RT Journal Article
SR Electronic
T1 Effective variable-number tandem repeats loci for discrimination of <em>Mycobacterium</em> <em>tuberculosis</em> isolated from Korea
JF European Respiratory Journal
JO Eur Respir J
FD European Respiratory Society
SP P1407
VO 40
IS Suppl 56
A1 Young Kil Park
A1 Hee Yoon Kang
A1 Ji Hye Lee
A1 Sa Rang Kim
YR 2012
UL http://erj.ersjournals.com/content/40/Suppl_56/P1407.abstract
AB IntroductionThe variable-number tandem repeats (VNTR) typing is a promising method to discriminate M. tuberculosis isolates in molecular epidemiology.ObjectivesThe purpose of this study was to evaluate already known VNTR loci and to select best combination of VNTR loci set for discrimination Korean TB strains.MethodsThe 307 clinical isolates collected from throughout Korea were genotyped using IS6110 RFLP, and analyzed the number of VNTR copies for the 32 VNTR loci including Supply-15, Supply-24 and JATA-15(except QUB-18); MIRU-02, -04, -10, -16, -20, -23, -24, -26, -27, -31, -39,- 40, ETR-A, -B, -C, QUB-11a, -11b, -15, -26, Mtub-04, -21, -24, -29, -30, -34, -39, VNTR-2372, -3232, -3336, -3820, -4120, -4156. And then, allelic diversity (h) and the Hunter-Gaston discriminatory index (HGDI) were calculated to evaluate discriminatory power of locus and combination of VNTR loci.ResultsAs a results of analysis of the 32 VNTR loci, we found that 12 loci (MIRU-26, -31, QUB-11a, -11b, -26, Mtub-04, -21, VNTR-3232, -3336, -3820, -4120, -4156) showed high discrimination power (each h values of them was over 0.6). This new 12-locus combination for Korea TB strains was designated as a KIT-12. The discriminatory index (HGDI) of IS6110 RFLP and VNTRs of Supply-15, Supply-24, JATA-15, and KIT-12 was 0.9992, 0.9980, 0.9987, 0.9992, and 0.9997 respectively. Also the percentage of clustered cases was 16.6%(51/307), 21.8%(67/307), 16.9%(52/307), 14.3%(44/307), 6.8%(21/307) respectively.ConclusionsThe newly proposed VNTR typing system, KIT-12 loci can be effective tool for M. tuberculosis genotyping in Korea where the Beijing strains are predominant.