{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Yassine I"],"funding":["Azm and Saade Association","Institut Pasteur","Fulbright Association","Wellcome Trust"],"pagination":["551"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC8795385"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["13(1)"],"pubmed_abstract":["The laboratory surveillance of bacillary dysentery is based on a standardised Shigella typing scheme that classifies Shigella strains into four serogroups and more than 50 serotypes on the basis of biochemical tests and lipopolysaccharide O-antigen serotyping. Real-time genomic surveillance of Shigella infections has been implemented in several countries, but without the use of a standardised typing scheme. Here, we study over 4000 reference strains and clinical isolates of Shigella, covering all serotypes, with both the current serotyping scheme and the standardised EnteroBase core-genome multilocus sequence typing scheme (cgMLST). The Shigella genomes are grouped into eight phylogenetically distinct clusters, within the E. coli species. The cgMLST hierarchical clustering (HC) analysis at"],"journal":["Nature communications"],"pubmed_title":["Population structure analysis and laboratory monitoring of Shigella by core-genome multilocus sequence typing."],"pmcid":["PMC8795385"],"funding_grant_id":["206194"],"pubmed_authors":["Yassine I","Hansen EE","Ruckly C","Clermont D","de la Gandara MP","Lejay-Collin M","Fabre L","Dabboussi F","Lefevre S","Carle I","Rafei R","Weill FX","Thomson NR"],"additional_accession":[]},"is_claimable":false,"name":"Population structure analysis and laboratory monitoring of Shigella by core-genome multilocus sequence typing.","description":"The laboratory surveillance of bacillary dysentery is based on a standardised Shigella typing scheme that classifies Shigella strains into four serogroups and more than 50 serotypes on the basis of biochemical tests and lipopolysaccharide O-antigen serotyping. Real-time genomic surveillance of Shigella infections has been implemented in several countries, but without the use of a standardised typing scheme. Here, we study over 4000 reference strains and clinical isolates of Shigella, covering all serotypes, with both the current serotyping scheme and the standardised EnteroBase core-genome multilocus sequence typing scheme (cgMLST). The Shigella genomes are grouped into eight phylogenetically distinct clusters, within the E. coli species. The cgMLST hierarchical clustering (HC) analysis at","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Jan","modification":"2025-04-19T00:51:54.488Z","creation":"2025-04-07T11:48:25.359Z"},"accession":"S-EPMC8795385","cross_references":{"pubmed":["35087053"],"doi":["10.1038/s41467-022-28121-1"]}}