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A new computational method called fARGene which can be used to identify new forms of ARGs

News: Apr 23, 2019

Environmental and commensal bacteria maintain a diverse and largely unknown collection of antibiotic resistance genes (ARGs) that, over time, can be mobilized and transferred to pathogens. In a new publication, the CARe members Fanny Berglund, Joakim Larsson, Erik Kristiansson and co-authors describe a new computational method called fARGene which can be used to identify new forms of ARGs. The method can be applied to both genomes and metagenomes which enables the study of ARGs present in unculturable bacteria. In the study, fARGene is used to identify 58 novel beta-lactamases in metagenomes from bacterial communities from various environments. In addition, the method is also shown to have superior performance compared to other similar computational approaches.

Link to the study:

Berglund F, Österlund T, Boulund F, Marathe N, Larsson DGJ, Kristiansson E, Identification and reconstruction of novel antibiotic resistance genes from metagenomes, Microbiome 7(52) 2019.

The method is freely available at https://github.com/fannyhb/fargene.
 

 

 

 

 

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