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

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

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.

Publication types

  • Systematic Review

MeSH terms

  • Drug Resistance, Multiple, Bacterial / drug effects*
  • Drug Resistance, Multiple, Bacterial / genetics*
  • Humans
  • Mycobacterium tuberculosis / drug effects*
  • Mycobacterium tuberculosis / genetics*
  • Sweden
  • Tuberculosis / microbiology*
  • Tuberculosis, Multidrug-Resistant / drug therapy
  • Whole Genome Sequencing*