Tara Oceans: towards global ocean ecosystems biology

S Sunagawa, SG Acinas, P Bork, C Bowler… - Nature Reviews …, 2020 - nature.com
A planetary-scale understanding of the ocean ecosystem, particularly in light of climate
change, is crucial. Here, we review the work of Tara Oceans, an international …

[HTML][HTML] Minimum information about an uncultivated virus genome (MIUViG)

S Roux, EM Adriaenssens, BE Dutilh, EV Koonin… - Nature …, 2019 - nature.com
We present an extension of the Minimum Information about any (x) Sequence (MIxS)
standard for reporting sequences of uncultivated virus genomes. Minimum Information about …

[HTML][HTML] A roadmap for genome-based phage taxonomy

D Turner, AM Kropinski, EM Adriaenssens - Viruses, 2021 - mdpi.com
Bacteriophage (phage) taxonomy has been in flux since its inception over four decades ago.
Genome sequencing has put pressure on the classification system and recent years have …

Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks

H Bin Jang, B Bolduc, O Zablocki, JH Kuhn… - Nature …, 2019 - nature.com
Microbiomes from every environment contain a myriad of uncultivated archaeal and
bacterial viruses, but studying these viruses is hampered by the lack of a universal, scalable …

[HTML][HTML] Four principles to establish a universal virus taxonomy

P Simmonds, EM Adriaenssens, FM Zerbini… - PLoS …, 2023 - journals.plos.org
A universal taxonomy of viruses is essential for a comprehensive view of the virus world and
for communicating the complicated evolutionary relationships among viruses. However …

[HTML][HTML] Characterization of crAss-like phage isolates highlights Crassvirales genetic heterogeneity and worldwide distribution

MD Ramos-Barbero, C Gómez-Gómez… - Nature …, 2023 - nature.com
Crassvirales (crAss-like phages) are an abundant group of human gut-specific
bacteriophages discovered in silico. The use of crAss-like phages as human fecal indicators …

[HTML][HTML] Taxonomy of prokaryotic viruses: 2018-2019 update from the ICTV Bacterial and Archaeal Viruses Subcommittee

EM Adriaenssens, MB Sullivan, P Knezevic… - Archives of …, 2020 - Springer
This article is a summary of the activities of the ICTV's Bacterial and Archaeal Viruses
Subcommittee for the years 2018 and 2019. Highlights include the creation of a new order …

[HTML][HTML] Phage family classification under Caudoviricetes: A review of current tools using the latest ICTV classification framework

Y Zhu, J Shang, C Peng, Y Sun - Frontiers in microbiology, 2022 - frontiersin.org
Bacteriophages, which are viruses infecting bacteria, are the most ubiquitous and diverse
entities in the biosphere. There is accumulating evidence revealing their important roles in …

[HTML][HTML] Hi-C metagenome sequencing reveals soil phage–host interactions

R Wu, MR Davison, WC Nelson, ML Smith… - Nature …, 2023 - nature.com
Bacteriophages are abundant in soils. However, the majority are uncharacterized, and their
hosts are unknown. Here, we apply high-throughput chromosome conformation capture (Hi …

[HTML][HTML] Expanding standards in viromics: in silico evaluation of dsDNA viral genome identification, classification, and auxiliary metabolic gene curation

AA Pratama, B Bolduc, AA Zayed, ZP Zhong, J Guo… - PeerJ, 2021 - peerj.com
Background Viruses influence global patterns of microbial diversity and nutrient cycles.
Though viral metagenomics (viromics), specifically targeting dsDNA viruses, has been …