiota in the stomach and midgut of two penaeid shrimps during probiotic feeding. PMID:33976316
Evaluation of changes in intestinal microbiota in Crohn's disease patients after anti-TNF alpha treatment. PMID:33976272
The Gut-Brain-Microbiome Axis and Its Link to Autism: Emerging Insights and the Potential of Zebrafish Models. PMID:33937265
Oral-Gut Microbiome Axis in Gastrointestinal Disease and Cancer. PMID:33924899
Vaginal Probiotics for Reproductive Health and Related Dysbiosis: Systematic Review and Meta-Analysis. PMID:33918150
Performance evaluation of a new custom, multi-component DNA isolation method optimized for use in shotgun metagenomic sequencing-based aerosol microbiome research. PMID:33902731
Overview of the Microbiome Among Nurses study (Micro-N) as an example of prospective characterization of the microbiome within cohort studies. PMID:33883746
Bile Microbiota in Patients with Pigment Common Bile Duct Stones. PMID:33876584
Anxiolytic effects of a galacto-oligosaccharides prebiotic in healthy females (18-25 years) with corresponding changes in gut bacterial composition. PMID:33859330
Metabolic pathways inferred from a bacterial marker gene illuminate ecological changes across South Pacific frontal boundaries. PMID:33850115
Patient attitudes towards faecal sampling for gut microbiome studies and clinical care reveal positive engagement and room for improvement. PMID:33831035
Genome-Based Targeted Sequencing as a Reproducible Microbial Community Profiling Assay. PMID:33827913
Analysis of oral microbial dysbiosis associated with early childhood caries. PMID:33827534
Dysbiosis of the Human Oral Microbiome During the Menstrual Cycle and Vulnerability to the External Exposures of Smoking and Dietary Sugar. PMID:33816334
Metagenomic Analysis of the Respiratory Microbiome of a Broiler Flock from Hatching to Processing. PMID:33807233
Characterization of the Luminal and Mucosa-Associated Microbiome along the Gastrointestinal Tract: Results from Surgically Treated Preterm Infants and a Murine Model. PMID:33806771
Finding Colon Cancer- and Colorectal Cancer-Related Microbes Based on Microbe-Disease Association Prediction. PMID:33796094
Diversity and composition of gut microbiome of cervical cancer patients: Do results of 16S rRNA sequencing and whole genome sequencing approaches align? PMID:33785357
Taxonomic analysis of metagenomic data with kASA. PMID:33784400
Dissecting the contribution of host genetics and the microbiome in complex behaviors. PMID:33705688
Niche-neutral theoretic approach to mechanisms underlying the biodiversity and biogeography of human microbiomes. PMID:33664779
A prospective study of the adaptive changes in the gut microbiome during standard-of-care chemoradiotherapy for gynecologic cancers. PMID:33662003
Microbiome Analysis of More Than 2,000 NHS Bowel Cancer Screening Programme Samples Shows the Potential to Improve Screening Accuracy. PMID:33658300
Microbiome Analyses Demonstrate Specific Communities Within Five Shark Species. PMID:33643235
A Review on the Health Effects of Pesticides Based on Host Gut Microbiome and Metabolomics. PMID:33628766
Oncogenic mechanisms in renal insufficiency. PMID:33623673
Microbes As Friends, Not Foes: Shifting the Focus from Pathogenesis to Symbiosis. PMID:33603248
Amplicon-based skin microbiome profiles collected by tape stripping with different adhesive film dressings: a comparative study. PMID:33602131
Restructuring the Gut Microbiota by Intermittent Fasting Lowers Blood Pressure. PMID:33596669
MDAKRLS: Predicting human microbe-disease association based on Kronecker regularized least squares and similarities. PMID:33579301
Multi-omic modelling of inflammatory bowel disease with regularized canonical correlation analysis. PMID:33556098
Crossing Kingdoms: How the Mycobiota and Fungal-Bacterial Interactions Impact Host Health and Disease. PMID:33526565
Full-length 16S rRNA gene amplicon analysis of human gut microbiota using MinION™ nanopore sequencing confers species-level resolution. PMID:33499799
Gut Microbiota Functional Dysbiosis Relates to Individual Diet in Subclinical Carotid Atherosclerosis. PMID:33494335
The Protective Role of Probiotics against Colorectal Cancer. PMID:33488940
Whole microbial community viability is not quantitatively reflected by propidium monoazide sequencing approach. PMID:33478576
Next-Generation Sequencing for Determining the Effect of Arginine on Human Dental Biofilms Using an In Situ Model. PMID:33445627
Nutritional Support of Neurodevelopment and Cognitive Function in Infants and Young Children-An Update and Novel Insights. PMID:33435231
Potential use of molecular and structural characterization of the gut bacterial community for postmortem interval estimation in Sprague Dawley rats. PMID:33420339
Impacts of sleep on the characteristics of dental biofilm. PMID:33420225
Predicting drug-metagenome interactions: Variation in the microbial β-glucuronidase level in the human gut metagenomes. PMID:33411719
The Human Microbiome as a Focus of Antibiotic Discovery: Neisseria mucosa Displays Activity Against Neisseria gonorrhoeae. PMID:33343520
Safety and immunogenicity of an adjuvanted Escherichia coli adhesin vaccine in healthy women with and without histories of recurrent urinary tract infections: results from a first-in-human phase 1 study. PMID:33325785
Metapangenomics of the oral microbiome provides insights into habitat adaptation and cultivar diversity. PMID:33323129
Fructan-sensitive children with irritable bowel syndrome have distinct gut microbiome signatures. PMID:33314183
Bacterial O-GlcNAcase genes abundance decreases in ulcerative colitis patients and its administration ameliorates colitis in mice. PMID:33310751
Determinants of Staphylococcus aureus carriage in the developing infant nasal microbiome. PMID:33308267
HMPDACC: a Human Microbiome Project Multi-omic data resource. PMID:33305317
Deciphering functional redundancy in the human microbiome. PMID:33277504
Glioma and temozolomide induced alterations in gut microbiome. PMID:33273497
Update of Probiotics in Human World: A Nonstop Source of Benefactions till the End of Time. PMID:33266303
Autoimmune Gastritis and Gastric Microbiota. PMID:33228138
Identification of Natural CRISPR Systems and Targets in the Human Microbiome. PMID:33217332
Images of the month: Intrahepatic multiple low-signal lesions from Aeromonas salmonicida infection. PMID:33199338
Integrated-omics endotyping of infants with rhinovirus bronchiolitis and risk of childhood asthma. PMID:33197460
Refocusing Human Microbiota Research in Infectious and Immune-mediated Diseases: Advancing to the Next Stage. PMID:33188418
HLA-A alleles including HLA-A29 affect the composition of the gut microbiome: a potential clue to the pathogenesis of birdshot retinochoroidopathy. PMID:33077849
Probiotics in Medicine: A Long Debate. PMID:33072084
In silico benchmarking of metagenomic tools for coding sequence detection reveals the limits of sensitivity and precision. PMID:33059593
Trick or Treating in Forensics-The Challenge of the Saliva Microbiome: A Narrative Review. PMID:33003446
A Pan-Genome Guided Metabolic Network Reconstruction of Five Propionibacterium Species Reveals Extensive Metabolic Diversity. PMID:32977700
Power of Microbiome Beta-Diversity Analyses Based on Standard Reference Samples. PMID:32976571
The Genomics and Metagenomics of Asthma Severity (GEMAS) Study: Rationale and Design. PMID:32933076
Exercise immunology: Future directions. PMID:32928447
Associations of the intestinal microbiome with the complement system in neovascular age-related macular degeneration. PMID:32922859
Identification of multidimensional Boolean patterns in microbial communities. PMID:32917276
An Overview of Bioinformatics Tools for DNA Meta-Barcoding Analysis of Microbial Communities of Bioaerosols: Digest for Microbiologists. PMID:32911871
Oral microbiome and onset of oral mucositis in patients with squamous cell carcinoma of the head and neck. PMID:32888342
The vaginal microbiome of sub-Saharan African women: revealing important gaps in the era of next-generation sequencing. PMID:32879794
Toward an Understanding of the Pathophysiology of Chronic Laryngitis. PMID:32864454
Interplay between oral immunity in HIV and the microbiome. PMID:32862522
2000-year-old pathogen genomes reconstructed from metagenomic analysis of Egyptian mummified individuals. PMID:32859198
Gut microbiota in inflammatory bowel diseases: moving from basic science to clinical applications. PMID:32857194
The microbiome: an emerging key player in aging and longevity. PMID:32832742
Association of Bacteroides acidifaciens relative abundance with high-fibre diet-associated radiosensitisation. PMID:32811478
The evolution of universal adaptations of life is driven by universal properties of matter: energy, entropy, and interaction. PMID:32802320
Holo-Omics: Integrated Host-Microbiota Multi-omics for Basic and Applied Biological Research. PMID:32777774
The human gut archaeome: identification of diverse haloarchaea in Korean subjects. PMID:32753050
Consumption of a Western-Style Diet Modulates the Response of the Murine Gut Microbiome to Ciprofloxacin. PMID:32723789
Tumor microbial diversity and compositional differences among women in Botswana with high-grade cervical dysplasia and cervical cancer. PMID:32675252
The microbiome in urological diseases. PMID:32665990
Extremely preterm neonates have more Lactobacillus in meconium than very preterm neonates - the in utero microbial colonization hypothesis. PMID:32658601
Challenges and emerging systems biology approaches to discover how the human gut microbiome impact host physiology. PMID:32638331
An ecological framework to understand the efficacy of fecal microbiota transplantation. PMID:32620839
A theoretic approach to the mode of gut microbiome translocation in SIV-infected Asian macaques. PMID:32618338
Ultrasensitive amplicon barcoding for next-generation sequencing facilitating sequence error and amplification-bias correction. PMID:32601361
Stress ulcer prophylaxis versus placebo-a blinded randomized control trial to evaluate the safety of two strategies in critically ill infants with congenital heart disease (SUPPRESS-CHD). PMID:32600393
Tryptophan Metabolites Along the Microbiota-Gut-Brain Axis: An Interkingdom Communication System Influencing the Gut in Health and Disease. PMID:32577079
Standardizing translational microbiome studies and metagenomic analyses. PMID:32569375
Subgingival microbiome and clinical periodontal status in an elderly cohort: The WHICAP ancillary study of oral health. PMID:32533776
Comparison of lung microbiota between antineutrophil cytoplasmic antibody-associated vasculitis and sarcoidosis. PMID:32528054
Skin Microbiome Analysis for Forensic Human Identification: What Do We Know So Far? PMID:32527009
The promise and challenge of cancer microbiome research. PMID:32487228
