Dataset Information

A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis.

ABSTRACT: Among enterococci, Enterococcus faecalis occurs ubiquitously, with the highest incidence of human and animal infections. The high genetic plasticity of E. faecalis complicates both molecular investigations and phylogenetic analyses. Whole-genome sequencing (WGS) enables unraveling of epidemiological linkages and putative transmission events between humans, animals, and food. Core genome multilocus sequence typing (cgMLST) aims to combine the discriminatory power of classical multilocus sequence typing (MLST) with the extensive genetic data obtained by WGS. By sequencing a representative collection of 146 E. faecalis strains isolated from hospital outbreaks, food, animals, and colonization of healthy human individuals, we established a novel cgMLST scheme with 1,972 gene targets within the Ridom SeqSphere+ software. To test the E. faecalis cgMLST scheme and assess the typing performance, different collections comprising environmental and bacteremia isolates, as well as all publicly available genome sequences from the NCBI and SRA databases, were analyzed. In more than 98.6% of the tested genomes, >95% good cgMLST target genes were detected (mean, 99.2% target genes). Our genotyping results not only corroborate the known epidemiological background of the isolates but exceed previous typing resolution. In conclusion, we have created a powerful typing scheme, hence providing an international standardized nomenclature that is suitable for surveillance approaches in various sectors, linking public health, veterinary public health, and food safety in a true One Health fashion.

SUBMITTER: Neumann B

PROVIDER: S-EPMC6425188 | biostudies-literature | 2019 Mar

REPOSITORIES: biostudies-literature

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Publications

A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis.

Neumann Bernd B Prior Karola K Bender Jennifer K JK Harmsen Dag D Klare Ingo I Fuchs Stephan S Bethe Astrid A Zühlke Daniela D Göhler André A Schwarz Stefan S Schaffer Kirsten K Riedel Katharina K Wieler Lothar H LH Werner Guido G

Journal of clinical microbiology 20190227 3

Among enterococci, <i>Enterococcus faecalis</i> occurs ubiquitously, with the highest incidence of human and animal infections. The high genetic plasticity of <i>E. faecalis</i> complicates both molecular investigations and phylogenetic analyses. Whole-genome sequencing (WGS) enables unraveling of epidemiological linkages and putative transmission events between humans, animals, and food. Core genome multilocus sequence typing (cgMLST) aims to combine the discriminatory power of classical multil ...[more]

PMID: 30651394

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Dataset Information

A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis.

Publications

A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis.

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