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Appl Environ Microbiol. 2015 Sep 1;81(17):5938-48. doi: 10.1128/AEM.01155-15. Epub 2015 Jun 26.

Clostridium botulinum Group II Isolate Phylogenomic Profiling Using Whole-Genome Sequence Data.

Author information

1
National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada.
2
Bureau of Microbial Hazards, Health Products and Food Branch, Health Canada, Ottawa, Ontario, Canada.
3
National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada cindi.corbett@phac-aspc.gc.ca.

Abstract

Clostridium botulinum group II isolates (n = 163) from different geographic regions, outbreaks, and neurotoxin types and subtypes were characterized in silico using whole-genome sequence data. Two clusters representing a variety of botulinum neurotoxin (BoNT) types and subtypes were identified by multilocus sequence typing (MLST) and core single nucleotide polymorphism (SNP) analysis. While one cluster included BoNT/B4/F6/E9 and nontoxigenic members, the other comprised a wide variety of different BoNT/E subtype isolates and a nontoxigenic strain. In silico MLST and core SNP methods were consistent in terms of clade-level isolate classification; however, core SNP analysis showed higher resolution capability. Furthermore, core SNP analysis correctly distinguished isolates by outbreak and location. This study illustrated the utility of next-generation sequence-based typing approaches for isolate characterization and source attribution and identified discrete SNP loci and MLST alleles for isolate comparison.

PMID:
26116673
PMCID:
PMC4551264
DOI:
10.1128/AEM.01155-15
[Indexed for MEDLINE]
Free PMC Article

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