Differentiation of tuberculosis strains in a population with mainly Beijing-family strains

Abstract

A high prevalence of tuberculosis (TB) isolates that are genetically homogenous and from the Beijing family has been reported in Russia. To map TB transmission caused by these strains, new genotyping systems are needed. Mycobacterial interspersed repetitive units (MIRUs) offer the possibility of rapid PCR-based typing with comparable discrimination to IS6110 restriction fragment length polymorphism techniques. Spoligotyping and detection of IS6110 insertion in the dnaA-dnaN region were used to identify Beijing strains in 187 Mycobacterium tuberculosis isolates from Samara, Russia. The Beijing isolates were analyzed by using 12-MIRU and 3-exact tandem repeats (ETR) loci and by an expanded set of 10 additional variable number tandem repeats loci. The expanded set of 25 MIRUs provided better discrimination than the original set of 15 (Hunter-Gaston diversity index 0.870 vs. 0.625). Loci MIRU 26, 1982, and 3232 were the most polymorphic in Beijing isolates.

Figure

PCR analysis of VNTR3232 locus. Lane 1, 2 repeats; lane 2, 3 repeats; lane 3, 4 repeats; lane 4, 6 repeats; lane 5, 7 repeats; lane 6, 10 repeats; lane 7, 11 repeats; lane 8, 12 repeats; lane 9, 13 repeats; lane 10, 14 repeats; lane 11, 15 repeats; lane 12, 16 repeats; lane 13, 17 repeats; lane 14, 20 repeats. Lanes 1–5, strains other than Beijing; lanes 6–14, Beijing strains. M, molecular weight markers.