Phage diversity, genomics and phylogeny

MB Dion, F Oechslin, S Moineau - Nature Reviews Microbiology, 2020 - nature.com
Recent advances in viral metagenomics have enabled the rapid discovery of an
unprecedented catalogue of phages in numerous environments, from the human gut to the …

Phage puppet masters of the marine microbial realm

M Breitbart, C Bonnain, K Malki, NA Sawaya - Nature microbiology, 2018 - nature.com
Viruses numerically dominate our oceans; however, we have only just begun to document
the diversity, host range and infection dynamics of marine viruses, as well as the subsequent …

Viral community-wide auxiliary metabolic genes differ by lifestyles, habitats, and hosts

XQ Luo, P Wang, JL Li, M Ahmad, L Duan, LZ Yin… - Microbiome, 2022 - Springer
Background Viral-encoded auxiliary metabolic genes (AMGs) are important toolkits for
modulating their hosts' metabolisms and the microbial-driven biogeochemical cycles …

Biogeographic patterns and drivers of soil viromes

B Ma, Y Wang, K Zhao, E Stirling, X Lv, Y Yu… - Nature Ecology & …, 2024 - nature.com
Viruses are crucial in sha** soil microbial functions and ecosystems. However, studies on
soil viromes have been limited in both spatial scale and biome coverage. Here we present a …

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 …

Deep sea sediments associated with cold seeps are a subsurface reservoir of viral diversity

Z Li, D Pan, G Wei, W Pi, C Zhang, JH Wang… - The ISME …, 2021 - academic.oup.com
In marine ecosystems, viruses exert control on the composition and metabolism of microbial
communities, influencing overall biogeochemical cycling. Deep sea sediments associated …

Phage-specific metabolic reprogramming of virocells

C Howard-Varona, MM Lindback, GE Bastien… - The ISME …, 2020 - academic.oup.com
Ocean viruses are abundant and infect 20–40% of surface microbes. Infected cells, termed
virocells, are thus a predominant microbial state. Yet, virocells and their ecosystem impacts …

Global overview and major challenges of host prediction methods for uncultivated phages

C Coclet, S Roux - Current opinion in virology, 2021 - Elsevier
Highlights•Global phage diversity is now primarily explored through cultivation-independent
metagenomics.•Metagenome-derived phages are typically linked to their host (s) via in silico …

Studying the gut virome in the metagenomic era: challenges and perspectives

S Garmaeva, T Sinha, A Kurilshikov, J Fu, C Wijmenga… - BMC biology, 2019 - Springer
The human gut harbors a complex ecosystem of microorganisms, including bacteria and
viruses. With the rise of next-generation sequencing technologies, we have seen a quantum …