Figure 2

Bayesian post-probable phylogenies based on whole genome and SNP concatenated sequence alignment. Description of data: Phylogenetic trees based on whole genome sequence (a), SNP concatemers using the consensus genome sequence as reference (b) and SNP concatemers using H37Rv genome as reference were constructed using BEAST [38]. All relevant parameters reached an effective sample size of >100, indicating good convergence of the chains. For each branch, 95% highest posterior density is shown with good support. Isolates, clustered into different positions compared with the phylogenetic tree based on the whole genome sequences of M. tuberculosis are indicated in the squares.