Figure 3. Maximum Likelihood topology based on 2,114 polymorphic positions derived from 91 WGS of La3, after conservatively filtering out several repetitive regions of the genome (see methods).

Branch lengths are proportional to nucleotide substitutions and the topology is rooted with one L6 WGS. Support values correspond to bootstrap values. The different colors of the tips correspond to different hosts indicated in the legend. Country of isolation is indicated, followed by the country of birth in the case of human isolates, when known. Isolates with origin in South Asia are indicated in red. A cluster of WGS obtained from cattle isolated is indicated with A.