Phenotypic rifampicin resistance testing results from the site (direct, TLA) and the reference laboratory (indirect, LJ). Xpt, Xpert MTB/RIF; INC, result inconclusive (error, invalid, no result); RMP, rifampicin; GC, growth control; NTM, nontuberculous mycobacteria; IND, indeterminate; NA, not available; (n), administrative errors excluded; for details refer to Table S1. In the gray area, results for 172 isolates with indirect-DST, Xpert, and TLA results available, including administrative errors; *, 100 isolates selected for WGS, in addition to all RR detected by any method.