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. 2020 Apr 21;64(5):e02550-19.
doi: 10.1128/AAC.02550-19. Print 2020 Apr 21.

Systematic Review of Whole-Genome Sequencing Data To Predict Phenotypic Drug Resistance and Susceptibility in Swedish Mycobacterium tuberculosis Isolates, 2016 to 2018

Theresa Enkirch  1   2 , Jim Werngren  3 , Ramona Groenheit  1 , Erik Alm  1   4 , Reza Advani  1 , Maria Lind Karlberg  1 , Mikael Mansjö  1
Affiliations

Systematic Review of Whole-Genome Sequencing Data To Predict Phenotypic Drug Resistance and Susceptibility in Swedish Mycobacterium tuberculosis Isolates, 2016 to 2018

Theresa Enkirch et al. Antimicrob Agents Chemother. .

Abstract

In this retrospective study, whole-genome sequencing (WGS) data generated on an Ion Torrent platform was used to predict phenotypic drug resistance profiles for first- and second-line drugs among Swedish clinical Mycobacterium tuberculosis isolates from 2016 to 2018. The accuracy was ∼99% for all first-line drugs and 100% for four second-line drugs. Our analysis supports the introduction of WGS into routine diagnostics, which might, at least in Sweden, replace phenotypic drug susceptibility testing in the future.

Keywords: drug resistance prediction; high-throughput nucleotide sequencing; microbial drug resistance; microbial sensitivity tests; tuberculosis; whole-genome sequencing.

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