Using metagenomics to investigate human and environmental resistomes
Artikel i vetenskaplig tidskrift, 2017

Antibiotic resistance is a global health concern declared by the WHO as one of the largest threats to modern healthcare. In recent years, metagenomic DNA sequencing has started to be applied as a tool to study antibiotic resistance in different environments, including the human microbiota. However, a multitude of methods exist for metagenomic data analysis, and not all methods are suitable for the investigation of resistance genes, particularly if the desired outcome is an assessment of risks to human health. In this review, we outline the current state of methods for sequence handling, mapping to databases of resistance genes, statistical analysis and metagenomic assembly. In addition, we provide an overview of important considerations related to the analysis of resistance genes, and recommend some of the currently used tools and methods that are best equipped to inform research and clinical practice related to antibiotic resistance.

Författare

Johan Bengtsson-Palme

D. G. Joakim Larsson

Erik Kristiansson

Göteborgs universitet

Chalmers, Matematiska vetenskaper, Tillämpad matematik och statistik

Journal of Antimicrobial Chemotherapy

0305-7453 (ISSN) 1460-2091 (eISSN)

Vol. 72 2690-2703

Ämneskategorier

Mikrobiologi

Styrkeområden

Livsvetenskaper och teknik

DOI

10.1093/jac/dkx199

PubMed

28673041