Integrated Microbial Genomes and Microbiomes - Viral Resources
Names
More detailed information about this field from each metasource.
Integrated Microbial Genomes and Microbiomes - Viral Resources
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v3
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Names
More detailed information about this field from each metasource.
Integrated Microbial Genomes and Microbiomes - Viral Resources
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v3
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Other names: IMG/VR, IMG/VR v3
Names
More detailed information about this field from each metasource.
Integrated Microbial Genomes and Microbiomes - Viral Resources
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v3
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Since 2016, the IMG/VR database has provided access to the largest collection of viral sequences obtained from (meta)genomes. The 3rd version of IMG/VR (Sept 2020) is composed of 18,373 cultivated and 2,314,329 uncultivated viral genomes (UViGs), nearly tripling the total number of sequences compared to the previous version. UViGs in IMG/VR are reported as single viral contigs, integrated proviruses, or genome bins, and are annotated with a new standardized pipeline including genome quality estimation using CheckV, taxonomic classification reflecting the latest ICTV update, and expanded host taxonomy prediction. The new IMG/VR interface enables users to efficiently browse, search, and select UViGs based on genome features and/or sequence similarity.
Description
More detailed information about this field from each metasource.
Since 2016, the IMG/VR database has provided access to the largest collection of viral sequences obtained from (meta)genomes. The 3rd version of IMG/VR (Sept 2020) is composed of 18,373 cultivated and 2,314,329 uncultivated viral genomes (UViGs), nearly tripling the total number of sequences compared to the previous version. UViGs in IMG/VR are reported as single viral contigs, integrated proviruses, or genome bins, and are annotated with a new standardized pipeline including genome quality estimation using CheckV, taxonomic classification reflecting the latest ICTV update, and expanded host taxonomy prediction. The new IMG/VR interface enables users to efficiently browse, search, and select UViGs based on genome features and/or sequence similarity.
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
Since 2016, the IMG/VR database has provided access to the largest collection of viral sequences obtained from (meta)genomes. Here we present the 3rd version of IMG/VR, composed of 18,373 cultivated and 2,314,329 uncultivated viral genomes (UViGs), nearly tripling the total number of sequences compared to the previous version. UViGs in IMG/VR are now reported as single viral contigs, integrated proviruses, or genome bins, and are annotated with a new standardized pipeline including genome quality estimation using CheckV, taxonomic classification reflecting the latest ICTV update, and expanded host taxonomy prediction. The new IMG/VR interface enables users to efficiently browse, search, and select UViGs based on genome features and/or sequence similarity.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Webpage:
https://img.jgi.doe.gov/vr/Webpage
More detailed information about this field from each metasource.
https://img.jgi.doe.gov/vr/
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Licence:
Name: JGI Data Management Policy, Practices & ResourcesLicence name
More detailed information about this field from each metasource.
JGI Data Management Policy, Practices & Resources
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
Licence URL
More detailed information about this field from each metasource.
https://jgi.doe.gov/data-and-tools/data-management-policy-practices-resources/
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
PMID: 27799466
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
PMID: 30407573
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses
PMID: 33137183
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
https://doi.org/10.1093/nar/gkaa946
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Publications
More detailed information about this field from each metasource.
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
PMID: 27799466
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
PMID: 30407573
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses
PMID: 33137183
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
https://doi.org/10.1093/nar/gkaa946
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
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IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
PubMed citations: 82.