The Bacterial Connection between the Oral Cavity and the Gut Diseases. PMID:32464078
Personalized whole-body models integrate metabolism, physiology, and the gut microbiome. PMID:32463598
Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians. PMID:32450885
Metaproteomic analysis of human gut microbiome in digestive and metabolic diseases. PMID:32448430
Defining the oral microbiome by whole-genome sequencing and resistome analysis: the complexity of the healthy picture. PMID:32423437
Dynamics of the Stool Virome in Very Early-Onset Inflammatory Bowel Disease. PMID:32406906
Understanding the microbiome: a primer on the role of the microbiome in colorectal neoplasia. PMID:32382225
Microbiota and Human Reproduction: The Case of Female Infertility. PMID:32375241
Predicting Microbe-Disease Association by Learning Graph Representations and Rule-Based Inference on the Heterogeneous Network. PMID:32351464
The Microbiome and the Gut-Liver-Brain Axis for Central Nervous System Clinical Pharmacology: Challenges in Specifying and Integrating In Vitro and In Silico Models. PMID:32347548
Advances in Understanding the Human Urinary Microbiome and Its Potential Role in Urinary Tract Infection. PMID:32345639
Pharmacodynamic Effects of Topical Omiganan in Patients With Mild to Moderate Atopic Dermatitis in a Randomized, Placebo-Controlled, Phase II Trial. PMID:32315497
Structure of the Mucosal and Stool Microbiome in Lynch Syndrome. PMID:32240601
Protocol for a Longitudinal Analysis of the Vaginal Microbiome from a Pregnant Cohort of African Women in Nigeria. PMID:32211223
Association of oral dysbiosis with oral cancer development. PMID:32211076
Gut Microbiota Dysbiosis in Patients with Biopsy-Proven Nonalcoholic Fatty Liver Disease: A Cross-Sectional Study in Taiwan. PMID:32204538
Antibiotic Treatments During Infancy, Changes in Nasal Microbiota, and Asthma Development: Population-based Cohort Study. PMID:32170305
Intestinal flora imbalance affects bile acid metabolism and is associated with gallstone formation. PMID:32143645
Predicting Microbiome Function Across Space Is Confounded by Strain-Level Differences and Functional Redundancy Across Taxa. PMID:32117131
Exploration of the Relationship Between Gut Microbiota and Polycystic Ovary Syndrome (PCOS): a Review. PMID:32109968
Microbial community analysis using high-throughput sequencing technology: a beginner's guide for microbiologists. PMID:32108314
Geographic Difference Shaped Human Ocular Surface Metagenome of Young Han Chinese From Beijing, Wenzhou, and Guangzhou Cities. PMID:32106294
A comprehensive non-redundant gene catalog reveals extensive within-community intraspecies diversity in the human vagina. PMID:32103005
Consolidation of Clinical Microbiology Laboratories and Introduction of Transformative Technologies. PMID:32102900
Improving Characterization of Understudied Human Microbiomes Using Targeted Phylogenetics. PMID:32098835
Dissociation of Adaptive Thermogenesis from Glucose Homeostasis in Microbiome-Deficient Mice. PMID:32084379
Computational methods for 16S metabarcoding studies using Nanopore sequencing data. PMID:32071706
IPCO: Inference of Pathways from Co-variance analysis. PMID:32070271
Network analyses in microbiome based on high-throughput multi-omics data. PMID:32047891
Beyond Taxonomic Analysis of Microbiomes: A Functional Approach for Revisiting Microbiome Changes in Colorectal Cancer. PMID:32038558
Oral and Gut Microbial Diversity and Immune Regulation in Patients with HIV on Antiretroviral Therapy. PMID:32024712
Potential impact of outpatient stewardship interventions on antibiotic exposures of common bacterial pathogens. PMID:32022685
Abundance and diversity of resistomes differ between healthy human oral cavities and gut. PMID:32019923
Microbial Diversity and Composition Is Associated with Patient-Reported Toxicity during Chemoradiation Therapy for Cervical Cancer. PMID:31987960
Microbiome applications for pathology: challenges of low microbial biomass samples during diagnostic testing. PMID:31944633
Characterization of the Gut Microbiota of Individuals at Different T2D Stages Reveals a Complex Relationship with the Host. PMID:31936722
Intermittent fasting from dawn to sunset for 30 consecutive days is associated with anticancer proteomic signature and upregulates key regulatory proteins of glucose and lipid metabolism, circadian clock, DNA repair, cytoskeleton remodeling, immune system and cognitive function in healthy subjects. PMID:31927066
Urinary Microbiome Evaluation in Patients Presenting with Hematuria with a Focus on Exposure to Tobacco Smoke. PMID:31921713
Gutted! Unraveling the Role of the Microbiome in Major Depressive Disorder. PMID:31913980
Regulation of host-microbe interactions at oral mucosal barriers by type 17 immunity. PMID:31901072
A Descriptive Review on the Prevalence of Gastrointestinal Disturbances and Their Multiple Associations in Autism Spectrum Disorder. PMID:31892195
Exploring the Archaeome: Detection of Archaeal Signatures in the Human Body. PMID:31866971
Minor compositional alterations in faecal microbiota after five weeks and five months storage at room temperature on filter papers. PMID:31831829
Systematic processing of ribosomal RNA gene amplicon sequencing data. PMID:31816087
A Novel Approach Based on Bipartite Network Recommendation and KATZ Model to Predict Potential Micro-Disease Associations. PMID:31803235
The Effect of Gut Microbiome Composition on Human Immune Responses: An Exploration of Interference by Helminth Infections. PMID:31781154
Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies. PMID:31772173
What's New in the Pathophysiology of Alopecia Areata? The Possible Contribution of Skin and Gut Microbiome in the Pathogenesis of Alopecia - Big Opportunities, Big Challenges, and Novel Perspectives. PMID:31728100
Association of Flavonifractor plautii, a Flavonoid-Degrading Bacterium, with the Gut Microbiome of Colorectal Cancer Patients in India. PMID:31719139
Comparison of oral microbiome profiles in stimulated and unstimulated saliva, tongue, and mouth-rinsed water. PMID:31695050
Oral Microbiome Alterations Associated with Early Childhood Caries Highlight the Importance of Carbohydrate Metabolic Activities. PMID:31690590
Timescales of gut microbiome dynamics. PMID:31689582
WMGHMDA: a novel weighted meta-graph-based model for predicting human microbe-disease association on heterogeneous information network. PMID:31675979
Retinal artery occlusion is associated with compositional and functional shifts in the gut microbiome and altered trimethylamine-N-oxide levels. PMID:31653902
The gut-eye-lacrimal gland-microbiome axis in Sjögren Syndrome. PMID:31644955
Influence of the Lung Microbiota Dysbiosis in Chronic Obstructive Pulmonary Disease Exacerbations: The Controversial Use of Corticosteroid and Antibiotic Treatments and the Role of Eosinophils as a Disease Marker. PMID:31636780
MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities. PMID:31629686
Impact of Early Life Antibiotic Exposure and Neonatal Hyperoxia on the Murine Microbiome and Lung Injury. PMID:31628395
Storage media and not extraction method has the biggest impact on recovery of bacteria from the oral microbiome. PMID:31628387
Antibiotics and Host-Tailored Probiotics Similarly Modulate Effects on the Developing Avian Microbiome, Mycobiome, and Host Gene Expression. PMID:31615957
TREM Receptors Connecting Bowel Inflammation to Neurodegenerative Disorders. PMID:31546668
A Literature Review of Metagenomics and Culturomics of the Peri-implant Microbiome: Current Evidence and Future Perspectives. PMID:31533226
Beyond cells - The virome in the human holobiont. PMID:31528630
Benchmarking urine storage and collection conditions for evaluating the female urinary microbiome. PMID:31527753
Microbial Metabolism Modulates Antibiotic Susceptibility within the Murine Gut Microbiome. PMID:31523007
Large scale microbiome profiling in the cloud. PMID:31510682
Gut microbial diversity and genus-level differences identified in cervical cancer patients versus healthy controls. PMID:31500892
Gut Microbiota Has a Widespread and Modifiable Effect on Host Gene Regulation. PMID:31481602
Global research trends in microbiome-gut-brain axis during 2009-2018: a bibliometric and visualized study. PMID:31470803
B cell superantigens in the human intestinal microbiota. PMID:31462512
Gut Microbiome Signatures Are Predictive of Infectious Risk Following Induction Therapy for Acute Myeloid Leukemia. PMID:31436833
The sex-specific interaction of the microbiome in neurodegenerative diseases. PMID:31419428
Association between the Gut Microbiota and Obesity. PMID:31406553
Tumor Microbiome Diversity and Composition Influence Pancreatic Cancer Outcomes. PMID:31398337
Microbiota and Its Role on Viral Evasion: Is It With Us or Against Us? PMID:31380299
Mapping Interactions of Microbial Metabolites with Human G-Protein-Coupled Receptors. PMID:31378678
Massive metagenomic data analysis using abundance-based machine learning. PMID:31370905
Identification of Patulin from Penicillium coprobium as a Toxin for Enteric Neurons. PMID:31366160
B-Vitamin Sharing Promotes Stability of Gut Microbial Communities. PMID:31333610
A structured weight loss program increases gut microbiota phylogenetic diversity and reduces levels of Collinsella in obese type 2 diabetics: A pilot study. PMID:31318902
Discovery of potential genes contributing to the biosynthesis of short-chain fatty acids and lactate in gut microbiota from systematic investigation in E. coli. PMID:31312512
A Comparative Analysis of Biosynthetic Gene Clusters in Lean and Obese Humans. PMID:31309109
Community analysis and co-occurrence patterns in airway microbial communities during health and disease. PMID:31304176
DAIRYdb: a manually curated reference database for improved taxonomy annotation of 16S rRNA gene sequences from dairy products. PMID:31286860
Trait-based analysis of the human skin microbiome. PMID:31277701
Metagenomics in ophthalmology: current findings and future prospectives. PMID:31276030
Bacterial biofilm composition in healthy subjects with and without caries experience. PMID:31275531
Analysis of RNA Methylation by Phylogenetically Diverse Cfr Radical S-Adenosylmethionine Enzymes Reveals an Iron-Binding Accessory Domain in a Clostridial Enzyme. PMID:31246421
Impact of Host DNA and Sequencing Depth on the Taxonomic Resolution of Whole Metagenome Sequencing for Microbiome Analysis. PMID:31244801
Pathogenic Autoreactive T and B Cells Cross-React with Mimotopes Expressed by a Common Human Gut Commensal to Trigger Autoimmunity. PMID:31227334
Fecal Microbial Transplantation for Diseases Beyond Recurrent Clostridium Difficile Infection. PMID:31220424
[Age distribution characteristics of intestinal segmented filamentous bacteria and their relationship with intestinal mucosal immunity in children]. PMID:31208505
