{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,11]],"date-time":"2026-05-11T10:24:18Z","timestamp":1778495058236,"version":"3.51.4"},"reference-count":45,"publisher":"Public Library of Science (PLoS)","issue":"7","license":[{"start":{"date-parts":[[2022,7,6]],"date-time":"2022-07-06T00:00:00Z","timestamp":1657065600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"abstract":"<jats:p><jats:italic>Burkholderia mallei<\/jats:italic> is the etiological agent of glanders, a highly contagious and often fatal disease in equids. Due to the high genetic clonality of <jats:italic>B<\/jats:italic>. <jats:italic>mallei<\/jats:italic>, high-resolution typing assays are necessary to differentiate between individual strains. Here we report on the development and validation of a robust and reproducible core genome-based Multi Locus Sequence Typing Assay (cgMLST) for <jats:italic>B<\/jats:italic>. <jats:italic>mallei<\/jats:italic>, which is based on 3328 gene targets and enables high-resolution typing at the strain level. The assay was validated using a set of 120 <jats:italic>B<\/jats:italic>. <jats:italic>mallei<\/jats:italic> genomes from public databases and 23 newly sequenced outbreak strains from in-house strain collections. In this cgMLST analysis, strains from different geographic regions were clearly distinguished by at least 70 allele differences, allowing spatial clustering while closely related and epidemiologically related strains were separated by only zero to three alleles. Neither the different sequencing technologies nor the assembly strategies had an influence on the cgMLST results. The developed cgMLST is highly robust, reproducible and can be used for outbreak investigations, source tracking and molecular characterization of new <jats:italic>B<\/jats:italic>. <jats:italic>mallei<\/jats:italic> isolates.<\/jats:p>","DOI":"10.1371\/journal.pone.0270499","type":"journal-article","created":{"date-parts":[[2022,7,6]],"date-time":"2022-07-06T17:31:39Z","timestamp":1657128699000},"page":"e0270499","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":18,"title":["Genetic diversity and spatial distribution of Burkholderia mallei by core genome-based multilocus sequence typing analysis"],"prefix":"10.1371","volume":"17","author":[{"given":"Sandra","family":"Appelt","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anna-Maria","family":"Rohleder","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Daniela","family":"Jacob","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Heiner","family":"von 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arm\u00e9es"},{"key":"pone.0270499.ref010","doi-asserted-by":"crossref","first-page":"102","DOI":"10.1093\/gbe\/evq003","article-title":"Continuing evolution of Burkholderia mallei through genome reduction and large-scale rearrangements","volume":"2","author":"L Losada","year":"2010","journal-title":"Genome Biol Evol"},{"issue":"1","key":"pone.0270499.ref011","doi-asserted-by":"crossref","first-page":"965","DOI":"10.1186\/s12864-018-5245-1","article-title":"Genome rearrangements and selection in multi-chromosome bacteria Burkholderia spp","volume":"19","author":"OO Bochkareva","year":"2018","journal-title":"BMC Genomics"},{"issue":"5","key":"pone.0270499.ref012","doi-asserted-by":"crossref","first-page":"1129","DOI":"10.1111\/j.1365-2958.2005.04622.x","article-title":"Divided genomes: negotiating the cell cycle in prokaryotes with multiple chromosomes","volume":"56","author":"ES Egan","year":"2005","journal-title":"Mol Microbiol"},{"issue":"5","key":"pone.0270499.ref013","doi-asserted-by":"crossref","first-page":"2068","DOI":"10.1128\/JCM.41.5.2068-2079.2003","article-title":"Multilocus sequence typing and evolutionary relationships among the causative agents of melioidosis and glanders, Burkholderia pseudomallei and Burkholderia mallei","volume":"41","author":"D Godoy","year":"2003","journal-title":"J Clin Microbiol"},{"issue":"9","key":"pone.0270499.ref014","doi-asserted-by":"crossref","first-page":"e3195","DOI":"10.1371\/journal.pntd.0003195","article-title":"Genotyping of Burkholderia mallei from an outbreak of glanders in Bahrain suggests multiple introduction events","volume":"8","author":"HC Scholz","year":"2014","journal-title":"PLoS Negl Trop Dis"},{"key":"pone.0270499.ref015","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.meegid.2018.05.004","article-title":"High-resolution melting PCR analysis for rapid genotyping of Burkholderia mallei","volume":"63","author":"G Girault","year":"2018","journal-title":"Infect Genet Evol"},{"key":"pone.0270499.ref016","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1186\/1471-2180-7-23","article-title":"Tandem repeat regions within the Burkholderia pseudomallei genome and their application for high resolution genotyping","volume":"7","author":"JM U\u2019Ren","year":"2007","journal-title":"BMC Microbiol"},{"issue":"12","key":"pone.0270499.ref017","doi-asserted-by":"crossref","first-page":"2036","DOI":"10.3201\/eid1512.090738","article-title":"Molecular epidemiology of glanders, Pakistan","volume":"15","author":"H Hornstra","year":"2009","journal-title":"Emerg Infect Dis"},{"issue":"2","key":"pone.0270499.ref018","doi-asserted-by":"crossref","first-page":"169","DOI":"10.3201\/eid1502.081036","article-title":"Identification of melioidosis outbreak by multilocus variable number tandem repeat analysis","volume":"15","author":"BJ Currie","year":"2009","journal-title":"Emerg Infect 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Pearson","year":"1900","journal-title":"The London, Edinburgh, and Dublin Philosophical Magazine and Journal of Science"},{"issue":"5","key":"pone.0270499.ref033","first-page":"328","article-title":"\u2019\u2019R\"--project for statistical computing","volume":"170","author":"RB Dessau","year":"2008","journal-title":"Ugeskr Laeger"},{"key":"pone.0270499.ref034","doi-asserted-by":"crossref","first-page":"152","DOI":"10.1186\/1471-2105-10-152","article-title":"Global optimal eBURST analysis of multilocus typing data using a graphic matroid approach","volume":"10","author":"AP Francisco","year":"2009","journal-title":"BMC Bioinformatics"},{"issue":"39","key":"pone.0270499.ref035","doi-asserted-by":"crossref","first-page":"14246","DOI":"10.1073\/pnas.0403306101","article-title":"Structural flexibility in the Burkholderia mallei genome","volume":"101","author":"WC Nierman","year":"2004","journal-title":"Proc Natl Acad Sci U S 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