82 articles citing: IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses
Genomes of six viruses that infect Asgard archaea from deep-sea sediments. PMID:35760837
A closed Candidatus Odinarchaeum chromosome exposes Asgard archaeal viruses. PMID:35760836
Thousands of small, novel genes predicted in global phage genomes. PMID:35732113
The Chronic Wound Phageome: Phage Diversity and Associations with Wounds and Healing Outcomes. PMID:35435739
Using AnnoTree to Get More Assignments, Faster, in DIAMOND+MEGAN Microbiome Analysis. PMID:35191776
The Neglected Gut Microbiome: Fungi, Protozoa, and Bacteriophages in Inflammatory Bowel Disease. PMID:35092426
Dissecting the dominant hot spring microbial populations based on community-wide sampling at single-cell genomic resolution. PMID:34969995
Integrating cultivation and metagenomics for a multi-kingdom view of skin microbiome diversity and functions. PMID:34952941
A k-mer based approach for classifying viruses without taxonomy identifies viral associations in human autism and plant microbiomes. PMID:34849195
Minnesota peat viromes reveal terrestrial and aquatic niche partitioning for local and global viral populations. PMID:34836550
Comparison of PCR versus PCR-Free DNA Library Preparation for Characterising the Human Faecal Virome. PMID:34696523
Comprehensive discovery of CRISPR-targeted terminally redundant sequences in the human gut metagenome: Viruses, plasmids, and more. PMID:34673779
A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. PMID:34665009
Characterizing Enterotypes in Human Metagenomics: A Viral Perspective. PMID:34659174
Dynamic impact of virome on colitis and colorectal cancer: Immunity, inflammation, prevention and treatment. PMID:34656791
Genome and Ecology of a Novel Alteromonas Podovirus, ZP6, Representing a New Viral Genus, Mareflavirus. PMID:34643440
Finding functional associations between prokaryotic virus orthologous groups: a proof of concept. PMID:34525942
Characterization and Genomic Analysis of Marinobacter Phage vB_MalS-PS3, Representing a New Lambda-Like Temperate Siphoviral Genus Infecting Algae-Associated Bacteria. PMID:34512604
Protein tertiary structure prediction and refinement using deep learning and Rosetta in CASP14. PMID:34331359
Minimal-moderate variation of human oral virome and microbiome in IgA deficiency. PMID:34290346
Exploring Codon Adjustment Strategies towards Escherichia coli-Based Production of Viral Proteins Encoded by HTH1, a Novel Prophage of the Marine Bacterium Hypnocyclicus thermotrophus. PMID:34201869
Phage-encoded ten-eleven translocation dioxygenase (TET) is active in C5-cytosine hypermodification in DNA. PMID:34155108
Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages. PMID:34108477
A catalog of tens of thousands of viruses from human metagenomes reveals hidden associations with chronic diseases. PMID:34083435
Temporal Changes of Virus-Like Particle Abundance and Metagenomic Comparison of Viral Communities in Cropland and Prairie Soils. PMID:34077260
Spinal Cord Injury Changes the Structure and Functional Potential of Gut Bacterial and Viral Communities. PMID:33975974
Probing the "Dark Matter" of the Human Gut Phageome: Culture Assisted Metagenomics Enables Rapid Discovery and Host-Linking for Novel Bacteriophages. PMID:33791236
Searching for fat tails in CRISPR-Cas systems: Data analysis and mathematical modeling. PMID:33770071
Enteric Phageome Alterations in Patients With Type 2 Diabetes. PMID:33552999
metaXplor: an interactive viral and microbial metagenomic data manager. PMID:33527143
VPF-Class: Taxonomic assignment and host prediction of uncultivated viruses based on viral protein families. PMID:33471063
Polinton-like viruses are abundant in aquatic ecosystems. PMID:33436089
Long-read metagenomics using PromethION uncovers oral bacteriophages and their interaction with host bacteria. PMID:33397904
Alignment of biological networks by integer linear programming: virus-host protein-protein interaction networks. PMID:33203352
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses. PMID:33137183
Seasonal Regime Shift in the Viral Communities of a Permafrost Thaw Lake. PMID:33105728
Exploring the Remarkable Diversity of Culturable Escherichia coli Phages in the Danish Wastewater Environment. PMID:32899836
Unveiling Crucivirus Diversity by Mining Metagenomic Data. PMID:32873755
Computational approaches in viral ecology. PMID:32670501
Insights into the dynamics between viruses and their hosts in a hot spring microbial mat. PMID:32661357
