Fig. 1

Compiled global Mtb genomic datasets. Panels a and b provide the geographic location of isolates included in the lineage 2 and lineage 4 datasets respectively. Pies are scaled by the number of samples per country (raw data available in Additional file 1: Table S1) with the colours providing the fraction of genomes with any nonsynonymous/frameshift variants detected in mmpR5 (coloured as per the legend). Countries comprising samples with known RAVs are highlighted with a red asterisk. Genomic data for which no associated metadata on the geographic location of sampling was available are shown in the Pacific Ocean. Panels c and d provide the collection dates associated to each genome in the lineage 2 and lineage 4 datasets respectively highlighting those with any variants in mmpR5 (colour, as per legend). Lineage 4 Mtb obtained from eighteenth century mummies are excluded from this plot but included in all analyses. The vertical dashed lines indicate the dates of the first clinical trials for clofazimine, bedaquiline and FDA approval of bedaquiline for clinical use