Genomic changes underpinning the emergence of a successful <i>Mycobacterium tuberculosis</i> Latin American and Mediterranean clonal complex.

However, and despite highly significant LRT values, none of these putative positively selected sites could be identified under the branch-site model.

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The latter model also detected a strong evidence of positive selection in the gene categories “virulence, detoxification, adaptation” and “lipid metabolism ( p = 0.00027 and 0.000, respectively), while values close to significance resulted from the site model for the gene categories “conserved hypothetical proteins” and “virulence, detoxification, adaptation.” Consistent with LRT results, BEB analysis under the site model further identified nine putative positively selected sites, seven of which map to the gene category “cell wall and cell processes” with a posterior probability >95% ( Table 1 ).

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