Why targeting the microbiome is not so successful: can randomness overcome the adaptation that occurs following gut manipulation? PMID:31190948
Gut microbiome analysis by post: Evaluation of the optimal method to collect stool samples from infants within a national cohort study. PMID:31188837
Substrate preference of an ABC importer corresponds to selective growth on β-(1,6)-galactosides in Bifidobacterium animalis subsp. lactis. PMID:31186348
The Microbial Toxin Microcin B17: Prospects for the Development of New Antibacterial Agents. PMID:31181289
MiCoP: microbial community profiling method for detecting viral and fungal organisms in metagenomic samples. PMID:31167634
BiosyntheticSPAdes: reconstructing biosynthetic gene clusters from assembly graphs. PMID:31160374
Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases. PMID:31142855
The Integrative Human Microbiome Project. PMID:31142853
[Atopic eczema and microbiome]. PMID:31111169
Systematic assessment of secondary bile acid metabolism in gut microbes reveals distinct metabolic capabilities in inflammatory bowel disease. PMID:31092280
Antibiotic resistomes of healthy pig faecal metagenomes. PMID:31091181
[General aspects regarding the skin microbiome]. PMID:31065734
MyDGR: a server for identification and characterization of diversity-generating retroelements. PMID:31049585
Plasmid detection and assembly in genomic and metagenomic data sets. PMID:31048319
Microbiome Learning Repo (ML Repo): A public repository of microbiome regression and classification tasks. PMID:31042284
The gut microbiome: What do we know? PMID:31040957
Measuring sequencer size bias using REcount: a novel method for highly accurate Illumina sequencing-based quantification. PMID:31036053
The Impact of Anthelmintic Treatment on Human Gut Microbiota Based on Cross-Sectional and Pre- and Postdeworming Comparisons in Western Kenya. PMID:31015324
Non-host class II ribonucleotide reductase in Thermus viruses: sequence adaptation and host interaction. PMID:30993041
Prevotella histicola, A Human Gut Commensal, Is as Potent as COPAXONE® in an Animal Model of Multiple Sclerosis. PMID:30984162
Horizontal gene transfer in human-associated microorganisms inferred by phylogenetic reconstruction and reconciliation. PMID:30976019
Longitudinal changes in the gut microbiome of infants on total parenteral nutrition. PMID:30965357
Probiotics in Extraintestinal Diseases: Current Trends and New Directions. PMID:30959761
Forty-five-year evolution of probiotic therapy. PMID:30956971
Worldwide trends in scientific publications on association of gut microbiota with obesity. PMID:30944710
A Pipeline for Faecal Host DNA Analysis by Absolute Quantification of LINE-1 and Mitochondrial Genomic Elements Using ddPCR. PMID:30944341
Systematic benchmarking of omics computational tools. PMID:30918265
Altered diversity and composition of the gut microbiome in patients with cervical cancer. PMID:30904962
Michigan cohorts to determine associations of maternal pre-pregnancy body mass index with pregnancy and infant gastrointestinal microbial communities: Late pregnancy and early infancy. PMID:30883572
Identification of Pathogenic Bacteria from Public Libraries via Proteomics Analysis. PMID:30875719
Dietary Nutrients Involved in One-Carbon Metabolism and Colonic Mucosa-Associated Gut Microbiome in Individuals with an Endoscopically Normal Colon. PMID:30871224
Experimental evaluation on the applicability of necrobiome analysis in forensic veterinary science. PMID:30861327
Discovery of novel carbohydrate-active enzymes through the rational exploration of the protein sequences space. PMID:30850540
Antibiotic treatment affects the expression levels of copper transporters and the isotopic composition of copper in the colon of mice. PMID:30850515
Microbiome diversity in carriers of fluoroquinolone resistant Escherichia coli. PMID:30838339
Identification of bioactive metabolites using activity metabolomics. PMID:30814649
THREE AUTHORS REPLY. PMID:30801631
Methods for Studying Gut Microbiota: A Primer for Physicians. PMID:30774267
The mixed model for the analysis of a repeated-measurement multivariate count data. PMID:30761571
Evaluation of Oral Cavity DNA Extraction Methods on Bacterial and Fungal Microbiota. PMID:30728424
Different Munc18 proteins mediate baseline and stimulated airway mucin secretion. PMID:30721150
1,520 reference genomes from cultivated human gut bacteria enable functional microbiome analyses. PMID:30718868
A glycyl radical enzyme enables hydrogen sulfide production by the human intestinal bacterium Bilophila wadsworthia. PMID:30718429
The role of chronic kidney disease-associated dysbiosis in cardiovascular disease. PMID:30682892
Effects of the long-term storage of human fecal microbiota samples collected in RNAlater. PMID:30679604
Evolutionary dynamics of bacteria in the gut microbiome within and across hosts. PMID:30673701
Taxonomic and Functional Compositions of the Small Intestinal Microbiome in Neonatal Calves Provide a Framework for Understanding Early Life Gut Health. PMID:30658973
Deciphering the effect of reproductive tract microbiota on human reproduction. PMID:30655720
Association between rhinovirus species and nasopharyngeal microbiota in infants with severe bronchiolitis. PMID:30654045
HMP16SData: Efficient Access to the Human Microbiome Project Through Bioconductor. PMID:30649166
The etiology and management of recurrent urinary tract infections in postmenopausal women. PMID:30624087
Early-onset inflammatory bowel disease as a model disease to identify key regulators of immune homeostasis mechanisms. PMID:30565237
Phylogenetic barriers to horizontal transfer of antimicrobial peptide resistance genes in the human gut microbiota. PMID:30559406
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
Recent Advancements in Intestinal Microbiota Analyses: A Review for Non-Microbiologists. PMID:30536055
New Insights into Human Nostril Microbiome from the Expanded Human Oral Microbiome Database (eHOMD): a Resource for the Microbiome of the Human Aerodigestive Tract. PMID:30534599
Uncovering complex microbiome activities via metatranscriptomics during 24 hours of oral biofilm assembly and maturation. PMID:30522530
Thanatomicrobiome composition profiling as a tool for forensic investigation. PMID:30483658
Gut microbes modulate host response to immune checkpoint inhibitor cancer immunotherapy. PMID:30443490
Scalable and exhaustive screening of metabolic functions carried out by microbial consortia. PMID:30423063
Microbiomes Associated With Foods From Plant and Animal Sources. PMID:30405589
Safety and preliminary efficacy of orally administered lyophilized fecal microbiota product compared with frozen product given by enema for recurrent Clostridium difficile infection: A randomized clinical trial. PMID:30388112
Human Microbe-Disease Association Prediction Based on Adaptive Boosting. PMID:30356751
Temporal development of the gut microbiome in early childhood from the TEDDY study. PMID:30356187
PanGFR-HM: A Dynamic Web Resource for Pan-Genomic and Functional Profiling of Human Microbiome With Comparative Features. PMID:30349509
Enlisting commensal microbes to resist antibiotic-resistant pathogens. PMID:30309968
Transkingdom network reveals bacterial players associated with cervical cancer gene expression program. PMID:30294508
Inflammation-Related Mechanisms in Chronic Kidney Disease Prediction, Progression, and Outcome. PMID:30271792
Progress of analytical tools and techniques for human gut microbiome research. PMID:30267313
Clinician Guide to Microbiome Testing. PMID:30267172
The mammalian mycobiome: A complex system in a dynamic relationship with the host. PMID:30255552
Ceftriaxone Administration Disrupts Intestinal Homeostasis, Mediating Noninflammatory Proliferation and Dissemination of Commensal Enterococci. PMID:30224553
GePMI: A statistical model for personal intestinal microbiome identification. PMID:30210803
The metagenome of the female upper reproductive tract. PMID:30192933
In situ substrate-formed biofilms using IDODS mimic supragingival tooth-formed biofilms. PMID:30181819
Diet during Pregnancy and Infancy and the Infant Intestinal Microbiome. PMID:30173873
Methods for automatic reference trees and multilevel phylogenetic placement. PMID:30169747
The Human Gut Microbiome - A Potential Controller of Wellness and Disease. PMID:30154767
The Gut Microbiome in Adult and Pediatric Functional Gastrointestinal Disorders. PMID:30153517
Assessing and Interpreting the Within-Body Biogeography of Human Microbiome Diversity. PMID:30131772
Determinants of the Nasal Microbiome: Pilot Study of Effects of Intranasal Medication Use. PMID:30128169
IDTAXA: a novel approach for accurate taxonomic classification of microbiome sequences. PMID:30092815
Comparative metatranscriptomics reveals extracellular electron transfer pathways conferring microbial adaptivity to surface redox potential changes. PMID:30050163
Evaluating the potential of residual Pap test fluid as a resource for the metaproteomic analysis of the cervical-vaginal microbiome. PMID:30022083
Unique subgingival microbiota associated with periodontitis in cirrhosis patients. PMID:30013030
Mother-to-Infant Microbial Transmission from Different Body Sites Shapes the Developing Infant Gut Microbiome. PMID:30001516
PRWHMDA: Human Microbe-Disease Association Prediction by Random Walk on the Heterogeneous Network with PSO. PMID:29989079
Differential preservation of endogenous human and microbial DNA in dental calculus and dentin. PMID:29959351
Gut microbiota components are associated with fixed airway obstruction in asthmatic patients living in the tropics. PMID:29941875
The Gut Microbiome as a Target for the Treatment of Type 2 Diabetes. PMID:29931613
YAMP: a containerized workflow enabling reproducibility in metagenomics research. PMID:29917068
PERFect: PERmutation Filtering test for microbiome data. PMID:29917060
Current Insights in Microbiome Shifts in Sjogren's Syndrome and Possible Therapeutic Interventions. PMID:29881381
Meta-analysis of human genome-microbiome association studies: the MiBioGen consortium initiative. PMID:29880062
A systematic literature review of the human skin microbiome as biomarker for dermatological drug development. PMID:29877593
Metatranscriptome Analysis of the Vaginal Microbiota Reveals Potential Mechanisms for Protection against Metronidazole in Bacterial Vaginosis. PMID:29875146
Precision medicine: the foundation of future cancer therapeutics. PMID:29872700
Composition and richness of the serum microbiome differ by age and link to systemic inflammation. PMID:29869736
Influence of 4-week multi-strain probiotic administration on resting-state functional connectivity in healthy volunteers. PMID:29850990
