Single nucleotide polymorphism (SNP) analysis used for the phylogeny of the Mycobacterium tuberculosis complex based on a pyrosequencing assay

Cabal, A. ; Strunk, M. ; Domínguez, J. ; Lezcano, M.A. ; Vitoria, M.A. (Universidad de Zaragoza) ; Ferrero, M. ; Martín, C. ; Iglesias, M.J. (Universidad de Zaragoza) ; Samper, S.

Resumen: Background

Different polymorphisms have been described as markers to classify the lineages of the Mycobacterium tuberculosis complex. The analysis of nine single nucleotide polymorphisms (SNPs) was used to describe seven SNPs cluster groups (SCGs). We attempted to classify those strains that could not been categorized into lineages by the genotyping methods used in the routine testing.
Results

The M. tuberculosis complex isolates collected in 2010 in our region were analysed. A new method based on multiplex-PCRs and pyrosequencing to analyse these SNPs was designed. For the pyrosequencing assay nine SNPs that defined the seven SCGs were selected from the literature: 1977, 74092, 105139, 232574, 311613, 913274, 2460626, 3352929 and gyrA95. In addition, SNPs in katG463, mgtC182, Ag85C103 and RDRio deletion were detected.

Idioma: Inglés

DOI: 10.1186/1471-2180-14-21

Año: 2014

Publicado en: BMC MICROBIOLOGY 14, 21 (2014), [9 pp.]
ISSN: 1471-2180

Factor impacto JCR: 2.729 (2014)

Categ. JCR: MICROBIOLOGY rank: 51 / 119 = 0.429 (2014) - Q2 - T2

Financiación: info:eu-repo/grantAgreement/ES/FIS/FIS09-051
Financiación: info:eu-repo/grantAgreement/ES/FIS/FIS12/1970

Tipo y forma: Article (Published version)

Área (Departamento): Área Microbiología (Dpto. Microb.Med.Pr.,Sal.Públ.)
Área (Departamento): Área Medic.Prevent.Salud Públ. (Dpto. Microb.Med.Pr.,Sal.Públ.)