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 ecology and evolution of pangenomes

MA Brockhurst, E Harrison, JPJ Hall, T Richards… - Current Biology, 2019 - cell.com
Since the first genome-scale comparisons, it has been evident that the genomes of many
species are unbound by strict vertical descent: Large differences in gene content can occur …

IMG/VR v3: an integrated ecological and evolutionary framework for interrogating genomes of uncultivated viruses

S Roux, D Páez-Espino, IMA Chen… - Nucleic acids …, 2021 - academic.oup.com
Viruses are integral components of all ecosystems and microbiomes on Earth. Through
pervasive infections of their cellular hosts, viruses can reshape microbial community …

Short-and long-read metagenomics expand individualized structural variations in gut microbiomes

L Chen, N Zhao, J Cao, X Liu, J Xu, Y Ma, Y Yu… - Nature …, 2022 - nature.com
In-depth profiling of genetic variations in the gut microbiome is highly desired for
understanding its functionality and impacts on host health and disease. Here, by harnessing …

PhageScope: a well-annotated bacteriophage database with automatic analyses and visualizations

RH Wang, S Yang, Z Liu, Y Zhang, X Wang… - Nucleic acids …, 2024 - academic.oup.com
Bacteriophages are viruses that infect bacteria or archaea. Understanding the diverse and
intricate genomic architectures of phages is essential to study microbial ecosystems and …

Cartography of opportunistic pathogens and antibiotic resistance genes in a tertiary hospital environment

KR Chng, C Li, D Bertrand, AHQ Ng, JS Kwah… - Nature medicine, 2020 - nature.com
Although disinfection is key to infection control, the colonization patterns and resistomes of
hospital-environment microbes remain underexplored. We report the first extensive genomic …

Virome diversity correlates with intestinal microbiome diversity in adult monozygotic twins

JL Moreno-Gallego, SP Chou, SC Di Rienzi… - Cell host & …, 2019 - cell.com
The virome is one of the most variable components of the human gut microbiome. Within
twin pairs, viromes have been shown to be similar for infants, but not for adults, indicating …

GMrepo: a database of curated and consistently annotated human gut metagenomes

S Wu, C Sun, Y Li, T Wang, L Jia, S Lai… - Nucleic acids …, 2020 - academic.oup.com
GMrepo (data repo sitory for G ut M icrobiota) is a database of curated and consistently
annotated human gut metagenomes. Its main purpose is to facilitate the reusability and …

The multi-kingdom microbiome of the goat gastrointestinal tract

Y Cao, T Feng, Y Wu, Y Xu, L Du, T Wang, Y Luo… - Microbiome, 2023 - Springer
Background Goat is an important livestock worldwide, which plays an indispensable role in
human life by providing meat, milk, fiber, and pelts. Despite recent significant advances in …

microbioTA: an atlas of the microbiome in multiple disease tissues of Homo sapiens and Mus musculus

P Wang, S Zhang, G He, M Du, C Qi, R Liu… - Nucleic acids …, 2023 - academic.oup.com
Abstract microbioTA (http://bio-annotation. cn/microbiota) was constructed to provide a
comprehensive, user-friendly resource for the application of microbiome data from diseased …