The contribution of culturomics to the repertoire of isolated human bacterial and archaeal species. PMID:29793532
Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2's q2-feature-classifier plugin. PMID:29773078
16S rRNA Gene Sequencing for Deciphering the Colorectal Cancer Gut Microbiome: Current Protocols and Workflows. PMID:29755427
Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia. PMID:29743478
Microbiota epitope similarity either dampens or enhances the immunogenicity of disease-associated antigenic epitopes. PMID:29734356
Intestinal microbial-derived sphingolipids are inversely associated with childhood food allergy. PMID:29729303
Urinary Virome Perturbations in Kidney Transplantation. PMID:29725592
Gut microbiomes of wild great apes fluctuate seasonally in response to diet. PMID:29725011
Microbiota and metabolic diseases. PMID:29721802
Determinants of IBD Heritability: Genes, Bugs, and More. PMID:29701818
The Presence of Genotoxic and/or Pro-inflammatory Bacterial Genes in Gut Metagenomic Databases and Their Possible Link With Inflammatory Bowel Diseases. PMID:29692798
Modulation of Active Gut Microbiota by Lactobacillus rhamnosus GG in a Diet Induced Obesity Murine Model. PMID:29692770
Gut Dysbiosis and Muscle Aging: Searching for Novel Targets against Sarcopenia. PMID:29686533
Streptococcus endopeptidases promote HPV infection in vitro. PMID:29675996
Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity. PMID:29657970
Comparison of the oral microbiome in mouthwash and whole saliva samples. PMID:29641531
Personal microbiome analysis improves student engagement and interest in Immunology, Molecular Biology, and Genomics undergraduate courses. PMID:29641525
A Method for Targeted 16S Sequencing of Human Milk Samples. PMID:29630048
Taxon Disappearance from Microbiome Analysis Reinforces the Value of Mock Communities as a Standard in Every Sequencing Run. PMID:29629423
Distinguishing allergens from non-allergenic homologues using Physical-Chemical Property (PCP) motifs. PMID:29627609
Quantification of Human Microbiome Stability Over 6 Months: Implications for Epidemiologic Studies. PMID:29608646
[Recent achievements in the microbiological etiology of dental caries]. PMID:29595006
taxMaps: comprehensive and highly accurate taxonomic classification of short-read data in reasonable time. PMID:29588360
Linking Associations of Rare Low-Abundance Species to Their Environments by Association Networks. PMID:29563898
A highly adaptive microbiome-based association test for survival traits. PMID:29558893
Dissecting cause and effect in host-microbiome interactions using the combined worm-bug model system. PMID:29557050
Which experimental systems should we use for human microbiome science? PMID:29554085
A Lachnospiraceae-dominated bacterial signature in the fecal microbiota of HIV-infected individuals from Colombia, South America. PMID:29540734
Influence of fecal collection conditions and 16S rRNA gene sequencing at two centers on human gut microbiota analysis. PMID:29531234
Gut Microbiome Composition Predicts Infection Risk During Chemotherapy in Children With Acute Lymphoblastic Leukemia. PMID:29518185
Inter-niche and inter-individual variation in gut microbial community assessment using stool, rectal swab, and mucosal samples. PMID:29515151
Arginine Metabolism Is Altered in Adults with A-β + Ketosis-Prone Diabetes. PMID:29490093
Differential human gut microbiome assemblages during soil-transmitted helminth infections in Indonesia and Liberia. PMID:29486796
Long-term treatment with green tea polyphenols modifies the gut microbiome of female sprague-dawley rats. PMID:29454999
Disseminating Metaproteomic Informatics Capabilities and Knowledge Using the Galaxy-P Framework. PMID:29385081
Host genetic variation and its microbiome interactions within the Human Microbiome Project. PMID:29378630
ReprDB and panDB: minimalist databases with maximal microbial representation. PMID:29347966
High-resolution microbiome profiling uncovers Fusobacterium nucleatum, Lactobacillus gasseri/johnsonii, and Lactobacillus vaginalis associated to oral and oropharyngeal cancer in saliva from HPV positive and HPV negative patients treated with surgery and chemo-radiation. PMID:29340028
Metatranscriptome of human faecal microbial communities in a cohort of adult men. PMID:29335555
Early-life gut microbiome and egg allergy. PMID:29318631
Dynamics of metatranscription in the inflammatory bowel disease gut microbiome. PMID:29311644
Metagenome Analysis of Bodily Microbiota in a Mouse Model of Alzheimer Disease Using Bacteria-derived Membrane Vesicles in Blood. PMID:29302204
Novel human microbe-disease association prediction using network consistency projection. PMID:29297304
Composition and variation of respiratory microbiota in healthy military personnel. PMID:29216202
Antibiotic-Induced Alterations in Gut Microbiota Are Associated with Changes in Glucose Metabolism in Healthy Mice. PMID:29213261
Profiling of Oral Microbiota in Early Childhood Caries Using Single-Molecule Real-Time Sequencing. PMID:29187843
Experimental design and quantitative analysis of microbial community multiomics. PMID:29187204
The gut mycobiome of the Human Microbiome Project healthy cohort. PMID:29178920
2-Way k-Means as a Model for Microbiome Samples. PMID:29177026
Balancing Herbal Medicine and Functional Food for Prevention and Treatment of Cardiometabolic Diseases through Modulating Gut Microbiota. PMID:29167659
First Insights into the Diverse Human Archaeome: Specific Detection of Archaea in the Gastrointestinal Tract, Lung, and Nose and on Skin. PMID:29138298
A Microbiomic Analysis in African Americans with Colonic Lesions Reveals Streptococcus sp.VT162 as a Marker of Neoplastic Transformation. PMID:29120399
Aligner optimization increases accuracy and decreases compute times in multi-species sequence data. PMID:29114401
Functional Genomics of Host-Microbiome Interactions in Humans. PMID:29107345
Gut microbiome modulates response to anti-PD-1 immunotherapy in melanoma patients. PMID:29097493
Diet, Environments, and Gut Microbiota. A Preliminary Investigation in Children Living in Rural and Urban Burkina Faso and Italy. PMID:29081768
Wild Mouse Gut Microbiota Promotes Host Fitness and Improves Disease Resistance. PMID:29056339
Genome sequencing of 39 Akkermansia muciniphila isolates reveals its population structure, genomic and functional diverisity, and global distribution in mammalian gut microbiotas. PMID:29047329
Trios-promising in silico biomarkers for differentiating the effect of disease on the human microbiome network. PMID:29038470
A novel data structure to support ultra-fast taxonomic classification of metagenomic sequences with k-mer signatures. PMID:29036588
A preliminary examination of gut microbiota, sleep, and cognitive flexibility in healthy older adults. PMID:29031742
The P/N (Positive-to-Negative Links) Ratio in Complex Networks-A Promising In Silico Biomarker for Detecting Changes Occurring in the Human Microbiome. PMID:29018902
Accuracy of microbial community diversity estimated by closed- and open-reference OTUs. PMID:29018622
The microbiome as a novel paradigm in studying stress and mental health. PMID:29016169
Microbiome-health interactions in older people. PMID:28986601
Assessment of variation in microbial community amplicon sequencing by the Microbiome Quality Control (MBQC) project consortium. PMID:28967885
Strains, functions and dynamics in the expanded Human Microbiome Project. PMID:28953883
Gut Dysbiosis in Animals Due to Environmental Chemical Exposures. PMID:28936425
Targeted Metagenome Based Analyses Show Gut Microbial Diversity of Inflammatory Bowel Disease patients. PMID:28904415
Forensic Human Identification Using Skin Microbiomes. PMID:28887423
Lactobacillus plantarum LP‑Onlly alters the gut flora and attenuates colitis by inducing microbiome alteration in interleukin‑10 knockout mice. PMID:28849048
Bone Remodeling and the Microbiome. PMID:28847904
Maternal microbiomes in preterm birth: Recent progress and analytical pipelines. PMID:28823578
Maternal obesity is associated with gut microbial metabolic potential in offspring during infancy. PMID:28819768
Rapid replacement by non-vaccine pneumococcal serotypes may mitigate the impact of the pneumococcal conjugate vaccine on nasopharyngeal bacterial ecology. PMID:28811633
A comprehensive evaluation of the sl1p pipeline for 16S rRNA gene sequencing analysis. PMID:28807046
MetaMeta: integrating metagenome analysis tools to improve taxonomic profiling. PMID:28807044
Community characteristics of the gut microbiomes of competitive cyclists. PMID:28797298
LRLSHMDA: Laplacian Regularized Least Squares for Human Microbe-Disease Association prediction. PMID:28790448
Human genome-microbiome interaction: metagenomics frontiers for the aetiopathology of autoimmune diseases. PMID:28785422
Human Gut Microbiota: Toward an Ecology of Disease. PMID:28769880
A Stoichioproteomic Analysis of Samples from the Human Microbiome Project. PMID:28769875
Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules. PMID:28761934
Burn Injury Leads to Increase in Relative Abundance of Opportunistic Pathogens in the Rat Gastrointestinal Microbiome. PMID:28729860
Regulation of inflammation by microbiota interactions with the host. PMID:28722709
Temporal dynamics of bacterial microbiota in the human oral cavity determined using an in situ model of dental biofilms. PMID:28721251
A perspective on 16S rRNA operational taxonomic unit clustering using sequence similarity. PMID:28721243
The Gut Microbiota of Healthy Chilean Subjects Reveals a High Abundance of the Phylum Verrucomicrobia. PMID:28713349
[Relationship between oral and gut microbes]. PMID:28675020
Inter-personal diversity and temporal dynamics of dental, tongue, and salivary microbiota in the healthy oral cavity. PMID:28649403
Microbial biofilms and the human skin microbiome. PMID:28649397
Preliminary Evidence for an Association Between the Composition of the Gut Microbiome and Cognitive Function in Neurologically Healthy Older Adults. PMID:28641593
A prospective microbiome-wide association study of food sensitization and food allergy in early childhood. PMID:28632934
Increasing the reach of forensic genetics with massively parallel sequencing. PMID:28631109
Reference standards for next-generation sequencing. PMID:28626224
Changes in microbiome during and after travellers' diarrhea: what we know and what we do not. PMID:28521002
Uncovering the trimethylamine-producing bacteria of the human gut microbiota. PMID:28506279
Optimizing methods and dodging pitfalls in microbiome research. PMID:28476139
Tracking microbial colonization in fecal microbiota transplantation experiments via genome-resolved metagenomics. PMID:28473000
A Robust Framework for Microbial Archaeology. PMID:28460196
