Clostridium botulinum Group II Isolate Phylogenomic Profiling Using Whole-Genome Sequence Data.
Appl Environ Microbiol, 2015/9/01;81(17):5938-48.
Weedmark KA[1], Mabon P[1], Hayden KL[1], Lambert D[2], Van Domselaar G[1], Austin JW[2], Corbett CR[3]
Affiliations
PMID: 26116673DOI: 10.1128/AEM.01155-15
Impact factor: 5.005
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.
MeSH terms
Animals; Base Sequence; Bird Diseases; Birds; Botulism; Clostridium botulinum; Environmental Microbiology; Food Microbiology; Genome, Bacterial; Humans; Molecular Sequence Data; Multilocus Sequence Typing; Phylogeny
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