Comparative Genomics Unveils Regionalized Evolution of the Faustovirus Genomes. PMID:32456325
Extreme Viral Partitioning in a Marine-Derived High Arctic Lake. PMID:32404515
AcrFinder: genome mining anti-CRISPR operons in prokaryotes and their viruses. PMID:32402073
Phages Actively Challenge Niche Communities in Antarctic Soils. PMID:32371471
Prokaryotic and Viral Community Composition of Freshwater Springs in Florida, USA. PMID:32265327
Investigating the Diversity of Marine Bacteriophage in Contrasting Water Masses Associated with the East Australian Current (EAC) System. PMID:32188136
Clades of huge phages from across Earth's ecosystems. PMID:32051592
Uncovering a hidden diversity: optimized protocols for the extraction of dsDNA bacteriophages from soil. PMID:32046783
Diversity, evolution, and classification of virophages uncovered through global metagenomics. PMID:31823797
Studying the gut virome in the metagenomic era: challenges and perspectives. PMID:31660953
Recruitment of Reverse Transcriptase-Cas1 Fusion Proteins by Type VI-A CRISPR-Cas Systems. PMID:31572350
Beyond cells - The virome in the human holobiont. PMID:31528630
Bioinformatics Identification of Anti-CRISPR Loci by Using Homology, Guilt-by-Association, and CRISPR Self-Targeting Spacer Approaches. PMID:31506266
Functional metagenomics-guided discovery of potent Cas9 inhibitors in the human microbiome. PMID:31502535
Improved single-swab sample preparation for recovering bacterial and phage DNA from human skin and wound microbiomes. PMID:31488062
Long-read metagenomic exploration of extrachromosomal mobile genetic elements in the human gut. PMID:31455406
Diversity patterns of bacteriophages infecting Aggregatibacter and Haemophilus species across clades and niches. PMID:31201356
Bacteriophages of the lower urinary tract. PMID:31073244
CRISPR Spacers Indicate Preferential Matching of Specific Virioplankton Genes. PMID:30837341
Halobacterium salinarum virus ChaoS9, a Novel Halovirus Related to PhiH1 and PhiCh1. PMID:30832293
Cobaviruses - a new globally distributed phage group infecting Rhodobacteraceae in marine ecosystems. PMID:30718806
Myalgic Encephalomyelitis/Chronic Fatigue Syndrome in the Era of the Human Microbiome: Persistent Pathogens Drive Chronic Symptoms by Interfering With Host Metabolism, Gene Expression, and Immunity. PMID:30564562
Minimum Information about an Uncultivated Virus Genome (MIUViG). PMID:30556814
Communities of Phytoplankton Viruses across the Transition Zone of the St. Lawrence Estuary. PMID:30486388
IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes. PMID:30407573
Therapeutic Potential of a New Jumbo Phage That Infects Vibrio coralliilyticus, a Widespread Coral Pathogen. PMID:30405564
Discovery of several novel, widespread, and ecologically distinct marine Thaumarchaeota viruses that encode amoC nitrification genes. PMID:30315316
IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes. PMID:30289528
Bioinformatic evidence of widespread priming in type I and II CRISPR-Cas systems. PMID:30157725
MARVEL, a Tool for Prediction of Bacteriophage Sequences in Metagenomic Bins. PMID:30131825
Investigation of recombination-intense viral groups and their genes in the Earth's virome. PMID:30065291
Murine colitis reveals a disease-associated bacteriophage community. PMID:30038310
Evolutionary History of Bacteriophages in the Genus Paraburkholderia. PMID:29867788
Cultivation and sequencing of rumen microbiome members from the Hungate1000 Collection. PMID:29553575
"French Phage Network"-Third Meeting Report. PMID:29534436
FastViromeExplorer: a pipeline for virus and phage identification and abundance profiling in metagenomics data. PMID:29340239
Diversity of dsDNA Viruses in a South African Hot Spring Assessed by Metagenomics and Microscopy. PMID:29156552
Benchmarking viromics: an in silico evaluation of metagenome-enabled estimates of viral community composition and diversity. PMID:28948103
Nontargeted virus sequence discovery pipeline and virus clustering for metagenomic data. PMID:28749930
On the Origin of Reverse Transcriptase-Using CRISPR-Cas Systems and Their Hyperdiverse, Enigmatic Spacer Repertoires. PMID:28698278
A Novel Roseosiphophage Isolated from the Oligotrophic South China Sea. PMID:28505134
vConTACT: an iVirus tool to classify double-stranded DNA viruses that infect Archaea and Bacteria. PMID:28480138 -
IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
PubMed citations: 71.