Effects of stochasticity and division of labor in toxin production on two-strain bacterial competition in Escherichia coli. PMID:28459803
Validation of the Hirst-Type Spore Trap for Simultaneous Monitoring of Prokaryotic and Eukaryotic Biodiversities in Urban Air Samples by Next-Generation Sequencing. PMID:28455334
Variable habitat conditions drive species covariation in the human microbiota. PMID:28448493
Clinical Evidence for the Microbiome in Inflammatory Diseases. PMID:28446909
Precision Medicine. PMID:28444103
Pediatric Obesity and Cardiometabolic Disorders: Risk Factors and Biomarkers. PMID:28439216
A powerful microbiome-based association test and a microbial taxa discovery framework for comprehensive association mapping. PMID:28438217
Exploring the oral microflora of preschool children. PMID:28434085
A universal primer-independent next-generation sequencing approach for investigations of norovirus outbreaks and novel variants. PMID:28400558
Natural product discovery from the human microbiome. PMID:28389564
Filthy lucre: A metagenomic pilot study of microbes found on circulating currency in New York City. PMID:28384336
The Dynamic Microbiota Profile During Pepper (Piper nigrum L.) Peeling by Solid-State Fermentation. PMID:28378160
PARTIE: a partition engine to separate metagenomic and amplicon projects in the Sequence Read Archive. PMID:28369246
SLIMM: species level identification of microorganisms from metagenomes. PMID:28367376
Prediction of virus-host infectious association by supervised learning methods. PMID:28361670
[Fundamentals of the microbiome]. PMID:28357466
Systematic evaluation of immune regulation and modulation. PMID:28331613
Proteobacteria explain significant functional variability in the human gut microbiome. PMID:28330508
MetaDP: a comprehensive web server for disease prediction of 16S rRNA metagenomic datasets. PMID:28317014
The Host Microbiome Regulates and Maintains Human Health: A Primer and Perspective for Non-Microbiologists. PMID:28292977
PBHMDA: Path-Based Human Microbe-Disease Association Prediction. PMID:28275370
Association of Maternal Gestational Weight Gain With the Infant Fecal Microbiota. PMID:28272161
Bioinformatic analysis of riboswitch structures uncovers variant classes with altered ligand specificity. PMID:28265071
Molecular Taxonomic Profiling of Bacterial Communities in a Gilthead Seabream (Sparus aurata) Hatchery. PMID:28261166
The Human Microbiome and Understanding the 16S rRNA Gene in Translational Nursing Science. PMID:28252578
Exploring the microbial community (microflora) associated with ovine Haemonchus contortus (macroflora) field strains. PMID:28250429
Characterization of oral and gut microbiome temporal variability in hospitalized cancer patients. PMID:28245856
Distinct Effects of the Cervicovaginal Microbiota and Herpes Simplex Type 2 Infection on Female Genital Tract Immunology. PMID:28201724
A prominent glycyl radical enzyme in human gut microbiomes metabolizes trans-4-hydroxy-l-proline. PMID:28183913
An integrative Bayesian Dirichlet-multinomial regression model for the analysis of taxonomic abundances in microbiome data. PMID:28178947
Motivations of participants in the citizen science of microbiomics: data from the British Gut Project. PMID:28125088
Optimisation of methods for bacterial skin microbiome investigation: primer selection and comparison of the 454 versus MiSeq platform. PMID:28109256
The emerging importance and challenges of the human mycobiome. PMID:28102762
The Gut Microbiome of the Vector Lutzomyia longipalpis Is Essential for Survival of Leishmania infantum. PMID:28096483
Association of the Intestinal Microbiome with the Development of Neovascular Age-Related Macular Degeneration. PMID:28094305
Genome Sequence of Christensenella minuta DSM 22607T. PMID:28082495
Parallel-META 3: Comprehensive taxonomical and functional analysis platform for efficient comparison of microbial communities. PMID:28079128
The Denture-Associated Oral Microbiome in Health and Stomatitis. PMID:28066812
Performing Skin Microbiome Research: A Method to the Madness. PMID:28063650
PaPrBaG: A machine learning approach for the detection of novel pathogens from NGS data. PMID:28051068
Host-Microbiome Interaction and Cancer: Potential Application in Precision Medicine. PMID:28018236
Nasal Airway Microbiota Profile and Severe Bronchiolitis in Infants: A Case-control Study. PMID:28005692
A general framework for association analysis of microbial communities on a taxonomic tree. PMID:28003264
Patient-Specific Bacteroides Genome Variants in Pouchitis. PMID:27935837
Dysbiotic Bacterial and Fungal Communities Not Restricted to Clinically Affected Skin Sites in Dandruff. PMID:27909689
Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform. PMID:27899609
Bacterial Pathogens and the Microbiome. PMID:27888914
An Improved Methodology to Overcome Key Issues in Human Fecal Metagenomic DNA Extraction. PMID:27888152
Metagenomics of Two Severe Foodborne Outbreaks Provides Diagnostic Signatures and Signs of Coinfection Not Attainable by Traditional Methods. PMID:27881416
The oral microbiome - an update for oral healthcare professionals. PMID:27857087
Centrifuge: rapid and sensitive classification of metagenomic sequences. PMID:27852649
mockrobiota: a Public Resource for Microbiome Bioinformatics Benchmarking. PMID:27822553
Open-Source Sequence Clustering Methods Improve the State Of the Art. PMID:27822515
An integrated metagenomics pipeline for strain profiling reveals novel patterns of bacterial transmission and biogeography. PMID:27803195
Association of nasopharyngeal microbiota profiles with bronchiolitis severity in infants hospitalised for bronchiolitis. PMID:27799386
The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data. PMID:27781166
The human laryngeal microbiome: effects of cigarette smoke and reflux. PMID:27775059
Key Microbiota Identification Using Functional Gene Analysis during Pepper (Piper nigrum L.) Peeling. PMID:27768750
Discovery of MRSA active antibiotics using primary sequence from the human microbiome. PMID:27748750
Metabolite and Microbiome Interplay in Cancer Immunotherapy. PMID:27729325
The Influence of the Gut Microbiota on Host Physiology: In Pursuit of Mechanisms. PMID:27698613
Probing the diversity of healthy oral microbiome with bioinformatics approaches. PMID:27697111
Functional mining of transporters using synthetic selections. PMID:27694800
Nanosized Drug Delivery Systems in Gastrointestinal Targeting: Interactions with Microbiota. PMID:27690060
Genome Sequences of Nine Gram-Negative Vaginal Bacterial Isolates. PMID:27688330
Genome Sequences of 14 Firmicutes Strains Isolated from the Human Vagina. PMID:27688329
Impact of maternal nutrition in pregnancy and lactation on offspring gut microbial composition and function. PMID:27686144
Next generation sequencing data of a defined microbial mock community. PMID:27673566
Household siblings and nasal and fecal microbiota in infants. PMID:27638139
Gut microbiome alterations in patients with stage 4 hepatitis C. PMID:27625705
Correlations of Host Genetics and Gut Microbiome Composition. PMID:27625642
Conservation and diversification of the transcriptomes of adult Paragonimus westermani and P. skrjabini. PMID:27619014
The Core Gut Microbiome of the American Cockroach, Periplaneta americana, Is Stable and Resilient to Dietary Shifts. PMID:27590811
MMinte: an application for predicting metabolic interactions among the microbial species in a community. PMID:27590448
Bacillus as a potential diagnostic marker for yellow tongue coating. PMID:27578261
Uncovering oral Neisseria tropism and persistence using metagenomic sequencing. PMID:27572971
Toward Accurate and Quantitative Comparative Metagenomics. PMID:27565341
Enterococcus faecalis readily colonizes the entire gastrointestinal tract and forms biofilms in a germ-free mouse model. PMID:27562711
A robust ambient temperature collection and stabilization strategy: Enabling worldwide functional studies of the human microbiome. PMID:27558918
Considerations For Optimizing Microbiome Analysis Using a Marker Gene. PMID:27551678
Testing the Neutral Theory of Biodiversity with Human Microbiome Datasets. PMID:27527985
MixMC: A Multivariate Statistical Framework to Gain Insight into Microbial Communities. PMID:27513472
Gut Microbiome Associates With Lifetime Cardiovascular Disease Risk Profile Among Bogalusa Heart Study Participants. PMID:27507222
Molecular Microbiological Profile of Chronic Suppurative Otitis Media. PMID:27487953
Systematic improvement of amplicon marker gene methods for increased accuracy in microbiome studies. PMID:27454739
Emerging Technologies for Gut Microbiome Research. PMID:27426971
On the pathogenesis of insulin-dependent diabetes mellitus: the role of microbiota. PMID:27421719
Human Thanatomicrobiome Succession and Time Since Death. PMID:27412051
Metagenome-wide association studies: fine-mining the microbiome. PMID:27396567
Integrated network-diversity analyses suggest suppressive effect of Hodgkin's lymphoma and slightly relieving effect of chemotherapy on human milk microbiome. PMID:27386954
Genomic and Metagenomic Analysis of Diversity-Generating Retroelements Associated with Treponema denticola. PMID:27375574
Unlocking the bacterial and fungal communities assemblages of sugarcane microbiome. PMID:27358031
The Fecal Microbiota Profile and Bronchiolitis in Infants. PMID:27354456
Alterations of the human gut microbiome in multiple sclerosis. PMID:27352007
Diet, gut microbes, and the pathogenesis of inflammatory bowel diseases. PMID:27346644
Sociomicrobiology and Pathogenic Bacteria. PMID:27337482
Microbial Reconstitution Reverses Maternal Diet-Induced Social and Synaptic Deficits in Offspring. PMID:27315483
Genome assembly from synthetic long read clouds. PMID:27307620
Universality of human microbial dynamics. PMID:27279224
16S rRNA amplicon sequencing identifies microbiota associated with oral cancer, human papilloma virus infection and surgical treatment. PMID:27259999
Does the Intestinal Microbiota Explain Differences in the Epidemiology of Liver Disease between East and West? PMID:27243019
An Improved Method for High Quality Metagenomics DNA Extraction from Human and Environmental Samples. PMID:27240745
A practical guide to the oral microbiome and its relation to health and disease. PMID:27219464
Metagenomics, Metatranscriptomics, and Metabolomics Approaches for Microbiome Analysis. PMID:27199545
An adaptive association test for microbiome data. PMID:27198579
Gut microbiome in chronic kidney disease: challenges and opportunities. PMID:27187743
An algorithm for designing minimal microbial communities with desired metabolic capacities. PMID:27153571
A Novel Analysis Method for Paired-Sample Microbial Ecology Experiments. PMID:27152415
Individuality, Stability, and Variability of the Plaque Microbiome. PMID:27148241
