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Volume 9, Issue 8

Pangenomic analyses of antibiotic-resistant reveal unique lineage distributions and epidemiological associations Open Access

Abstract

Application of whole-genome sequencing (WGS) to characterize foodborne pathogens has advanced our understanding of circulating genotypes and evolutionary relationships. Herein, we used WGS to investigate the genomic epidemiology of , a leading cause of foodborne disease. Among the 214 strains recovered from patients with gastroenteritis in Michigan, USA, 85 multilocus sequence types (STs) were represented and 135 (63.1 %) were phenotypically resistant to at least one antibiotic. Horizontally acquired antibiotic resistance genes were detected in 128 (59.8 %) strains and the genotypic resistance profiles were mostly consistent with the phenotypes. Core-gene phylogenetic reconstruction identified three sequence clusters that varied in frequency, while a neighbour-net tree detected significant recombination among the genotypes (pairwise homoplasy index <0.01). Epidemiological analyses revealed that travel was a significant contributor to pangenomic and ST diversity of , while some lineages were unique to rural counties and more commonly possessed clinically important resistance determinants. Variation was also observed in the frequency of lineages over the 4 year period with chicken and cattle specialists predominating. Altogether, these findings highlight the importance of geographically specific factors, recombination and horizontal gene transfer in shaping the population structure of . They also illustrate the usefulness of WGS data for predicting antibiotic susceptibilities and surveillance, which are important for guiding treatment and prevention strategies.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): antibiotic resistance , Campylobacter jejuni , epidemiology , genomics and pangenome
Funding
This study was supported by the:
  • Michigan State University (Award AgBioResearch)
    • Principle Award Recipient: ShannonD. Manning
  • Michigan State University (Award College of Osteopathic Medicine)
    • Principle Award Recipient: JoseA. Rodrigues
  • Michigan State University (Award MSU Foundation)
    • Principle Award Recipient: ShannonD. Manning
  • Michigan Department of Health and Human Services (Award Michigan Sequencing and Academic Partnerships for Public Health Innovation and Response (MI-SAPPHIRE) initiative at the MDHHS, which is supported with funds from the CDC through the Epidemiology and Laboratory Capacity for Prevention and Control of Emerging Infectious Diseases Enhancing Detection Expansion program (6NU50CK000510-02-07))
    • Principle Award Recipient: HeatherM. Blankenship
© 2023 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
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2023-08-01
2024-05-05
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Pangenomic analyses of antibiotic-resistant Campylobacter jejuni reveal unique lineage distributions and epidemiological associations
M Gen 9, 001073 (2023); https://doi.org/10.1099/mgen.0.001073
/content/journal/mgen/10.1099/mgen.0.001073
/content/journal/mgen/10.1099/mgen.0.001073
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