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Volume 8, Issue 10

Epidemiological links and antimicrobial resistance of clinical ST198 isolates: a nationwide microbial population genomic study in Switzerland Open Access

Abstract

is a leading cause of foodborne outbreaks and systemic infections worldwide. Emerging multi-drug resistant lineages such as a ciprofloxacin-resistant subclade (CIP) within serovar Kentucky ST198 threaten the effective prevention and treatment of infections. To understand the genomic diversity and antimicrobial resistance gene content associated with S. Kentucky in Switzerland, we whole-genome sequenced 70 human clinical isolates obtained between 2010 and 2020. Most isolates belonged to ST198-CIP. High- and low-level ciprofloxacin resistance among CIP isolates was associated with variable mutations in and in combination with stable mutations in quinolone-resistance determining regions (QRDRs). Analysis of isolates from patients with prolonged ST198 colonization indicated subclonal adaptions with the locus as a mutational hotspot. SNP analyses identified multiple clusters of near-identical isolates, which were often associated with travel but included spatiotemporally linked isolates from Switzerland. The largest SNP cluster was associated with travellers returning from Indonesia, and investigation of global data linked >60 additional ST198 salmonellosis isolates to this cluster. Our results emphasize the urgent need for implementing whole-genome sequencing as a routine tool for surveillance and outbreak detection.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): ciprofloxacin resistance , genomics , population structure , prolonged Salmonella carriage , ramR and Salmonella enterica Kentucky ST198
Funding
This study was supported by the:
  • Bundesamt für Gesundheit
    • Principle Award Recipient: RogerStephan
© 2022 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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Epidemiological links and antimicrobial resistance of clinical Salmonella enterica ST198 isolates: a nationwide microbial population genomic study in Switzerland
M Gen 8, 000877 (2022); https://doi.org/10.1099/mgen.0.000877
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