Global phylogeny of Mycobacterium tuberculosis based on single nucleotide polymorphism (SNP) analysis

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dc.authoridRENDON, ADRIAN/0000-0001-8973-4024
dc.authoridRASTOGI, NALIN/0000-0002-7199-7747
dc.authoridGarcía, Maria de Lourdes/0000-0001-5262-1157
dc.authoridGarcía, Maria de Lourdes/0000-0001-5262-1157
dc.authoridQi, Weihong/0000-0001-8581-908X
dc.authoridSola, Christophe N/0000-0003-4672-2140
dc.authoridJoloba, Moses/0000-0002-0334-9983
dc.authorwosidRENDON, ADRIAN/AAE-5931-2021
dc.authorwosidRASTOGI, NALIN/AAP-1958-2020
dc.authorwosidGarcía, Maria de Lourdes/I-2724-2019
dc.authorwosidAngiuoli, Samuel V/H-7340-2014
dc.authorwosidGarcía, Maria de Lourdes/JAO-0746-2023
dc.authorwosidQi, Weihong/ABC-7380-2021
dc.authorwosidSola, Christophe N/A-7992-2016
dc.contributor.authorFilliol, I
dc.contributor.authorMotiwala, AS
dc.contributor.authorCavatore, M
dc.contributor.authorQi, WH
dc.contributor.authorHazbón, MH
dc.contributor.authordel Valle, MB
dc.contributor.authorFyfe, J
dc.date.accessioned2024-08-04T20:15:12Z
dc.date.available2024-08-04T20:15:12Z
dc.date.issued2006
dc.departmentİnönü Üniversitesien_US
dc.description.abstractWe analyzed a global collection of Mycobacterium tuberculosis strains using 212 single nucleotide polymorphism (SNP) markers. SNP nucleotide diversity was high (average across all SNPs, 0.19), and 96% of the SNP locus pairs were in complete linkage disequilibrium. Cluster analyses identified six deeply branching, phylogenetically distinct SNP cluster groups (SCGs) and five subgroups. The SCGs were strongly associated with the geographical origin of the M. tuberculosis samples and the birthplace of the human hosts. The most ancestral cluster (SCG-1) predominated in patients from the Indian subcontinent, while SCG-1 and another ancestral cluster (SCG-2) predominated in patients from East Asia, suggesting that M. tuberculosis first arose in the Indian subcontinent and spread worldwide through East Asia. Restricted SCG diversity and the prevalence of less ancestral SCGs in indigenous populations in Uganda and Mexico suggested a more recent introduction of M. tuberculosis into these regions. The East African Indian and Beijing spoligotypes were concordant with SCG-1 and SCG-2, respectively; X and Central Asian spoligotypes were also associated with one SCG or subgroup combination. Other clades had less consistent associations with SCGs. Mycobacterial interspersed repetitive unit (MIRU) analysis provided less robust phylogenetic information, and only 6 of the 12 MIRU microsatellite loci were highly differentiated between SCGs as measured by G(ST). Finally, an algorithm was devised to identify two minimal sets of either 45 or 6 SNPs that could be used in future investigations to enable global collaborations for studies on evolution, strain differentiation, and biological differences of M. tuberculosis.en_US
dc.description.sponsorshipNIAID NIH HHS [R01 AI046669, R01 AI049352] Funding Source: Medlineen_US
dc.identifier.doi10.1128/JB.188.2.759-772.2006
dc.identifier.endpage772en_US
dc.identifier.issn0021-9193
dc.identifier.issn1098-5530
dc.identifier.issue2en_US
dc.identifier.pmid16385065en_US
dc.identifier.scopus2-s2.0-30744460678en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.startpage759en_US
dc.identifier.urihttps://doi.org/10.1128/JB.188.2.759-772.2006
dc.identifier.urihttps://hdl.handle.net/11616/94226
dc.identifier.volume188en_US
dc.identifier.wosWOS:000234677400042en_US
dc.identifier.wosqualityQ1en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.language.isoenen_US
dc.publisherAmer Soc Microbiologyen_US
dc.relation.ispartofJournal of Bacteriologyen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectDrug-Resistanten_US
dc.subjectGenetic Diversityen_US
dc.subjectBeijing Genotypeen_US
dc.subjectPortable Approachen_US
dc.subjectComplexen_US
dc.subjectStrainsen_US
dc.subjectVirulenceen_US
dc.subjectDominanceen_US
dc.subjectSequenceen_US
dc.subjectSpreaden_US
dc.titleGlobal phylogeny of Mycobacterium tuberculosis based on single nucleotide polymorphism (SNP) analysisen_US
dc.typeArticleen_US

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