Global phylogeny of Shigella sonnei strains from limited single nucleotide polymorphisms (SNPs) and development of a rapid and cost-effective SNP-typing scheme for strain identification by high-resolution melting analysis

Vartul Sangal (1) , Kathryn E. Holt (2) , Jianfeng Yuan (1) , Derek J Brown , Ingrid Filliol-Toutain (3) , François-Xavier Weill (3) , Dong-Wook Kim (4) , Wanderley Dias da Silveira (5) , Derek Pickard (6) , Julian Parkhill (6) , Jun Yu (1)

1 University of Strathclyde [Glasgow]
2 University of Melbourne
3 CNR-ESS - Centre National de Référence - National Reference Center Escherichia coli, Shigella et Salmonella
4 Hanyang University
5 UNICAMP - Universidade Estadual de Campinas = University of Campinas
6 The Wellcome Trust Sanger Institute [Cambridge]

The current Shigella sonnei pandemic involves geographically associated, multidrug-resistant clones. This study has demonstrated that S. sonnei phylogeny can be accurately defined with limited single nucleotide polymorphisms (SNPs). By typing 6 informative SNPs using a high-resolution melting (HRM) assay, major S. sonnei lineages/sublineages can be identified as defined by whole-genome variation.

Domains: Life Sciences [q-bio]; Santé publique et épidémiologie

Vartul Sangal, Kathryn E. Holt, Jianfeng Yuan, Derek J Brown, Ingrid Filliol-Toutain, et al.. Global phylogeny of Shigella sonnei strains from limited single nucleotide polymorphisms (SNPs) and development of a rapid and cost-effective SNP-typing scheme for strain identification by high-resolution melting analysis. Journal of Clinical Microbiology, 2013, 51 (1), pp.303-305. ⟨10.1128/JCM.02238-12⟩. ⟨pasteur-01115898⟩