Application of Single-nucleotide Polymorphism and Mycobacterial Interspersed Repetitive Units-Variable Number of Tandem Repeats Analyses to Clinical Mycobacterium tuberculosis Isolates from Korea / 대한진단검사의학회지
The Korean Journal of Laboratory Medicine
;
: 37-43, 2011.
Artículo
en Inglés
| WPRIM
| ID: wpr-30864
ABSTRACT
BACKGROUND:
Single-nucleotide polymorphism (SNP) analysis is a powerful strategy for large-scale molecular population studies examining phylogenetic relationships among bacterial strains. Mycobacterial interspersed repetitive units-variable number of tandem repeats (MIRU-VNTR) can be easily digitized to share data among laboratories. This study applied SNP and MIRU-VNTR analyses for molecular strain typing of Mycobacterium tuberculosis isolates collected throughout Korea.METHODS:
We studied 102 clinical M. tuberculosis isolates, including 6 paired strains, collected from 11 university hospitals in Korea in 2008 and 2009. SNPs were detected using hairpin primer assays, and then, MIRU-VNTR analysis was performed.RESULTS:
Thirty-five SNPs contained polymorphisms that helped differentiate the 96 tested isolates. The isolates were classified into 15 clusters. The Beijing family strains were distributed within closely related clusters in the SNP dendrogram. For MIRU-VNTR analysis, the 96 isolates were divided into 12 groups. The discriminatory index in 8 of these groups (MIRU-10, -23, -26, and -31; ETR-A, -B, -C, and -F) was high (Hunter-Gaston diversity index > 0.6). Unlike the SNP method, MIRU-VNTR analysis did not identify any notable localizations of Beijing or non-Beijing family isolates in specific clusters.CONCLUSIONS:
SNP and MIRU-VNTR analyses are surrogate molecular strain-typing methods for M. tuberculosis in Korea where Beijing family isolates are predominant.
Texto completo:
Disponible
Índice:
WPRIM (Pacífico Occidental)
Asunto principal:
Filogenia
/
Análisis por Conglomerados
/
Cartilla de ADN
/
Repeticiones de Minisatélite
/
Secuencias Repetitivas Esparcidas
/
Polimorfismo de Nucleótido Simple
/
República de Corea
/
Mycobacterium tuberculosis
Tipo de estudio:
Estudio pronóstico
País/Región como asunto:
Asia
Idioma:
Inglés
Revista:
The Korean Journal of Laboratory Medicine
Año:
2011
Tipo del documento:
Artículo
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