Characterization of the Gut Microbiome Using 16S or Shotgun Metagenomics. PMID:27148170
The role of the gastrointestinal microbiome in infectious complications during induction chemotherapy for acute myeloid leukemia. PMID:27142181
The healthy human microbiome. PMID:27122046
Mechanistic and Technical Challenges in Studying the Human Microbiome and Cancer Epidemiology. PMID:27121074
Altered Mucosal Microbiome Diversity and Disease Severity in Sjögren Syndrome. PMID:27087247
Respiratory syncytial virus and rhinovirus severe bronchiolitis are associated with distinct nasopharyngeal microbiota. PMID:27061249
[Oral microbiota: a promising predictor of human oral and systemic diseases]. PMID:27051943
Characterization of the gut microbiome in epidemiologic studies: the multiethnic cohort experience. PMID:27039047
Microbes Drive Evolution of Animals and Plants: the Hologenome Concept. PMID:27034283
Multidrug Efflux Systems in Helicobacter cinaedi. PMID:27029418
The microbiota-derived metabolite indole decreases mucosal inflammation and injury in a murine model of NSAID enteropathy. PMID:27007819
One step closer to understanding the role of bacteria in diabetic foot ulcers: characterising the microbiome of ulcers. PMID:27005417
Influences of Plant Species, Season and Location on Leaf Endophytic Bacterial Communities of Non-Cultivated Plants. PMID:26974817
The microbiome and its potential as a cancer preventive intervention. PMID:26970128
Capturing the most wanted taxa through cross-sample correlations. PMID:26943627
Mechanisms Linking the Gut Microbiome and Glucose Metabolism. PMID:26938201
Human colorectal mucosal microbiota correlates with its host niche physiology revealed by endomicroscopy. PMID:26916597
Expansion of Microbial Forensics. PMID:26912746
Ghost-tree: creating hybrid-gene phylogenetic trees for diversity analyses. PMID:26905735
Human Microbiota of the Argentine Population- A Pilot Study. PMID:26870014
On the Origins and Control of Community Types in the Human Microbiome. PMID:26866806
Composition and dynamics of the respiratory tract microbiome in intubated patients. PMID:26865050
Expanding role of gut microbiota in lipid metabolism. PMID:26855231
16S rRNA gene-based metagenomic analysis reveals differences in bacteria-derived extracellular vesicles in the urine of pregnant and non-pregnant women. PMID:26846451
The yjdF riboswitch candidate regulates gene expression by binding diverse azaaromatic compounds. PMID:26843526
Development of an Analysis Pipeline Characterizing Multiple Hypervariable Regions of 16S rRNA Using Mock Samples. PMID:26829716
Skin Microbiome Surveys Are Strongly Influenced by Experimental Design. PMID:26829039
Consolidating and Exploring Antibiotic Resistance Gene Data Resources. PMID:26818666
T-cell recognition is shaped by epitope sequence conservation in the host proteome and microbiome. PMID:26789414
Characterization of the human immune cell network at the gingival barrier. PMID:26732676
Analysis of the microbiome: Advantages of whole genome shotgun versus 16S amplicon sequencing. PMID:26718401
The administration of intranasal live attenuated influenza vaccine induces changes in the nasal microbiota and nasal epithelium gene expression profiles. PMID:26667497
Metagenomic Approach for Identification of the Pathogens Associated with Diarrhea in Stool Specimens. PMID:26637379
Metagenomic sequencing of bile from gallstone patients to identify different microbial community patterns and novel biliary bacteria. PMID:26625708
Identification of low abundance microbiome in clinical samples using whole genome sequencing. PMID:26614063
Role of the Gut Microbiome in Uremia: A Potential Therapeutic Target. PMID:26590448
The human gut sterolbiome: bile acid-microbiome endocrine aspects and therapeutics. PMID:26579434
HPMCD: the database of human microbial communities from metagenomic datasets and microbial reference genomes. PMID:26578596
Circulating microbial RNA and health. PMID:26576508
Automated and Accurate Estimation of Gene Family Abundance from Shotgun Metagenomes. PMID:26565399
Implementation of a Pan-Genomic Approach to Investigate Holobiont-Infecting Microbe Interaction: A Case Report of a Leukemic Patient with Invasive Mucormycosis. PMID:26556047
Evaluation of DNA extraction kits and phylogenetic diversity of the porcine gastrointestinal tract based on Illumina sequencing of two hypervariable regions. PMID:26541370
Metagenomics: A New Way to Illustrate the Crosstalk between Infectious Diseases and Host Microbiome. PMID:26540050
Context and the human microbiome. PMID:26530830
Diversity of key players in the microbial ecosystems of the human body. PMID:26514870
Library preparation methodology can influence genomic and functional predictions in human microbiome research. PMID:26512100
mBLAST: Keeping up with the sequencing explosion for (meta)genome analysis. PMID:26500804
Human microbiomes and their roles in dysbiosis, common diseases, and novel therapeutic approaches. PMID:26500616
Rapid Short-Read Sequencing and Aneuploidy Detection Using MinION Nanopore Technology. PMID:26500254
Resistance and tolerance to foreign elements by prokaryotic immune systems - curating the genome. PMID:26494050
Influence of H7N9 virus infection and associated treatment on human gut microbiota. PMID:26490635
Interactions Between the Gastrointestinal Microbiome and Clostridium difficile. PMID:26488281
Inflammation, Antibiotics, and Diet as Environmental Stressors of the Gut Microbiome in Pediatric Crohn's Disease. PMID:26468751
Linking Biosynthetic Gene Clusters to their Metabolites via Pathway- Targeted Molecular Networking. PMID:26456470
Gut Microbiome: What We Do and Don't Know. PMID:26449893
Goals in Nutrition Science 2015-2020. PMID:26442272
Microbiomes: unifying animal and plant systems through the lens of community ecology theory. PMID:26441846
Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering. PMID:26434730
The Intestinal Microbiota in Acute Anorexia Nervosa and During Renourishment: Relationship to Depression, Anxiety, and Eating Disorder Psychopathology. PMID:26428446
mmnet: An R Package for Metagenomics Systems Biology Analysis. PMID:26421278
Strand-specific community RNA-seq reveals prevalent and dynamic antisense transcription in human gut microbiota. PMID:26388849
Host genetic variation impacts microbiome composition across human body sites. PMID:26374288
Gut Microbiota Dysbiosis in Obesity-Linked Metabolic Diseases and Prebiotic Potential of Polyphenol-Rich Extracts. PMID:26343880
The effect of dietary resistant starch type 2 on the microbiota and markers of gut inflammation in rural Malawi children. PMID:26334878
Heterogeneity of the gut microbiome in mice: guidelines for optimizing experimental design. PMID:26323480
An Enlarged Profile of Uremic Solutes. PMID:26317986
Maternal Microbiome and Pregnancy Outcomes That Impact Infant Health: A Review. PMID:26317856
Primer and platform effects on 16S rRNA tag sequencing. PMID:26300854
Stool microbiota composition is associated with the prospective risk of Plasmodium falciparum infection. PMID:26296559
The Presence of Oxalobacter formigenes in the Microbiome of Healthy Young Adults. PMID:26292041
Methods for Improving Human Gut Microbiome Data by Reducing Variability through Sample Processing and Storage of Stool. PMID:26252519
The oral and gut microbiomes are perturbed in rheumatoid arthritis and partly normalized after treatment. PMID:26214836
Significant differences in fecal microbiota are associated with various stages of glucose tolerance in African American male veterans. PMID:26209747
Cell therapies and regenerative medicine. PMID:26202498
The Impact of Immunosenescence on Pulmonary Disease. PMID:26199462
Exploring the avian gut microbiota: current trends and future directions. PMID:26191057
New classes of self-cleaving ribozymes revealed by comparative genomics analysis. PMID:26167874
Compact graphical representation of phylogenetic data and metadata with GraPhlAn. PMID:26157614
GenomePeek-an online tool for prokaryotic genome and metagenome analysis. PMID:26157610
Metagenomic sequencing reveals altered metabolic pathways in the oral microbiota of sailors during a long sea voyage. PMID:26154405
Burn Injury Alters the Intestinal Microbiome and Increases Gut Permeability and Bacterial Translocation. PMID:26154283
Mechanotransduction: use the force(s). PMID:26141078
Combining metagenomics, metatranscriptomics and viromics to explore novel microbial interactions: towards a systems-level understanding of human microbiome. PMID:26137199
Metabolic and metagenomic outcomes from early-life pulsed antibiotic treatment. PMID:26123276
Inter-Individual Differences in the Oral Bacteriome Are Greater than Intra-Day Fluctuations in Individuals. PMID:26121551
Metabolome progression during early gut microbial colonization of gnotobiotic mice. PMID:26118551
Vitamin B12 modulates the transcriptome of the skin microbiota in acne pathogenesis. PMID:26109103
Excretion of Host DNA in Feces Is Associated with Risk of Clostridium difficile Infection. PMID:26090486
The Role of Intestinal Microbiota in Acute Graft-versus-Host Disease. PMID:26090477
The Fecal Microbiome in Pediatric Patients With Short Bowel Syndrome. PMID:26059898
CCLasso: correlation inference for compositional data through Lasso. PMID:26048598
Use of the Microbiome in the Practice of Epidemiology: A Primer on -Omic Technologies. PMID:26025238
Meta-omics uncover temporal regulation of pathways across oral microbiome genera during in vitro sugar metabolism. PMID:26023872
Metagenomic insights into the bioaerosols in the indoor and outdoor environments of childcare facilities. PMID:26020512
The new world of the urinary microbiota in women. PMID:26003055
Stability of operational taxonomic units: an important but neglected property for analyzing microbial diversity. PMID:25995836
MICCA: a complete and accurate software for taxonomic profiling of metagenomic data. PMID:25988396
Colitogenic Bacteroides thetaiotaomicron Antigens Access Host Immune Cells in a Sulfatase-Dependent Manner via Outer Membrane Vesicles. PMID:25974305
Identifying personal microbiomes using metagenomic codes. PMID:25964341
Challenges and opportunities of airborne metagenomics. PMID:25953766
Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes. PMID:25941533
RVD2: an ultra-sensitive variant detection model for low-depth heterogeneous next-generation sequencing data. PMID:25931517
Using populations of human and microbial genomes for organism detection in metagenomes. PMID:25926546
Novel systems modeling methodology in comparative microbial metabolomics: identifying key enzymes and metabolites implicated in autism spectrum disorders. PMID:25913376
The gut microbiome: a new frontier for alcohol investigation. PMID:25912525
Inter-individual differences in the gene content of human gut bacterial species. PMID:25896518
