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. 2013 Jun;19(6):969–976. doi: 10.3201/eid1906.121012

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Neighbor-joining phylogenic tree constructed on the basis of 13,480 variable common nucleotide positions across 36 human and animal Mycobacterium tuberculosis complex (MTBC) genome sequences, including 21 previously published genomes (18) and the MTBC strain isolated from an adult female chimpanzee that was found dead in Taï National Park, Côte d’Ivoire, on August 5, 2009 (Chimpanzee Bacillus). The tree is rooted with M. canettii, the closest known outgroup. Node support after 1,000 bootstrap replications is indicated. Genomic deletions identified in (7) are indicated. The number of single-nucleotide polymorphisms (SNPs) exclusive of the chimpanzee strain is indicated in the respective branch, and the number of SNPs shared with the most closely related group of strains is indicated in the common branch. Scale bar indicates number of SNPs. This tree is congruent with the maximum-likelihood phylogeny shown in Technical Appendix Figure 2.