Fig. 2

Clustering and phylogenetic analyses of pseudogenomes. (a) Comparison of pseudogenomes in M. ulcerans strains. Strains are coloured (left of the heatmap) based on the source (country), and on the immediate right, based on the year the sample was collected. The presence of a pseudogene is indicated by a blue bar and strains are clustered based on similarities in pseudogenome profiles (on the extreme left). (b) UMAP clustering of MU pseudogenomes. Isolates are coloured by country. Clusters are bounded in a blue line with lineage one and two clusters annotated. The red-bounded cluster represents a subcluster of lineage one with isolates from Gabon, Cameroon, and Uganda. Red arrows point to in-house isolates PA38, Z007, and Z039 while the blue arrow identifies the Australian strain. (c, d) Pie charts comparing the number of pseudogenes similar across Agy99, African lineage 1, African lineage 2 and the Australian strain MU496180