DomSign: a top-down annotation pipeline to enlarge enzyme space in the protein universe. PMID:25888481
Temporal and technical variability of human gut metagenomes. PMID:25888008
Site-specific programming of the host epithelial transcriptome by the gut microbiota. PMID:25887251
Individualized medicine and the microbiome in reproductive tract. PMID:25883569
CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers. PMID:25879410
Whole-genome sequencing in outbreak analysis. PMID:25876885
Presence of mycobacterial L-forms in human blood: Challenge of BCG vaccination. PMID:25874947
Helminths and the microbiota: parts of the hygiene hypothesis. PMID:25869420
Average genome size estimation improves comparative metagenomics and sheds light on the functional ecology of the human microbiome. PMID:25853934
Progress and challenges in developing metabolic footprints from diet in human gut microbial cometabolism. PMID:25833886
Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA. PMID:25819674
Quo vadis? Microbial profiling revealed strong effects of cleanroom maintenance and routes of contamination in indoor environments. PMID:25778463
Not all biofluids are created equal: chewing over salivary diagnostics and the epigenome. PMID:25778408
The perinatal microbiome and pregnancy: moving beyond the vaginal microbiome. PMID:25775922
Being human is a gut feeling. PMID:25774294
16S gut community of the Cameron County Hispanic Cohort. PMID:25763184
Gut microbiome and liver diseases. PMID:25755571
Longitudinal analysis of the premature infant intestinal microbiome prior to necrotizing enterocolitis: a case-control study. PMID:25741698
Ecology and exploration of the rare biosphere. PMID:25730701
Insights from 20 years of bacterial genome sequencing. PMID:25722247
Sewage reflects the microbiomes of human populations. PMID:25714718
Mitochondrial DNA sequence variation is largely conserved at birth with rare de novo mutations in neonates. PMID:25687567
The hidden 'mycobacteriome' of the human healthy oral cavity and upper respiratory tract. PMID:25683180
Human Microbiome: When a Friend Becomes an Enemy. PMID:25682593
Characterization and comparison of bacterial communities in benign vocal fold lesions. PMID:25671105
A quick guide for building a successful bioinformatics community. PMID:25654371
High-throughput metagenomic technologies for complex microbial community analysis: open and closed formats. PMID:25626903
The microbiome of the upper airways: focus on chronic rhinosinusitis. PMID:25624972
Application of metagenomics in the human gut microbiome. PMID:25624713
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
The preterm placental microbiome varies in association with excess maternal gestational weight gain. PMID:25557210
Exploring preterm birth as a polymicrobial disease: an overview of the uterine microbiome. PMID:25505898
Dietary effects on human gut microbiome diversity. PMID:25498959
CLAST: CUDA implemented large-scale alignment search tool. PMID:25495907
Microbiome changes in healthy volunteers treated with GSK1322322, a novel antibiotic targeting bacterial peptide deformylase. PMID:25487798
The conjunctival microbiome in health and trachomatous disease: a case control study. PMID:25484919
Archaea and the human gut: new beginning of an old story. PMID:25473158
Determining microbial products and identifying molecular targets in the human microbiome. PMID:25440055
No evidence of harms of probiotic Lactobacillus rhamnosus GG ATCC 53103 in healthy elderly-a phase I open label study to assess safety, tolerability and cytokine responses. PMID:25438151
Initial insights into bacterial succession during human decomposition. PMID:25431049
Dynamics of tongue microbial communities with single-nucleotide resolution using oligotyping. PMID:25426106
Assessing the accuracy of quantitative molecular microbial profiling. PMID:25421243
Comparison of assembly algorithms for improving rate of metatranscriptomic functional annotation. PMID:25411636
The gut microbiome in health and in disease. PMID:25394236
ICON: chronic rhinosinusitis. PMID:25379119
Comparison of genome sequencing technology and assembly methods for the analysis of a GC-rich bacterial genome. PMID:25377284
Reconceptualizing major depressive disorder as an infectious disease. PMID:25364500
Current status and prospects of intestinal microbiome studies. PMID:25349591
External influence of early childhood establishment of gut microbiota and subsequent health implications. PMID:25346925
Diet is a major factor governing the fecal butyrate-producing community structure across Mammalia, Aves and Reptilia. PMID:25343515
Multiorganismal insects: diversity and function of resident microorganisms. PMID:25341109
Systems biology studies of adult paragonimus lung flukes facilitate the identification of immunodominant parasite antigens. PMID:25329661
Minimum entropy decomposition: unsupervised oligotyping for sensitive partitioning of high-throughput marker gene sequences. PMID:25325381
Host-associated bacterial taxa from Chlorobi, Chloroflexi, GN02, Synergistetes, SR1, TM7, and WPS-2 Phyla/candidate divisions. PMID:25317252
Advancing the microbiome research community. PMID:25303518
The microbiome revolution. PMID:25271724
Sigma: strain-level inference of genomes from metagenomic analysis for biosurveillance. PMID:25266224
The intestinal microbiome in early life: health and disease. PMID:25250028
16S rRNA gene pyrosequencing of reference and clinical samples and investigation of the temperature stability of microbiome profiles. PMID:25228989
Host-microbe interactions shaping the gastrointestinal environment. PMID:25220948
A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics. PMID:25215495
Metagenomic analysis of double-stranded DNA viruses in healthy adults. PMID:25212266
The Integrative Human Microbiome Project: dynamic analysis of microbiome-host omics profiles during periods of human health and disease. PMID:25211071
Identification of diversity-generating retroelements in human microbiomes. PMID:25196521
Small bowel resection induces long-term changes in the enteric microbiota of mice. PMID:25183407
Microbiome diversity and asthma and allergy risk. PMID:25149168
MaxBin: an automated binning method to recover individual genomes from metagenomes using an expectation-maximization algorithm. PMID:25136443
Metabolic modeling of common Escherichia coli strains in human gut microbiome. PMID:25126572
Advancements toward a systems level understanding of the human oral microbiome. PMID:25120956
Validation of high throughput sequencing and microbial forensics applications. PMID:25101166
Alterations of the human gut microbiome in liver cirrhosis. PMID:25079328
Diet, microbiota, and inflammatory bowel disease: lessons from Japanese foods. PMID:25045286
Conducting a microbiome study. PMID:25036628
An integrated catalog of reference genes in the human gut microbiome. PMID:24997786
Diarrhea in young children from low-income countries leads to large-scale alterations in intestinal microbiota composition. PMID:24995464
An introduction to the analysis of shotgun metagenomic data. PMID:24982662
Direct amplification, sequencing and profiling of Chlamydia trachomatis strains in single and mixed infection clinical samples. PMID:24971628
Oligotyping analysis of the human oral microbiome. PMID:24965363
Anatomical localization of commensal bacteria in immune cell homeostasis and disease. PMID:24942680
Minireview: Gut microbiota: the neglected endocrine organ. PMID:24892638
Exploration of bacterial community classes in major human habitats. PMID:24887286
Processing faecal samples: a step forward for standards in microbial community analysis. PMID:24884524
Importance of Diversity in the Oral Microbiota including Candida Species Revealed by High-Throughput Technologies. PMID:24864144
Osmoregulation and the human mycobiome. PMID:24860554
Metagenomic analysis of the medicinal leech gut microbiota. PMID:24860552
Helminth colonization is associated with increased diversity of the gut microbiota. PMID:24851867
The placenta harbors a unique microbiome. PMID:24848255
High-fat maternal diet during pregnancy persistently alters the offspring microbiome in a primate model. PMID:24846660
Relating the metatranscriptome and metagenome of the human gut. PMID:24843156
The prevalence of species and strains in the human microbiome: a resource for experimental efforts. PMID:24827833
Impact of the gut microbiota on the development of obesity and type 2 diabetes mellitus. PMID:24808896
Microbiota diversity and gene expression dynamics in human oral biofilms. PMID:24767457
Dynamics and associations of microbial community types across the human body. PMID:24739969
A physicians' wish list for the clinical application of intestinal metagenomics. PMID:24736271
Towards predictive models of the human gut microbiome. PMID:24727124
Analysis, optimization and verification of Illumina-generated 16S rRNA gene amplicon surveys. PMID:24722003
Exome capture from saliva produces high quality genomic and metagenomic data. PMID:24708091
mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities. PMID:24694284
Epidermal barriers. PMID:24692192
Identification and characterization of alternative splicing in parasitic nematode transcriptomes. PMID:24690220
Application of metagenomics in understanding oral health and disease. PMID:24642489
Early life establishment of site-specific microbial communities in the gut. PMID:24637795
Metagenomic systems biology and metabolic modeling of the human microbiome: from species composition to community assembly rules. PMID:24637600
The treatment-naive microbiome in new-onset Crohn's disease. PMID:24629344
Bile acids and the gut microbiome. PMID:24625896
Functional and phylogenetic assembly of microbial communities in the human microbiome. PMID:24618403
Problems and prospects of current studies on the microecology of tongue coating. PMID:24597827
The mucosal microbiome in shaping health and disease. PMID:24592323
Role of the gut microbiota in inflammatory bowel disease pathogenesis: what have we learnt in the past 10 years? PMID:24574795
Single cell genomics of uncultured, health-associated Tannerella BU063 (Oral Taxon 286) and comparison to the closely related pathogen Tannerella forsythia. PMID:24551246
Strain/species identification in metagenomes using genome-specific markers. PMID:24523352
Role of the intestinal microbiota in resistance to colonization by Clostridium difficile. PMID:24503131
Symbiosis as a general principle in eukaryotic evolution. PMID:24492707
Compositional and functional features of the gastrointestinal microbiome and their effects on human health. PMID:24486050
Microbiome, demystifying the role of microbial communities in the biosphere. PMID:24467924
Niches, population structure and genome reduction in Ochrobactrum intermedium: clues to technology-driven emergence of pathogens. PMID:24465379
