Percentage of lineage-specific mutations in virulence associated genes.

<p>A) Percentage of lineage-specific mutations in coding sequences of the genes in each category. Sassetti virulence genes are genes that were identified in [<a href="http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0004332#pntd.0004332.ref066" target="_blank">66</a>] as being required for virulence in mice. Sassetti essential and slow growth genes were identified by Sassetti et al. under <i>in vitro</i> conditions using TraSH [<a href="http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0004332#pntd.0004332.ref065" target="_blank">65</a>]. Rengarajan macrophage genes were identified by Rengarajan et al. as being required for growth in macrophages [<a href="http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0004332#pntd.0004332.ref067" target="_blank">67</a>]. Comas antigen genes were genes identified by Comas et al. as containing T cell epitopes [<a href="http://www.plosntds.org/article/info:doi/10.1371/journal.pntd.0004332#pntd.0004332.ref004" target="_blank">4</a>]. The color of the bar indicates type of mutation. B) Percentage of lineage-specific pseudogenes falling into the above defined categories. Missing categories had no pseudogenes in any lineage. Lineage is indicated by the number below each bar, while ‘af’ indicates mutations found in both lineages 5 and 6 (both <i>M</i>. <i>africanum</i> lineages).