Resolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method

dc.creatorAbadia, Edgar
dc.creatorZhang, Jian
dc.creatordos Vultos, Tiago
dc.creatorRitacco, Gloria Viviana
dc.creatorKremer, Kristin
dc.creatorAktas, Elif
dc.creatorMatsumoto, Tomoshige
dc.creatorRefregier, Guislaine
dc.creatorvan Soolingen , Dick
dc.creatorGicquel, Brigitte
dc.creatorSola, Christophe
dc.date2010-07
dc.date.accessioned2023-08-30T23:50:46Z
dc.date.available2023-08-30T23:50:46Z
dc.identifierhttp://hdl.handle.net/11336/189442
dc.identifierAbadia, Edgar; Zhang, Jian; dos Vultos, Tiago; Ritacco, Gloria Viviana; Kremer, Kristin; et al.; Resolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method; Elsevier Science; Infection, Genetics and Evolution; 10; 7; 7-2010; 1066-1074
dc.identifier1567-1348
dc.identifierCONICET Digital
dc.identifierCONICET
dc.identifier.urihttps://repositorioslatinoamericanos.uchile.cl/handle/2250/8542841
dc.descriptionWe developed a new multiplexed-PCR assay to accurately classify Mycobacterium tuberculosis complex (MTC) isolates at the sublineage level by single nucleotide polymorphisms (SNPs). This method relies on 7 SNPs located in different genes of the MTC strains (recC, rec0, recR, ligB, ligC, alkA, and mgtC). Most of these genes are involved in replication, repair and recombination (3R) functions of M. tuberculosis strains, four of the mutations are synonymous, and thus neutral. Genes were chosen as a first empirical approach to assess the congruence between spoligotyping-based phylogeographical classification and SNP typing.This scheme efficiently classifies most of MTC phylogeographical groups: (1) confirming and identifying new sublineage-specific SNPs, (2) unraveling phylogenetical relationships between spoligotyping-defined MTC sublineages, (3) appropriately assigning sublineages to some spoligotypes and reassigning sublineages to other mis-labeled spoligotype signatures. This study opens the way to a more meaningful taxonomic, evolutionary and epidemiological classification. It also allows evaluation of spoligotype-signature significance towards a more comprehensive understanding of the evolutionary mechanisms of the clustered regularly interspaced short palindromic repeat (CRISPR) locus in MTC.
dc.descriptionFil: Abadia, Edgar. Université de Paris XI; Francia
dc.descriptionFil: Zhang, Jian. Université de Paris XI; Francia
dc.descriptionFil: dos Vultos, Tiago. Instituto Pasteur; Francia
dc.descriptionFil: Ritacco, Gloria Viviana. Dirección Nacional de Institutos de Investigación. Administración Nacional de Laboratorios e Institutos de Salud. Instituto Nacional de Enfermedades Infecciosas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina
dc.descriptionFil: Kremer, Kristin. National Institute Of Public Health And The Environment; Países Bajos
dc.descriptionFil: Aktas, Elif. Inonu University Medical Faculty; Turquía
dc.descriptionFil: Matsumoto, Tomoshige. onguldak Karaelmas University Hospital; Japón
dc.descriptionFil: Refregier, Guislaine. Université de Paris XI; Francia
dc.descriptionFil: van Soolingen , Dick. National Institute Of Public Health And The Environment; Países Bajos
dc.descriptionFil: Gicquel, Brigitte. Instituto Pasteur; Francia
dc.descriptionFil: Sola, Christophe. Université de Paris XI; Francia
dc.formatapplication/pdf
dc.formatapplication/pdf
dc.languageeng
dc.publisherElsevier Science
dc.relationinfo:eu-repo/semantics/altIdentifier/url/https://www.sciencedirect.com/science/article/pii/S1567134810001942
dc.relationinfo:eu-repo/semantics/altIdentifier/doi/10.1016/j.meegid.2010.07.006
dc.rightsinfo:eu-repo/semantics/openAccess
dc.rightshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.subjectCRISPR
dc.subjectEVOLUTION
dc.subjectHIGH-THROUGHPUT
dc.subjectMULTIPLEX
dc.subjectMYCOBACTERIUM TUBERCULOSIS COMPLEX
dc.subjectPHYLOGENY
dc.subjectPOPULATION STUDIES
dc.subjectSNPS
dc.subjectSPOLIGOTYPING
dc.subjecthttps://purl.org/becyt/ford/1.6
dc.subjecthttps://purl.org/becyt/ford/1
dc.subjecthttps://purl.org/becyt/ford/1.6
dc.subjecthttps://purl.org/becyt/ford/1
dc.subjecthttps://purl.org/becyt/ford/3.3
dc.subjecthttps://purl.org/becyt/ford/3
dc.titleResolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method
dc.typeinfo:eu-repo/semantics/article
dc.typeinfo:ar-repo/semantics/artículo
dc.typeinfo:eu-repo/semantics/publishedVersion


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