Newly identified HMO-2011-type phages reveal genomic diversity and biogeographic distributions of this marine viral group

Efficient dilution-to-extinction isolation of novel virus–host model systems for fastidious heterotrophic bacteria

(2021) Holger H. Buchholz et al.   ISME Journal

Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation

(2021) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Genomic Characterization of Two Novel RCA Phages Reveals New Insights into the Diversity and Evolution of Marine Viruses

(2021) Zhiqiang Zhai et al.   Microbiology Spectrum

Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities

(2020) John Beaulaurier et al.   GENOME RESEARCH

Double-stranded DNA virioplankton dynamics and reproductive strategies in the oligotrophic open ocean water column

(2020) Elaine Luo et al.   ISME Journal

Metagenome Mining Reveals Hidden Genomic Diversity of Pelagimyophages in Aquatic Environments

(2020) Asier Zaragoza-Solas et al.   mSystems

Culturing novel and abundant pelagiphages in the ocean

(2020) Zefeng Zhang et al.   ENVIRONMENTAL MICROBIOLOGY

CheckV assesses the quality and completeness of metagenome-assembled viral genomes

(2020) Stephen Nayfach et al.   NATURE BIOTECHNOLOGY

Cyanophage MazG is a pyrophosphohydrolase but unable to hydrolyse magic spot nucleotides

(2019) Branko Rihtman et al.   Environmental Microbiology Reports

Cobaviruses – a new globally distributed phage group infecting Rhodobacteraceae in marine ecosystems

(2019) Vera Bischoff et al.   ISME Journal

Marine DNA Viral Macro- and Microdiversity from Pole to Pole

(2019) Ann C. Gregory et al.   CELL

Long-read viral metagenomics captures abundant and microdiverse viral populations and their niche-defining genomic islands

(2019) Joanna Warwick-Dugdale et al.   PeerJ

Charting the diversity of uncultured viruses of Archaea and Bacteria

(2019) F. H. Coutinho et al.   BMC BIOLOGY

HMMER web server: 2018 update

(2018) Simon C Potter et al.   NUCLEIC ACIDS RESEARCH

Novel Caudovirales associated with Marine Group I Thaumarchaeota assembled from metagenomes

(2018) Mario López-Pérez et al.   ENVIRONMENTAL MICROBIOLOGY

Pelagiphages in the Podoviridae family integrate into host genomes

(2018) Yanlin Zhao et al.   ENVIRONMENTAL MICROBIOLOGY

Discovery of several novel, widespread, and ecologically distinct marine Thaumarchaeota viruses that encode amoC nitrification genes

(2018) Nathan A. Ahlgren et al.   ISME Journal

Single-virus genomics reveals hidden cosmopolitan and abundant viruses

(2017) Francisco Martinez-Hernandez et al.   Nature Communications

Environmental Viral Genomes Shed New Light on Virus-Host Interactions in the Ocean

(2017) Yosuke Nishimura et al.   mSphere

Ecological Genomics of the Uncultivated Marine Roseobacter Lineage CHAB-I-5

(2016) Yao Zhang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Ecogenomics and potential biogeochemical impacts of globally abundant ocean viruses

(2016) Simon Roux et al.   NATURE

Uncovering Earth’s virome

(2016) David Paez-Espino et al.   NATURE

Single-cell genomics-based analysis of virus–host interactions in marine surface bacterioplankton

(2015) Jessica M Labonté et al.   ISME Journal

Patterns and ecological drivers of ocean viral communities

(2015) J. R. Brum et al.   SCIENCE

Depth-Specific Distribution of the SAR116 Phages Revealed by Virome Binning

(2014) Ilnam Kang et al.   JOURNAL OF MICROBIOLOGY AND BIOTECHNOLOGY

New Applications for Phage Integrases

(2014) Paul C.M. Fogg et al.   JOURNAL OF MOLECULAR BIOLOGY

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Ribonucleotide reductases reveal novel viral diversity and predict biological and ecological features of unknown marine viruses

(2014) E. G. Sakowski et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Draft genome sequence of marine alphaproteobacterial strain HIMB11, the first cultivated representative of a unique lineage within the Roseobacter clade possessing an unusually small genome

(2014) Bryndan P. Durham et al.   Standards in Genomic Sciences

Ecology and evolution of viruses infecting uncultivated SUP05 bacteria as revealed by single-cell- and meta-genomics

(2014) Simon Roux et al.   eLife

Shotgun metagenomics indicates novel family A DNA polymerases predominate within marine virioplankton

(2013) Helen F Schmidt et al.   ISME Journal

Abundant SAR11 viruses in the ocean

(2013) Yanlin Zhao et al.   NATURE

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Pacific Ocean Virome (POV): A Marine Viral Metagenomic Dataset and Associated Protein Clusters for Quantitative Viral Ecology

(2013) Bonnie L. Hurwitz et al.   PLoS One

Genome of a SAR116 bacteriophage shows the prevalence of this phage type in the oceans

(2013) I. Kang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Expanding the Marine Virosphere Using Metagenomics

(2013) Carolina Megumi Mizuno et al.   PLoS Genetics

Nutrient requirements for growth of the extreme oligotroph ‘Candidatus Pelagibacter ubique’ HTCC1062 on a defined medium

(2012) Paul Carini et al.   ISME Journal

DnaJ (Hsp40 Protein) Binding to Folded Substrate Impacts KplE1 Prophage Excision Efficiency

(2012) Tania M. Puvirajesinghe et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Rapid diversification of coevolving marine Synechococcus and a virus

(2012) M. F. Marston et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Seasonality in Ocean Microbial Communities

(2012) S. J. Giovannoni et al.   SCIENCE

Marine Viruses: Truth or Dare

(2011) Mya Breitbart   Annual Review of Marine Science

Easyfig: a genome comparison visualizer

(2011) M. J. Sullivan et al.   BIOINFORMATICS

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Ribonucleotide reduction - horizontal transfer of a required function spans all three domains

(2010) Daniel Lundin et al.   BMC EVOLUTIONARY BIOLOGY

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Prokaryotic Genomes and Diversity in Surface Ocean Waters: Interrogating the Global Ocean Sampling Metagenome

(2009) E. J. Biers et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Flavin-dependent thymidylate synthase: A novel pathway towards thymine

(2009) Eric M. Koehn et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

Mechanism of ADP-ribosylation removal revealed by the structure and ligand complexes of the dimanganese mono-ADP-ribosylhydrolase DraG

(2009) C. L. Berthold et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Iron–sulfur cluster biosynthesis in bacteria: Mechanisms of cluster assembly and transfer

(2008) Marc Fontecave et al.   ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS

Cloning, characterization and expression analysis of nucleotide metabolism-related genes of mycobacteriophage L5

(2008) Bidisha Bhattacharya et al.   FEMS MICROBIOLOGY LETTERS

Unifying classical and molecular taxonomic classification: analysis of the Podoviridae using BLASTP-based tools

(2008) Rob Lavigne et al.   RESEARCH IN MICROBIOLOGY