Diverse Molecular Genotypes of Mycobacterium tuberculosis Complex Isolates Circulating in the Free State, South Africa

Figure 1

MIRU-VNTRplus cluster analysis of 86 isolates and an H37Rv control strain with spoligotyping and MIRU-VNTR profiles investigated in this study. The phylogenetic tree was rooted from M. canettii arranged according to similarities of spoligotypes using a Jaccard distance coefficient of 2 and for MIRU-VNTR types using a categorical value of 1. Included in the figure is, from left, phylogenetic tree drawn using neighbour-joining clustering algorithms (NJ), strain ID, most probable lineage determined with the TB-lineage database (SPOTCLUST according to the SpolDB3, combined with the Randomly Initialised Model (RIM)), SIT number and lineage according to SpolDB4 (MIRU-VNTRplus DB version), MIRU-VNTR profiles, and spoligotypes (1 to 43).