Independent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic region

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dc.contributor.authorWeiner, Brianen_ZA
dc.contributor.authorGomez, Jamesen_ZA
dc.contributor.authorVictor, Thomas C.en_ZA
dc.contributor.authorWarren, Roben_ZA
dc.contributor.authorSloutsky, Alexanderen_ZA
dc.contributor.authorPlikaytis, Bonnie B.en_ZA
dc.contributor.authorPosey, James E.en_ZA
dc.contributor.authorVan Helden, Paul D.en_ZA
dc.contributor.authorVan Pittius, Nicolaas C. Geyen_ZA
dc.contributor.authorKoehrsen, Michaelen_ZA
dc.contributor.authorSisk, Peteren_ZA
dc.contributor.authorStolte, Christianen_ZA
dc.contributor.authorWhite, Jareden_ZA
dc.contributor.authorGagneux, Sebastianen_ZA
dc.contributor.authorBirren, Bruceen_ZA
dc.contributor.authorHung, Deborahen_ZA
dc.contributor.authorMurray, Meganen_ZA
dc.contributor.authorGalagan, Jamesen_ZA
dc.date.accessioned2013-03-01T08:36:53Z
dc.date.available2013-03-01T08:36:53Z
dc.date.issued2012-02-07
dc.descriptionCITATION: Weiner, B., et al. 2012. Independent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic region. PLoS ONE, 7(2): 1-13, doi: 10.1371/journal.pone.0026038.
dc.descriptionThe original publication is available at http://journals.plos.org/plosone
dc.description.abstractENGLISH ABSTRACT: Mycobacterium tuberculosis, the causative agent of most human tuberculosis, infects one third of the world’s population and kills an estimated 1.7 million people a year. With the world-wide emergence of drug resistance, and the finding of more functional genetic diversity than previously expected, there is a renewed interest in understanding the forces driving genome evolution of this important pathogen. Genetic diversity in M. tuberculosis is dominated by single nucleotide polymorphisms and small scale gene deletion, with little or no evidence for large scale genome rearrangements seen in other bacteria. Recently, a single report described a large scale genome duplication that was suggested to be specific to the Beijing lineage. We report here multiple independent large-scale duplications of the same genomic region of M. tuberculosis detected through whole-genome sequencing. The duplications occur in strains belonging to both M. tuberculosis lineage 2 and 4, and are thus not limited to Beijing strains. The duplications occur in both drug-resistant and drug susceptible strains. The duplicated regions also have substantially different boundaries in different strains, indicating different originating duplication events. We further identify a smaller segmental duplication of a different genomic region of a lab strain of H37Rv. The presence of multiple independent duplications of the same genomic region suggests either instability in this region, a selective advantage conferred by the duplication, or both. The identified duplications suggest that large-scale gene duplication may be more common in M. tuberculosis than previously considered.en_ZA
dc.description.sponsorshipThis project has been funded in whole or in part with Federal funds from the National Institute of Allergy and Infectious Diseases National Institutes of Health, Department of Health and Human Services, under Contract No.: HHSN27220090018C; and Ellison Medical Foundation Grant ID-SS-0693-04. No additional external funding was received for this study. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.en_ZA
dc.description.urihttp://journals.plos.org/plosone/article?id=10.1371/journal.pone.0026038
dc.description.versionPublisher's versionen_ZA
dc.format.extent13 pagesEn_ZA
dc.identifier.citationWeiner, B., et al. 2012. Independent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic region. PLoS ONE, 7(2): 1-13, doi: 10.1371/journal.pone.0026038
dc.identifier.issn1932-6203 (online)
dc.identifier.issn1932-6203 (print)
dc.identifier.otherdoi: 10.1371/journal.pone.0026038
dc.identifier.urihttp://hdl.handle.net/10019.1/79627
dc.language.isoen_ZAen_ZA
dc.publisherPublic Library of Scienceen_ZA
dc.rights.holderAuthors retain copyrighten_ZA
dc.subjectMycobacterium tuberculosisen_ZA
dc.subjectGene duplicationen_ZA
dc.subjectGenomesen_ZA
dc.titleIndependent large scale duplications in multiple M. tuberculosis lineages overlapping the same genomic regionen_ZA
dc.typeArticleen_ZA
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