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Volume 10, Issue 3

A core genome multi-locus sequence typing scheme for : an evolution in typing a genetically diverse pathogen Open Access

Abstract

is a globally endemic and poorly controlled cause of bovine mastitis impacting the sustainability of the modern dairy industry. A core genome was derived from 579 newly sequenced isolates, along with 305 publicly available genome sequences of isolated from 11 countries around the world and used to develop a core genome multi-locus sequence typing (cgMLST) scheme. The core genome comprised 1475 genes, and these were used to identify 1447 curated loci that were indexed into the cgMLST scheme. This was able to type 1012 of 1037 (>97  %) isolates used and differentiated the associated sequences into 932 discrete core genome sequence types (cgSTs). Analysis of the phylogenetic relationships of cgSTs revealed no clear clustering of isolates based on metadata such as disease status or year of isolation. Geographical clustering of cgSTs was limited to identification of a UK-centric clade, but cgSTs from UK isolates were also dispersed with those originating from other geographical regions across the entire phylogenetic topology. The cgMLST scheme offers a new tool for the detailed analysis of this globally important pathogen of dairy cattle. Initial analysis has re-emphasized and exemplified the genetically diverse nature of the global population of this opportunistic pathogen.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): core genome , multi-locus sequence typing , phylogeny , sequencing and Streptococcus uberis
Funding
This study was supported by the:
  • Dechra Pharmaceuticals
    • Principle Award Recipient: JamesLeigh
  • Biotechnology and Biological Sciences Research Council (Award BB/T001933/1)
    • Principle Award Recipient: JamesLeigh
© 2024 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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2024-03-21
2024-04-27
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A core genome multi-locus sequence typing scheme for Streptococcus uberis: an evolution in typing a genetically diverse pathogen
M Gen 10, 001225 (2024); https://doi.org/10.1099/mgen.0.001225
/content/journal/mgen/10.1099/mgen.0.001225
/content/journal/mgen/10.1099/mgen.0.001225
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