71 articles citing: IMG/VR v.2.0: an integrated data management and analysis system for cultivated and environmental viral genomes
Metagenomic Analyses of Multiple Gut Datasets Revealed the Association of Phage Signatures in Colorectal Cancer. PMID:35782128
Revolutionized virome research using systems microbiology approaches. PMID:35723062
Host-Associated Phages Disperse across the Extraterrestrial Analogue Antarctica. PMID:35499326
Quantifying and Cataloguing Unknown Sequences within Human Microbiomes. PMID:35258340
Presence and Persistence of Putative Lytic and Temperate Bacteriophages in Vaginal Metagenomes from South African Adolescents. PMID:34960611
Remarkably coherent population structure for a dominant Antarctic Chlorobium species. PMID:34823595
Unveiling Ecological and Genetic Novelty within Lytic and Lysogenic Viral Communities of Hot Spring Phototrophic Microbial Mats. PMID:34787442
Unexpected myriad of co-occurring viral strains and species in one of the most abundant and microdiverse viruses on Earth. PMID:34775488
DNA Viral Diversity, Abundance, and Functional Potential Vary across Grassland Soils with a Range of Historical Moisture Regimes. PMID:34724822
MVIP: multi-omics portal of viral infection. PMID:34718748
Comprehensive discovery of CRISPR-targeted terminally redundant sequences in the human gut metagenome: Viruses, plasmids, and more. PMID:34673779
A Previously Undescribed Highly Prevalent Phage Identified in a Danish Enteric Virome Catalog. PMID:34665009
Characterizing Enterotypes in Human Metagenomics: A Viral Perspective. PMID:34659174
Viruses and Their Interactions With Bacteria and Archaea of Hypersaline Great Salt Lake. PMID:34650523
The novel anti-CRISPR AcrIIA22 relieves DNA torsion in target plasmids and impairs SpyCas9 activity. PMID:34644300
Genome and Ecology of a Novel Alteromonas Podovirus, ZP6, Representing a New Viral Genus, Mareflavirus. PMID:34643440
Taxonomy-aware, sequence similarity ranking reliably predicts phage-host relationships. PMID:34625070
virusMED: an atlas of hotspots of viral proteins. PMID:34614039
PAM-repeat associations and spacer selection preferences in single and co-occurring CRISPR-Cas systems. PMID:34593010
Mechanism for Cas4-assisted directional spacer acquisition in CRISPR-Cas. PMID:34588691
Long-read metagenomics of multiple displacement amplified DNA of low-biomass human gut phageomes by SACRA pre-processing chimeric reads. PMID:34586399
High-throughput identification of viral termini and packaging mechanisms in virome datasets using PhageTermVirome. PMID:34526611
Pathways of thymidine hypermodification. PMID:34522950
Prokaryotic viruses impact functional microorganisms in nutrient removal and carbon cycle in wastewater treatment plants. PMID:34518545
Highly diverse flavobacterial phages isolated from North Sea spring blooms. PMID:34475519
Viral Characteristics of the Warm Atlantic and Cold Arctic Water Masses in the Nordic Seas. PMID:34469192
Moisture modulates soil reservoirs of active DNA and RNA viruses. PMID:34446837
RaFAH: Host prediction for viruses of Bacteria and Archaea based on protein content. PMID:34286299
Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome. PMID:34168315
Ecology of inorganic sulfur auxiliary metabolism in widespread bacteriophages. PMID:34108477
A global metagenomic map of urban microbiomes and antimicrobial resistance. PMID:34043940
Ecology and molecular targets of hypermutation in the global microbiome. PMID:34031405
Diversity and distribution of viruses inhabiting the deepest ocean on Earth. PMID:33972725
Uncultivated Viral Populations Dominate Estuarine Viromes on the Spatiotemporal Scale. PMID:33727395
Induction and Genome Analysis of HY01, a Newly Reported Prophage from an Emerging Shrimp Pathogen Vibrio campbellii. PMID:33671959
