MEGARes 2.0: a database for classification of antimicrobial drug, biocide and metal resistance determinants in metagenomic sequence data
| Autor: | Christina Boucher, Noelle R. Noyes, Enrique Doster, Steven M. Lakin, Cory Wolfe, Paul S. Morley, Jared G Young, Christopher J Dean, Keith E. Belk |
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| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
Biocide
Databases Pharmaceutical Drug resistance Biology computer.software_genre Genome 03 medical and health sciences Annotation Antibiotic resistance Data sequences Anti-Infective Agents Databases Genetic Genetics Database Issue 030304 developmental biology 0303 health sciences Database Bacteria 030306 microbiology Drug Resistance Microbial Resistome Metagenomics Genes Bacterial Metals Metagenome computer Software Disinfectants |
| Zdroj: | Nucleic Acids Research |
| ISSN: | 1362-4962 0305-1048 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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