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Title: | Resolving lineage assignation on Mycobacterium tuberculosis clinical isolates classified by spoligotyping with a new high-throughput 3R SNPs based method | Authors: | Abadia, Edgar Zhang, Jian dos Vultos, Tiago Ritacco, Viviana Kremer, Kristin Aktas, Elif Matsumoto, Tomoshige Refregier, Guislaine van Soolingen, Dick Gicquel, Brigitte Sola, Christophe |
Keywords: | Mycobacterium tuberculosis;Filogenia;Polimorfismo de Nucleótido Simple | Issue Date: | Oct-2010 | Publisher: | Elsevier | Journal: | Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases | Abstract: | We 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. |
Description: | Fil: Abadia, Edgar. Instituto de Genética y Microbiología, UMR8621, Equipo IGEPE, Universud, CNRS Université; Francia. Fil: Zhang, Jian. Instituto de Genética y Microbiología, UMR8621, Equipo IGEPE, Universud, CNRS Université; Francia. Fil: dos Vultos, Tiago. Unité de Génétique Mycobactérienne, Institut Pasteur, París; Francia. Fil: Ritacco, Viviana. ANLIS Dr.C.G.Malbrán. Instituto Nacional de Enfermedades Infecciosas; Argentina. Fil: Kremer, Kristin. Instituto Nacional de Salud Pública y Medio Ambiente, Bilthoven; Países Bajos. Fil: Aktas, Elif. Departamento de Microbiología Clínica, Hospital Universitario Zonguldak Karaelmas, Zonguldak; Turquía. Fil: Matsumoto, Tomoshige. Organización del Hospital de la Prefectura de Osaka Centro Médico de la Prefectura de Osaka para Enfermedades Alérgicas y Respiratorias; Japón. Fil: Refregier, Guislaine. Instituto de Genética y Microbiología, UMR8621, Equipo IGEPE, Universud, CNRS Université; Francia. Fil: van Soolingen, Dick. Instituto Nacional de Salud Pública y Medio Ambiente, Bilthoven; Países Bajos. Fil: Gicquel, Brigitte. Unité de Génétique Mycobactérienne, Institut Pasteur, París; Francia. Fil: Sola, Christophe. Instituto de Genética y Microbiología, UMR8621, Equipo IGEPE, Universud, CNRS Université; Francia. |
URI: | https://www.sciencedirect.com/science/article/abs/pii/S1567134810001942?via%3Dihub http://sgc.anlis.gob.ar/handle/123456789/2046 |
ISSN: | 1567-1348 | DOI: | 10.1016/j.meegid.2010.07.006 | Rights: | Closed Access |
Appears in Collections: | Publicaciones INEI |
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