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Volume 6, Issue 1

Genomic analysis of carbapenemase-producing in Queensland reveals widespread transmission of on an IncHI2 plasmid Open Access

Abstract

Carbapenemase-producing (CPE) are an increasingly common cause of healthcare-associated infections and may occasionally be identified in patients without extensive healthcare exposure. is the most frequently detected carbapenemase gene in within Australia, but little is known about the mechanisms behind its persistence. Here we used whole genome sequencing (WGS) to investigate the molecular epidemiology of in Queensland, Australia. In total, 107 CPE were collected between 2014 and 2017 and sent for WGS on an Illumina NextSeq500. Resistance genes and plasmid types were detected using a combination of read mapping and nucleotide comparison of assemblies. Six isolates were additionally sequenced using Oxford Nanopore MinION to generate long-reads and fully characterize the context of the gene. Of 107 CPE, 93 carried the gene; 74/107 also carried an IncHI2 plasmid, suggesting carriage of the gene on an IncHI2 plasmid. Comparison of these isolates to a previously characterized IncHI2 plasmid pMS7884A (isolated from an strain in Brisbane) suggested that all isolates carried a similar plasmid. Five of six representative isolates sequenced using Nanopore long-read technology carried IncHI2 plasmids harbouring the gene. While the vast majority of isolates represented , several other species were also found to carry the IncHI2 plasmid, including species, and species. Several clonal groups of were also identified, suggesting that persistence of is driven by both presence on a common plasmid and clonal spread of certain lineages.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): CPE , genomics , IMP-4 , IncHI2 , nanopore , Queensland and whole genome sequencing
Funding
This study was supported by the:
  • National Health and Medical Research Council (Award GNT1090456)
    • Principle Award Recipient: Scott A. Beatson
  • Australian Government Research Training Program
    • Principle Award Recipient: Leah W. Roberts
  • National Health and Medical Research Council (Award GNT1157530)
    • Principle Award Recipient: Patrick N A Harris
  • Pathology Queensland, SERC (Award 5525)
    • Principle Award Recipient: Patrick N A Harris
© 2020 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License.
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2019-12-20
2024-04-19
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Genomic analysis of carbapenemase-producing Enterobacteriaceae in Queensland reveals widespread transmission of blaIMP-4 on an IncHI2 plasmid
M Gen 6, e000321 (2020); https://doi.org/10.1099/mgen.0.000321
/content/journal/mgen/10.1099/mgen.0.000321
/content/journal/mgen/10.1099/mgen.0.000321
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