ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads

Hunt, Martin, Mather, Alison E, Sánchez-busó, Leonor, Page, Andrew J, Parkhill, Julian, Keane, Jacqueline A and Harris, Simon R (2017) ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads. Microbial Genomics, 3 (10). ISSN 2057-5858

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Abstract

Antimicrobial resistance (AMR) is one of the major threats to human and animal health worldwide, yet few high-throughput tools exist to analyse and predict the resistance of a bacterial isolate from sequencing data. Here we present a new tool, ARIBA, that identifies AMR-associated genes and single nucleotide polymorphisms directly from short reads, and generates detailed and customizable output. The accuracy and advantages of ARIBA over other tools are demonstrated on three datasets from Gram-positive and Gram-negative bacteria, with ARIBA outperforming existing methods.

Item Type: Article
Depositing User: LivePure Connector
Date Deposited: 03 Jun 2019 08:30
Last Modified: 13 May 2020 23:58
URI: https://ueaeprints.uea.ac.uk/id/eprint/71227
DOI: 10.1099/mgen.0.000131

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