Recruiting human microbiome shotgun data to site-specific reference genomes. PMID:24454771
Comparison of Gut Microbiota between Sasang Constitutions. PMID:24454486
Community differentiation of the cutaneous microbiota in psoriasis. PMID:24451201
An in vitro biofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome. PMID:24451062
Integrative analysis of the microbiome and metabolome of the human intestinal mucosal surface reveals exquisite inter-relationships. PMID:24450808
Human gut microbes use multiple transporters to distinguish vitamin B₁₂ analogs and compete in the gut. PMID:24439897
The role of metagenomics in understanding the human microbiome in health and disease. PMID:24429972
A taxonomic signature of obesity in the microbiome? Getting to the guts of the matter. PMID:24416266
Immunologic Factors in Human Milk and Disease Prevention in the Preterm Infant. PMID:24392283
Microbiome analysis of stool samples from African Americans with colon polyps. PMID:24376500
Genomics, personalized medicine, and pediatrics. PMID:24369865
Draft Genome Sequence of Staphylococcus simulans UMC-CNS-990, Isolated from a Case of Chronic Bovine Mastitis. PMID:24336375
Expanding the catalog of cas genes with metagenomes. PMID:24319142
Design and experimental application of a novel non-degenerate universal primer set that amplifies prokaryotic 16S rRNA genes with a low possibility to amplify eukaryotic rRNA genes. PMID:24277737
Molecular pathways: gene-environment interactions regulating dietary fiber induction of proliferation and apoptosis via butyrate for cancer prevention. PMID:24270685
A widespread self-cleaving ribozyme class is revealed by bioinformatics. PMID:24240507
The bronchial microbiome and asthma phenotypes. PMID:24236581
The living dead: bacterial community structure of a cadaver at the onset and end of the bloat stage of decomposition. PMID:24204941
A method for selectively enriching microbial DNA from contaminating vertebrate host DNA. PMID:24204593
MetaRef: a pan-genomic database for comparative and community microbial genomics. PMID:24203705
Metabolomics as a diagnostic tool in gastroenterology. PMID:24199025
Research on neonatal microbiomes: what neonatologists need to know. PMID:24193200
Exposome informatics: considerations for the design of future biomedical research information systems. PMID:24186958
Identification of important regressor groups, subgroups and individuals via regularization methods: application to gut microbiome data. PMID:24162467
Gas and the microbiome. PMID:24150797
Bringing the gut microbiota into focus through microbial culture: recent progress and future perspective. PMID:24148301
Metagenomic species profiling using universal phylogenetic marker genes. PMID:24141494
IMG/M 4 version of the integrated metagenome comparative analysis system. PMID:24136997
Science and regulation. Probiotics: finding the right regulatory balance. PMID:24136953
Differential abundance analysis for microbial marker-gene surveys. PMID:24076764
Advancing our understanding of the human microbiome using QIIME. PMID:24060131
Metagenomics for pathogen detection in public health. PMID:24050114
The saliva microbiome of Pan and Homo. PMID:24025115
Microbiomic signatures of psoriasis: feasibility and methodology comparison. PMID:24018484
The role of the gastrointestinal microbiome in Helicobacter pylori pathogenesis. PMID:23962822
UPARSE: highly accurate OTU sequences from microbial amplicon reads. PMID:23955772
Two-stage microbial community experimental design. PMID:23949665
Candida albicans and Enterococcus faecalis in the gut: synergy in commensalism? PMID:23941906
Distilled single-cell genome sequencing and de novo assembly for sparse microbial communities. PMID:23918251
Dietary inhibitors of histone deacetylases in intestinal immunity and homeostasis. PMID:23914191
Functional profiling of the gut microbiome in disease-associated inflammation. PMID:23906180
Looking at microbial metabolism by high-resolution (2)H-NMR spectroscopy. PMID:23862103
Impact of manure fertilization on the abundance of antibiotic-resistant bacteria and frequency of detection of antibiotic resistance genes in soil and on vegetables at harvest. PMID:23851089
Role of the gut microbiota in health and chronic gastrointestinal disease: understanding a hidden metabolic organ. PMID:23814609
Aboriginal birth cohort (ABC): a prospective cohort study of early life determinants of adiposity and associated risk factors among Aboriginal people in Canada. PMID:23800270
Beyond classification: gene-family phylogenies from shotgun metagenomic reads enable accurate community analysis. PMID:23799973
Compartmentalized and systemic control of tissue immunity by commensals. PMID:23778791
Oral microbiome of deep and shallow dental pockets in chronic periodontitis. PMID:23762384
Random sampling process leads to overestimation of β-diversity of microbial communities. PMID:23760464
Pyrosequencing analysis of the human microbiota of healthy Chinese undergraduates. PMID:23758874
Comparison of the vaginal microbiota diversity of women with and without human papillomavirus infection: a cross-sectional study. PMID:23758857
Differential response of the cynomolgus macaque gut microbiota to Shigella infection. PMID:23755118
The moron comes of age. PMID:23739268
Metagenomic sequencing reveals microbiota and its functional potential associated with periodontal disease. PMID:23673380
Microbial genomics: an increasingly revealing interface in human health and disease. PMID:23673079
Computational meta'omics for microbial community studies. PMID:23670539
The genome solver website: a virtual space fostering high impact practices for undergraduate biology. PMID:23653812
Pan-genome and comparative genome analyses of propionibacterium acnes reveal its genomic diversity in the healthy and diseased human skin microbiome. PMID:23631911
CRISPR-Cas systems target a diverse collection of invasive mobile genetic elements in human microbiomes. PMID:23628424
Investigators' perspectives on translating human microbiome research into clinical practice. PMID:23615375
Microbiomes. PMID:23604403
Exploring host-microbiota interactions in animal models and humans. PMID:23592793
Towards polypharmacokinetics: pharmacokinetics of multicomponent drugs and herbal medicines using a metabolomics approach. PMID:23573155
The startup bugs. PMID:23563414
A novel metatranscriptomic approach to identify gene expression dynamics during extracellular electron transfer. PMID:23511466
Sex-specific environmental influences on the development of autoimmune diseases. PMID:23507400
The skin microbiome: current perspectives and future challenges. PMID:23489584
The gut microbiota--masters of host development and physiology. PMID:23435359
The human gut microbiome and body metabolism: implications for obesity and diabetes. PMID:23401286
Ketone body metabolism and cardiovascular disease. PMID:23396451
Tailoring gut immune responses with lipoteichoic acid-deficient Lactobacillus acidophilus. PMID:23390423
Sequence assembly demystified. PMID:23358380
Understanding the microbiota in the midst of Renaissance architecture and olive groves. PMID:23334821
The human microbiome: from symbiosis to pathogenesis. PMID:23327521
A guide to enterotypes across the human body: meta-analysis of microbial community structures in human microbiome datasets. PMID:23326225
Regulation of intestinal microbiota by the NLR protein family. PMID:23325116
MetAMOS: a modular and open source metagenomic assembly and analysis pipeline. PMID:23320958
Effects of probiotics on gut microbiota: mechanisms of intestinal immunomodulation and neuromodulation. PMID:23320049
Biogeography of the ecosystems of the healthy human body. PMID:23316946
The gut microbiome: a new frontier in autism research. PMID:23307560
Chapter 12: Human microbiome analysis. PMID:23300406
Quantitation and composition of cutaneous microbiota in diabetic and nondiabetic men. PMID:23300163
Implications of the human microbiome project for epidemiology. PMID:23296358
Conservation and revised annotation of the Treponema denticola prcB-prcA-prtP locus encoding the dentilisin (CTLP) protease complex. PMID:23253337
Integrating next-generation sequencing and traditional tongue diagnosis to determine tongue coating microbiome. PMID:23226834
Genomic variation landscape of the human gut microbiome. PMID:23222524
Bioinformatics for the Human Microbiome Project. PMID:23209389
Next-generation sequencing in the clinic: promises and challenges. PMID:23174106
The Human Microbiome Project strategy for comprehensive sampling of the human microbiome and why it matters. PMID:23165986
Microbiome dynamics of human epidermis following skin barrier disruption. PMID:23153041
Biodiversity and functional genomics in the human microbiome. PMID:23140990
Immune disorders and its correlation with gut microbiome. PMID:23091436
Species-level analysis of DNA sequence data from the NIH Human Microbiome Project. PMID:23071716
Microbial regulation of glucose metabolism and cell-cycle progression in mammalian colonocytes. PMID:23029553
Inferring correlation networks from genomic survey data. PMID:23028285
A metagenome-wide association study of gut microbiota in type 2 diabetes. PMID:23023125
The hidden hordes. PMID:22977920
Genomic approaches to studying the human microbiota. PMID:22972298
Mind-altering microorganisms: the impact of the gut microbiota on brain and behaviour. PMID:22968153
Rodent models to study the relationships between mammals and their bacterial inhabitants. PMID:22918304
The Human Microbiome Project: a community resource for the healthy human microbiome. PMID:22904687
A complex microworld in the gut: gut microbiota and cardiovascular disease connectivity. PMID:22869188
The "most wanted" taxa from the human microbiome for whole genome sequencing. PMID:22848458
Compartmentalized control of skin immunity by resident commensals. PMID:22837383
Microbial interactions: from networks to models. PMID:22796884
Microbial profiling: extend ethnicity of human microbiome. PMID:22763544
Metabolic reconstruction for metagenomic data and its application to the human microbiome. PMID:22719234
Microbiology: Learning about who we are. PMID:22699602

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Human Microbiome Associated Disease Ontology

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Human Phenotype Ontology

Human Protein Atlas

The Human Metabolome Database

Ontology of Host-Microbe Interactions

HumanMetagenomeDB

MANTA_DB

The Human OligoGenome Resource: A Database for Customized Targeted Resequencing Covering the Human Genome

Human Protein Reference Database

mBodyMap

Genetics Home Reference

InterFil

Mouse Genome Database - a Mouse Genome Informatics (MGI) Resource

Human Gene and Protein Database

Human Connectome Project