Affiliation:
1. Department of Analytical Microbiology, Centre d'Etudes du Bouchet, BP3, F-91710 Vert-le-Petit, France
2. Université Paris-Sud, Institut de Génétique et Microbiologie, and CNRS, Orsay, F-91405, France
Abstract
ABSTRACT
The
Shigella
genus has historically been separated into four species, based on biochemical assays. The classification within each species relies on serotyping. Recently, genome sequencing and DNA assays, in particular the multilocus sequence typing (MLST) approach, greatly improved the current knowledge of the origin and phylogenetic evolution of
Shigella
spp. The
Shigella
and
Escherichia
genera are now considered to belong to a unique genomospecies. Multilocus variable-number tandem-repeat (VNTR) analysis (MLVA) provides valuable polymorphic markers for genotyping and performing phylogenetic analyses of highly homogeneous bacterial pathogens. Here, we assess the capability of MLVA for
Shigella
typing. Thirty-two potentially polymorphic VNTRs were selected by analyzing in silico five
Shigella
genomic sequences and subsequently evaluated. Eventually, a panel of 15 VNTRs was selected (i.e., MLVA15 analysis). MLVA15 analysis of 78 strains or genome sequences of
Shigella
spp. and 11 strains or genome sequences of
Escherichia coli
distinguished 83 genotypes.
Shigella
population cluster analysis gave consistent results compared to MLST. MLVA15 analysis showed capabilities for
E. coli
typing, providing classification among pathogenic and nonpathogenic
E. coli
strains included in the study. The resulting data can be queried on our genotyping webpage (
http://mlva.u-psud.fr
). The MLVA15 assay is rapid, highly discriminatory, and reproducible for
Shigella
and
Escherichia
strains, suggesting that it could significantly contribute to epidemiological trace-back analysis of
Shigella
infections and pathogenic
Escherichia
outbreaks. Typing was performed on strains obtained mostly from collections. Further studies should include strains of much more diverse origins, including all pathogenic
E. coli
types.
Publisher
American Society for Microbiology
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