Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation

Inevitability of Genetic Parasites

(2016) Jaime Iranzo et al.   Genome Biology and Evolution

Acidianus Tailed Spindle Virus: a New Archaeal Large Tailed Spindle Virus Discovered by Culture-Independent Methods

(2016) Rebecca A. Hochstein et al.   JOURNAL OF VIROLOGY

The logic of DNA replication in double-stranded DNA viruses: insights from global analysis of viral genomes

(2016) Darius Kazlauskas et al.   NUCLEIC ACIDS RESEARCH

The Double-Stranded DNA Virosphere as a Modular Hierarchical Network of Gene Sharing

(2016) Jaime Iranzo et al.   mBio

HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts

(2016) Patrick W. Laffy et al.   Frontiers in Microbiology

Evolution of double-stranded DNA viruses of eukaryotes: from bacteriophages to transposons to giant viruses

(2015) Eugene V. Koonin et al.   Annals of the New York Academy of Sciences

A census of α-helical membrane proteins in double-stranded DNA viruses infecting bacteria and archaea

(2015) David M. Kristensen et al.   BMC BIOINFORMATICS

Immunity, suicide or both? Ecological determinants for the combined evolution of anti-pathogen defense systems

(2015) Jaime Iranzo et al.   BMC EVOLUTIONARY BIOLOGY

Time-series metagenomic analysis reveals robustness of soil microbiome against chemical disturbance

(2015) Hiromi Kato et al.   DNA RESEARCH

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences

(2015) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

Spatially extensive microbial biogeography of the Indian Ocean provides insights into the unique community structure of a pristine coral atoll

(2015) Thomas C. Jeffries et al.   Scientific Reports

Analysis of virus genomes from glacial environments reveals novel virus groups with unusual host interactions

(2015) Christopher M. Bellas et al.   Frontiers in Microbiology

Comparison of different assembly and annotation tools on analysis of simulated viral metagenomic communities in the gut

(2014) Jorge F Vázquez-Castellanos et al.   BMC GENOMICS

Classification and quantification of bacteriophage taxa in human gut metagenomes

(2014) Alison S Waller et al.   ISME Journal

Virus World as an Evolutionary Network of Viruses and Capsidless Selfish Elements

(2014) Eugene V. Koonin et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Expanded microbial genome coverage and improved protein family annotation in the COG database

(2014) Michael Y. Galperin et al.   NUCLEIC ACIDS RESEARCH

NCBI Viral Genomes Resource

(2014) J. Rodney Brister et al.   NUCLEIC ACIDS RESEARCH

HNH proteins are a widespread component of phage DNA packaging machines

(2014) S. Kala et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A highly abundant bacteriophage discovered in the unknown sequences of human faecal metagenomes

(2014) Bas E. Dutilh et al.   Nature Communications

Emerging methods to study bacteriophage infection at the single-cell level

(2014) Vinh T. Dang et al.   Frontiers in Microbiology

Narrow-Host-Range Bacteriophages That Infect Rhizobium etli Associate with Distinct Genomic Types

(2013) Rosa Isela Santamaría et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Mimiviridae: clusters of orthologous genes, reconstruction of gene repertoire evolution and proposed expansion of the giant virus family

(2013) Natalya Yutin et al.   Virology Journal

Expanding the Marine Virosphere Using Metagenomics

(2013) Carolina Megumi Mizuno et al.   PLoS Genetics

Contribution of phage-derived genomic islands to the virulence of facultative bacterial pathogens

(2012) Ben Busby et al.   ENVIRONMENTAL MICROBIOLOGY

Orthologous Gene Clusters and Taxon Signature Genes for Viruses of Prokaryotes

(2012) D. M. Kristensen et al.   JOURNAL OF BACTERIOLOGY

Microbial virus genome annotation—Mustering the troops to fight the sequence onslaught

(2012) J. Rodney Brister et al.   VIROLOGY

Computational methods for Gene Orthology inference

(2011) D. M. Kristensen et al.   BRIEFINGS IN BIOINFORMATICS

Evolutionarily Conserved Orthologous Families in Phages Are Relatively Rare in Their Prokaryotic Hosts

(2011) D. M. Kristensen et al.   JOURNAL OF BACTERIOLOGY

Raw Sewage Harbors Diverse Viral Populations

(2011) P. G. Cantalupo et al.   mBio

A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches

(2010) David M. Kristensen et al.   BIOINFORMATICS

Measuring gene expression divergence: the distance to keep

(2010) Galina Glazko et al.   Biology Direct

Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean

(2010) Kimberly P Tucker et al.   ISME Journal

New dimensions of the virus world discovered through metagenomics

(2009) David M. Kristensen et al.   TRENDS IN MICROBIOLOGY

Eukaryotic large nucleo-cytoplasmic DNA viruses: Clusters of orthologous genes and reconstruction of viral genome evolution

(2009) Natalya Yutin et al.   Virology Journal