ArticleNucleic acids research2020
MEGARes 2.0: a database for classification of antimicrobial drug, biocide and metal resistance determinants in metagenomic sequence data.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 255 papers.
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Who cites it
255 citing papers in PubMed.
- Prolonged mass azithromycin distributions and macrolide resistance determinants among preschool children in Niger: A sub-study of a cluster-randomized trial (MORDOR).PLoS medicine · 2024Trial
- Artificial intelligence catalyzes antimicrobial peptide design.Synthetic and systems biotechnology · 2027Review
- Fish gut-water interface as a hotspot for the dissemination of antibiotic resistance genes across natural and aquaculture systems.Current research in microbial sciences · 2026Article
- DNA augmentations for semi-supervised learning in genomic sequence classification.NAR genomics and bioinformatics · 2026Article
- K-MARVEL: K-Mer-based antimicrobial resistance virtual exploration lab.Nature communications · 2026Article
- Nasopharyngeal microbiome and resistome profiles in dairy calves fed milk replacer with low-level β-lactams.JDS communications · 2026Article
- Comprehensive Evaluation of Safety and Probiotic Potential of Lactiplantibacillus plantarum HY7715 Isolated from Korean kimchi.Probiotics and antimicrobial proteins · 2026Article
- Longitudinal investigation of the resistomes in Swedish pig farms.npj antimicrobials and resistance · 2026Article
- Gut Microbiomes of Rainbow Trout and Atlantic Salmon: Nutritional Modulation, Mucosal Immunity, and Resistome Risk.Biology · 2026Review
- Integrated functional genomics and safety assessment of plant-growth-promoting Caryophanales from post-maize-cultivation soils.BMC genomics · 2026Article
- EcoliTyper: a species-optimized computational pipeline for comprehensive genotyping and surveillance of Escherichia coli.BMC bioinformatics · 2026Article
- Early-life development of the microbiome and resistome in antibiotic-naïve dairy calves.Microbiology spectrum · 2026Article
- Exploring clonality ofMicrobiology spectrum · 2026Article
- Identification of biofilm-associated genes inBiofilm · 2026Article
- Genomic insights into the resistome, mobilome and functional adaptation ofMicrobial genomics · 2026Article
- Exploring the Probiotic and Antimicrobial Potential of Pediococcus Pentosaceus Isolates from Fish: Genomic and Functional Perspectives.Probiotics and antimicrobial proteins · 2026Article
- One Health Genomic Perspective on Pseudescherichia vulneris: A Neglected Reservoir of Last-Resort Resistance Genes.Current microbiology · 2026Article
- Breaking the culture habit: Complementing culture-based veterinary diagnostics with metagenomic data -A case study of feline and canine skin infections.BMC veterinary research · 2026Article
- Genome-Resolved in Silico Analysis of Poultry and Swine Lactobacillales Provides a Data-Driven Framework for Elucidating Metabolic Complementary interactions in Multi-Strain Probiotics.Probiotics and antimicrobial proteins · 2026Article
- Genetic analysis ofiScience · 2026Article
195 more citing papers are in PubMed but not listed here.
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9 authors.
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Abstract
Antimicrobial resistance (AMR) is a threat to global public health and the identification of genetic determinants of AMR is a critical component to epidemiological investigations. High-throughput sequencing (HTS) provides opportunities for investigation of AMR across all microbial genomes in a sample (i.e. the metagenome). Previously, we presented MEGARes, a hand-curated AMR database and annotation structure developed to facilitate the analysis of AMR within metagenomic samples (i.e. the resistome). Along with MEGARes, we released AmrPlusPlus, a bioinformatics pipeline that interfaces with MEGARes to identify and quantify AMR gene accessions contained within a metagenomic sequence dataset. Here, we present MEGARes 2.0 (https://megares.meglab.org), which incorporates previously published resistance sequences for antimicrobial drugs, while also expanding to include published sequences for metal and biocide resistance determinants. In MEGARes 2.0, the nodes of the acyclic hierarchical ontology include four antimicrobial compound types, 57 classes, 220 mechanisms of resistance, and 1,345 gene groups that classify the 7,868 accessions. In addition, we present an updated version of AmrPlusPlus (AMR ++ version 2.0), which improves accuracy of classifications, as well as expanding scalability and usability.
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