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Volume 6, Issue 6

Whole-genome sequence analysis of environmental from the faeces of straw-necked ibis () nesting on inland wetlands Open Access

Abstract

Wildlife, and birds in particular, play an increasingly recognized role in the evolution and transmission of that pose a threat to humans. To characterize these lineages and their potential threat from an evolutionary perspective, we isolated and performed whole-genome sequencing on 11 sequence types (STs) of recovered from the desiccated faeces of straw-necked ibis () nesting on inland wetlands located in geographically different regions of New South Wales, Australia. Carriage of virulence-associated genes was limited, and no antimicrobial resistance genes were detected, but novel variants of an insertion element that plays an important role in capturing and mobilizing antibiotic resistance genes, IS, were identified and characterized. The isolates belonged to phylogroups B1 and D, including types known to cause disease in humans and animals. Specifically, we found ST58, ST69, ST162, ST212, ST446, ST906, ST2520, ST6096 and ST6241, and a novel phylogroup D strain, ST10208. Notably, the ST58 strain hosted significant virulence gene carriage. The sequences of two plasmids hosting putative virulence-associated factors with incompatibility groups I1 and Y, an extrachromosomal integrative/conjugative element, and a variant of a large phage of the family , were additionally characterized. We identified multiple epidemiologically relevant gene signatures that link the ibis isolates to sequences from international sources, plus novel variants of IS across different sequence types and in different contexts.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): Escherichia coli , ibis , wetlands and whole-genome sequencing
Funding
This study was supported by the:
  • Centre for Ecosystem Science, University of New South Wales
    • Principle Award Recipient: Kate J. Brandis
  • Australian Centre for Genomic Epidemiological Microbiology (AusGEM)
    • Principle Award Recipient: Steven P Djordjevic
  • Australian Research Council (Award LP150100912)
    • Principle Award Recipient: Steven P Djordjevic
© 2020 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License.
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2020-06-10
2024-04-26
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Whole-genome sequence analysis of environmental Escherichia coli from the faeces of straw-necked ibis (Threskiornis spinicollis) nesting on inland wetlands
M Gen 6, e000385 (2020); https://doi.org/10.1099/mgen.0.000385
/content/journal/mgen/10.1099/mgen.0.000385
/content/journal/mgen/10.1099/mgen.0.000385
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