Giant virus biology and diversity in the era of genome-resolved metagenomics

F Schulz, C Abergel, T Woyke - Nature Reviews Microbiology, 2022 - nature.com
The discovery of giant viruses, with capsids as large as some bacteria, megabase-range
genomes and a variety of traits typically found only in cellular organisms, was one of the …

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] Expansion of the global RNA virome reveals diverse clades of bacteriophages

U Neri, YI Wolf, S Roux, AP Camargo, B Lee… - Cell, 2022 - cell.com
High-throughput RNA sequencing offers broad opportunities to explore the Earth RNA
virome. Mining 5,150 diverse metatranscriptomes uncovered> 2.5 million RNA virus contigs …

Mirusviruses link herpesviruses to giant viruses

M Gaïa, L Meng, E Pelletier, P Forterre, C Vanni… - Nature, 2023 - nature.com
DNA viruses have a major influence on the ecology and evolution of cellular organisms,,–,
but their overall diversity and evolutionary trajectories remain elusive. Here we carried out a …

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 …

The gut ileal mucosal virome is disturbed in patients with Crohn's disease and exacerbates intestinal inflammation in mice

Z Cao, D Fan, Y Sun, Z Huang, Y Li, R Su… - Nature …, 2024 - nature.com
Gut bacteriome dysbiosis is known to be implicated in the pathogenesis of inflammatory
bowel disease (IBD). Crohn's disease (CD) is an IBD subtype with extensive mucosal …

Microbial evolution through horizontal gene transfer by mobile genetic elements

M Tokuda, M Shintani - Microbial Biotechnology, 2024 - Wiley Online Library
Mobile genetic elements (MGEs) are crucial for horizontal gene transfer (HGT) in bacteria
and facilitate their rapid evolution and adaptation. MGEs include plasmids, integrative and …

ViPTree: the viral proteomic tree server

Y Nishimura, T Yoshida, M Kuronishi, H Uehara… - …, 2017 - academic.oup.com
ViPTree is a web server provided through GenomeNet to generate viral proteomic trees for
classification of viruses based on genome-wide similarities. Users can upload viral genomes …

Revisiting the rules of life for viruses of microorganisms

AMS Correa, C Howard-Varona, SR Coy… - Nature Reviews …, 2021 - nature.com
Viruses that infect microbial hosts have traditionally been studied in laboratory settings with
a focus on either obligate lysis or persistent lysogeny. In the environment, these infection …

A multi-kingdom collection of 33,804 reference genomes for the human vaginal microbiome

L Huang, R Guo, S Li, X Wu, Y Zhang, S Guo, Y Lv… - Nature …, 2024 - nature.com
The human vagina harbours diverse microorganisms—bacteria, viruses and fungi—with
profound implications for women's health. Genome-level analysis of the vaginal microbiome …