ViralRecall—A Flexible Command-Line Tool for the Detection of Giant Virus Signatures in ‘Omic Data

Global Organization and Proposed Megataxonomy of the Virus World

(2020) Eugene V. Koonin et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Giant virus diversity and host interactions through global metagenomics

(2020) Frederik Schulz et al.   NATURE

Clades of huge phages from across Earth’s ecosystems

(2020) Basem Al-Shayeb et al.   NATURE

Dynamic genome evolution and complex virocell metabolism of globally-distributed giant viruses

(2020) Mohammad Moniruzzaman et al.   Nature Communications

Yaravirus: A novel 80-nm virus infectingAcanthamoeba castellanii

(2020) Paulo V. M. Boratto et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A distinct lineage of Caudovirales that encodes a deeply branching multi-subunit RNA polymerase

(2020) Alaina R. Weinheimer et al.   Nature Communications

Biogeography of marine giant viruses reveals their interplay with eukaryotes and ecological functions

(2020) Hisashi Endo et al.   Nature Ecology & Evolution

Widespread endogenization of giant viruses shapes genomes of green algae

(2020) Mohammad Moniruzzaman et al.   NATURE

Host Range and Coding Potential of Eukaryotic Giant Viruses

(2020) Tsu-Wang Sun et al.   Viruses-Basel

Virus Genomes from Deep Sea Sediments Expand the Ocean Megavirome and Support Independent Origins of Viral Gigantism

(2019) Disa Bäckström et al.   mBio

Medusavirus, a novel large DNA virus discovered from hot spring water

(2019) Genki Yoshikawa et al.   JOURNAL OF VIROLOGY

Giant Viruses—Big Surprises

(2019) Nadav Brandes et al.   Viruses-Basel

The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata

(2019) Daniele Armaleo et al.   BMC GENOMICS

Taxon Richness of “Megaviridae” Exceeds those of Bacteria and Archaea in the Ocean

(2018) Tomoko Mihara et al.   MICROBES AND ENVIRONMENTS

The Physcomitrella patens chromosome-scale assembly reveals moss genome structure and evolution

(2018) Daniel Lang et al.   PLANT JOURNAL

A giant virus infecting green algae encodes key fermentation genes

(2018) Christopher R. Schvarcz et al.   VIROLOGY

Tailed giant Tupanvirus possesses the most complete translational apparatus of the known virosphere

(2018) Jônatas Abrahão et al.   Nature Communications

FastViromeExplorer: a pipeline for virus and phage identification and abundance profiling in metagenomics data

(2018) Saima Sultana Tithi et al.   PeerJ

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

(2018) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database in 2019

(2018) Sara El-Gebali et al.   NUCLEIC ACIDS RESEARCH

Hidden diversity of soil giant viruses

(2018) Frederik Schulz et al.   Nature Communications

Giant viruses with an expanded complement of translation system components

(2017) Frederik Schulz et al.   SCIENCE

A Glimpse of Nucleo-Cytoplasmic Large DNA Virus Biodiversity through the Eukaryotic Genomics Window

(2017) Lucie Gallot-Lavallée et al.   Viruses-Basel

Giant Viruses of Amoebas: An Update

(2016) Sarah Aherfi et al.   Frontiers in Microbiology

MG-Digger: An Automated Pipeline to Search for Giant Virus-Related Sequences in Metagenomes

(2016) Jonathan Verneau et al.   Frontiers in Microbiology

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

(2015) Nuala A. O'Leary et al.   NUCLEIC ACIDS RESEARCH

Provirophages in the Bigelowiella genome bear testimony to past encounters with giant viruses

(2015) Guillaume Blanc et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Thirty-thousand-year-old distant relative of giant icosahedral DNA viruses with a pandoravirus morphology

(2014) M. Legendre et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multiple occurrences of giant virus core genes acquired by eukaryotic genomes: The visible part of the iceberg?

(2014) Jonathan Filée   VIROLOGY

Plant genomes enclose footprints of past infections by giant virus relatives

(2014) Florian Maumus et al.   Nature Communications

Exploring nucleo-cytoplasmic large DNA viruses in Tara Oceans microbial metagenomes

(2013) Pascal Hingamp et al.   ISME Journal

New Insights into the Evolution of Entomopoxvirinae from the Complete Genome Sequences of Four Entomopoxviruses Infecting Adoxophyes honmai, Choristoneura biennis, Choristoneura rosaceana, and Mythimna separata

(2013) J. Theze et al.   JOURNAL OF VIROLOGY

Proteinortho: Detection of (Co-)orthologs in large-scale analysis

(2011) Marcus Lechner et al.   BMC BIOINFORMATICS

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Marine Prasinovirus Genomes Show Low Evolutionary Divergence and Acquisition of Protein Metabolism Genes by Horizontal Gene Transfer

(2010) H. Moreau et al.   JOURNAL OF VIROLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Giant Marseillevirus highlights the role of amoebae as a melting pot in emergence of chimeric microorganisms

(2009) M. Boyer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The virophage as a unique parasite of the giant mimivirus

(2008) Bernard La Scola et al.   NATURE

Redefining viruses: lessons from Mimivirus

(2008) Didier Raoult et al.   NATURE REVIEWS MICROBIOLOGY