ArticleNucleic acids research2021
mMGE: a database for human metagenomic extrachromosomal mobile genetic elements.
Article in Nucleic acids research, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed, 44 citations in OpenAlex.
- Article
- The Unified Human Virome Database: A toolkit for expanded human virome analysis.bioRxiv : the preprint server for biology · 2026Article
- Impact of phage enrichment on the observed infant gut phageome.Microbiology spectrum · 2026Article
- A distinct class of conjugative megaplasmids includes potential vehicles for prophage dissemination.bioRxiv : the preprint server for biology · 2026Article
- DNA extraction and virome processing methods strongly influence recovered human gut viral community characteristics.bioRxiv : the preprint server for biology · 2025Article
- A genomic atlas of the human gut virome elucidates genetic factors shaping host interactions.bioRxiv : the preprint server for biology · 2025Article
- DeepMobilome: predicting mobile genetic elements using sequencing reads of microbiomes.Briefings in bioinformatics · 2025Article
- The genetic diversity and populational specificity of the human gut virome at single-nucleotide resolution.Microbiome · 2025Article
- Molecular profiling of antibiotic resistance genes in acute and chronic irreversible pulpitis: A cross-sectional study.Journal of conservative dentistry and endodontics · 2025Article
- Landscape of mobile genetic elements and their functional cargo across the gastrointestinal tract microbiomes in ruminants.Microbiome · 2025Article
- Global analysis of the metaplasmidome: ecological drivers and spread of antibiotic resistance genes across ecosystems.Microbiome · 2025Article
- Phage diversity in One Health.Essays in biochemistry · 2024Review
- A single amplified genome catalog reveals the dynamics of mobilome and resistome in the human microbiome.Microbiome · 2024Article
- Long-read sequencing reveals extensive gut phageome structural variations driven by genetic exchange with bacterial hosts.Science advances · 2024Article
- A compendium of ruminant gastrointestinal phage genomes revealed a higher proportion of lytic phages than in any other environments.Microbiome · 2024Article
- Efficient Recovery of Complete Gut Viral Genomes by Combined Short- and Long-Read Sequencing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Dynamics of CRISPR-mediated virus-host interactions in the human gut microbiome.The ISME journal · 2024Article
- Review
- Long-Read Sequencing Reveals Extensive DNA Methylations in Human Gut Phagenome Contributed by Prevalently Phage-Encoded Methyltransferases.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2023Article
- Global transmission of broad-host-range plasmids derived from the human gut microbiome.Nucleic acids research · 2023Article
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Extrachromosomal mobile genetic elements (eMGEs), including phages and plasmids, that can move across different microbes, play important roles in genome evolution and shaping the structure of microbial communities. However, we still know very little about eMGEs, especially their abundances, distributions and putative functions in microbiomes. Thus, a comprehensive description of eMGEs is of great utility. Here we present mMGE, a comprehensive catalog of 517 251 non-redundant eMGEs, including 92 492 plasmids and 424 759 phages, derived from diverse body sites of 66 425 human metagenomic samples. About half the eMGEs could be further grouped into 70 074 clusters using relaxed criteria (referred as to eMGE clusters below). We provide extensive annotations of the identified eMGEs including sequence characteristics, taxonomy affiliation, gene contents and their prokaryotic hosts. We also calculate the prevalence, both within and across samples for each eMGE and eMGE cluster, enabling users to see putative associations of eMGEs with human phenotypes or their distribution preferences. All eMGE records can be browsed or queried in multiple ways, such as eMGE clusters, metagenomic samples and associated hosts. The mMGE is equipped with a user-friendly interface and a BLAST server, facilitating easy access/queries to all its contents easily. mMGE is freely available for academic use at: https://mgedb.comp-sysbio.org.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.