Massive expansion of human gut bacteriophage diversity. PMID:33606979
Lifestyle of sponge symbiont phages by host prediction and correlative microscopy. PMID:33603147
VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses. PMID:33522966
VPF-Class: Taxonomic assignment and host prediction of uncultivated viruses based on viral protein families. PMID:33471063
Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions. PMID:33452481
Long-read metagenomics using PromethION uncovers oral bacteriophages and their interaction with host bacteria. PMID:33397904
CheckV assesses the quality and completeness of metagenome-assembled viral genomes. PMID:33349699
The International Virus Bioinformatics Meeting 2020. PMID:33291220
A genomic catalog of Earth's microbiomes. PMID:33169036
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses. PMID:33137183
The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities. PMID:33119741
mMGE: a database for human metagenomic extrachromosomal mobile genetic elements. PMID:33074335
A distinct lineage of Caudovirales that encodes a deeply branching multi-subunit RNA polymerase. PMID:32908149
The Gut Virome Database Reveals Age-Dependent Patterns of Virome Diversity in the Human Gut. PMID:32841606
Influence of the polar light cycle on seasonal dynamics of an Antarctic lake microbial community. PMID:32772914
Bacteroides thetaiotaomicron-Infecting Bacteriophage Isolates Inform Sequence-Based Host Range Predictions. PMID:32652063
LEMMI: a continuous benchmarking platform for metagenomics classifiers. PMID:32616517
MSH1 is required for maintenance of the low mutation rates in plant mitochondrial and plastid genomes. PMID:32601224
Initial Mapping of the New York City Wastewater Virome. PMID:32546676
VIBRANT: automated recovery, annotation and curation of microbial viruses, and evaluation of viral community function from genomic sequences. PMID:32522236
Predicting host taxonomic information from viral genomes: A comparison of feature representations. PMID:32453718
Metagenome Mining Reveals Hidden Genomic Diversity of Pelagimyophages in Aquatic Environments. PMID:32071164
Discovery of several thousand highly diverse circular DNA viruses. PMID:32014111
Giant virus diversity and host interactions through global metagenomics. PMID:31968354
A jumbo phage that forms a nucleus-like structure evades CRISPR-Cas DNA targeting but is vulnerable to type III RNA-based immunity. PMID:31819217
A Novel Benthic Phage Infecting Shewanella with Strong Replication Ability. PMID:31752437
A Review on Viral Metagenomics in Extreme Environments. PMID:31749771
The Virome of Cerebrospinal Fluid: Viruses Where We Once Thought There Were None. PMID:31555247
Metagenomic Analysis of the Diversity of DNA Viruses in the Surface and Deep Sea of the South China Sea. PMID:31507563
CRISPR-Cas System of a Prevalent Human Gut Bacterium Reveals Hyper-targeting against Phages in a Human Virome Catalog. PMID:31492655
Diversity patterns of bacteriophages infecting Aggregatibacter and Haemophilus species across clades and niches. PMID:31201356
Characterization of the virome of Paracoccus spp. (Alphaproteobacteria) by combined in silico and in vivo approaches. PMID:31133656
A Viral Ecogenomics Framework To Uncover the Secrets of Nature's "Microbe Whisperers". PMID:31120025
The Promises and Pitfalls of Machine Learning for Detecting Viruses in Aquatic Metagenomes. PMID:31057513
Enterococcus faecalis Countermeasures Defeat a Virulent Picovirinae Bacteriophage. PMID:30634666
The 26th annual Nucleic Acids Research database issue and Molecular Biology Database Collection. PMID:30626175 -
IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses
PubMed citations: 43.
