Fig 2. Sequence variants present in the initial inoculum are purified out during mouse passages.

(a) List of SNPs present in the initial inoculum population and the mouse isolates at a frequency <50%. (b) Evolution of SNPs found in the initial inoculum (blue), following the third (green) and sixth (red) mouse passages in WT and T cell deficient mice. Mutation numbers (from the list in panel a) are indicated on the x axis. (c) Number of variant alleles with high, intermediate, and low frequencies identified in the initial M. tuberculosis inoculum (blue) and in the M. tuberculosis populations isolated after the third (green) and sixth (red) mouse passages.