43 articles citing: IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses
Viral biogeography of the mammalian gut and parenchymal organs. PMID:35918425
Into the Dark: Exploring the Deep Ocean with Single-Virus Genomics. PMID:35891567
Mutualistic interplay between bacteriophages and bacteria in the human gut. PMID:35773472
Accurate identification of bacteriophages from metagenomic data using Transformer. PMID:35769000
Genomic analysis of a novel active prophage of Hafnia paralvei. PMID:35752683
Detection of Ancient Viruses and Long-Term Viral Evolution. PMID:35746807
Thousands of small, novel genes predicted in global phage genomes. PMID:35732113
Metagenomes of Red Sea Subpopulations Challenge the Use of Marker Genes and Morphology to Assess Trichodesmium Diversity. PMID:35707175
UG/Abi: a highly diverse family of prokaryotic reverse transcriptases associated with defense functions. PMID:35648479
The Use of Bacteriophages in Biotechnology and Recent Insights into Proteomics. PMID:35625297
Generating dynamic gene expression patterns without the need for regulatory circuits. PMID:35617346
Virus-Host Interactions and Genetic Diversity of Antarctic Sea Ice Bacteriophages. PMID:35532161
Novel Viral DNA Polymerases From Metagenomes Suggest Genomic Sources of Strand-Displacing Biochemical Phenotypes. PMID:35531281
A Phage Foundry Framework to Systematically Develop Viral Countermeasures to Combat Antibiotic-Resistant Bacterial Pathogens. PMID:35402883
Metagenomic investigation of the equine faecal microbiome reveals extensive taxonomic diversity. PMID:35345588
A Comparative Analysis of Weizmannia coagulans Genomes Unravels the Genetic Potential for Biotechnological Applications. PMID:35328559
Computational Tools for the Analysis of Uncultivated Phage Genomes. PMID:35311574
A Novel Freshwater Cyanophage, Mae-Yong924-1, Reveals a New Family. PMID:35215876
Bacteriophages Roam the Wheat Phyllosphere. PMID:35215838
Genome binning of viral entities from bulk metagenomics data. PMID:35181661
Predicting the capsid architecture of phages from metagenomic data. PMID:35140890
Novel Viral Communities Potentially Assisting in Carbon, Nitrogen, and Sulfur Metabolism in the Upper Slope Sediments of Mariana Trench. PMID:35089086
Unique mobile elements and scalable gene flow at the prokaryote-eukaryote boundary revealed by circularized Asgard archaea genomes. PMID:35027677
Saline lakes on the Qinghai-Tibet Plateau harbor unique viral assemblages mediating microbial environmental adaption. PMID:34988389
Cargo Genes of Tn7-Like Transposons Comprise an Enormous Diversity of Defense Systems, Mobile Genetic Elements, and Antibiotic Resistance Genes. PMID:34872347
Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes. PMID:34752450
Comparison of PCR versus PCR-Free DNA Library Preparation for Characterising the Human Faecal Virome. PMID:34696523
Characterizing Enterotypes in Human Metagenomics: A Viral Perspective. PMID:34659174
Genome and Ecology of a Novel Alteromonas Podovirus, ZP6, Representing a New Viral Genus, Mareflavirus. PMID:34643440
CRISPR-Cas systems are widespread accessory elements across bacterial and archaeal plasmids. PMID:34606604
Characterization and genomic analysis of the first Oceanospirillum phage, vB_OliS_GJ44, representing a novel siphoviral cluster. PMID:34544379
DNase Treatment Improves Viral Enrichment in Agricultural Soil Viromes. PMID:34491084
Viral Characteristics of the Warm Atlantic and Cold Arctic Water Masses in the Nordic Seas. PMID:34469192
The Human Gut Phageome: Origins and Roles in the Human Gut Microbiome. PMID:34150671
Metaviromes Reveal the Dynamics of Pseudomonas Host-Specific Phages Cultured and Uncultured by Plaque Assay. PMID:34064231
Prophage Genomics and Ecology in the Family Rhodobacteraceae. PMID:34064105
Ecology and molecular targets of hypermutation in the global microbiome. PMID:34031405
BACPHLIP: predicting bacteriophage lifestyle from conserved protein domains. PMID:33996289
Individuals at risk for rheumatoid arthritis harbor differential intestinal bacteriophage communities with distinct metabolic potential. PMID:33957082
Influence of Non-canonical DNA Bases on the Genomic Diversity of Tevenvirinae. PMID:33889139
Deep sea sediments associated with cold seeps are a subsurface reservoir of viral diversity. PMID:33649554
The 2021 Nucleic Acids Research database issue and the online molecular biology database collection. PMID:33396976
Viral discovery in the 'realm' of COVID-19. PMID:33258558 - https://doi.org/10.1093/nar/gkaa946
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More detailed information about this field from each metasource.
crispr
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metagenome
metasource: Fairsharing.org
version: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
viral genome databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
Tags
More detailed information about this field from each metasource.
crispr
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metagenome
metasource: Fairsharing.orgversion: FAIRsharing.org: IMG/VR; Integrated Microbial Genomes and Microbiomes - Viral Resources; DOI: https://doi.org/10.25504/FAIRsharing.2KIa7T; Last edited: Jan. 25, 2021, 4:28 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
genomics databases (non-vertebrate)
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
viral genome databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
crispr metagenome genomics viral genome
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