FIG 1.

Genomic regions interrogated. The nonessential genes conferring resistance or compensating for resistance are shown in blue, whereas the corresponding regulatory regions or nonessential regulators are shown in red along with the relevant antibiotic(s) (A, region associated with INH resistance; B, region associated with BDQ and CFZ resistance; C, regions associated with AMK and KAN resistance). For each of the four regions, we screened for any type of mutation in the upstream regions and likely LoF mutations in the coding regions (i.e., frameshift indels, nonsense mutations, and mutations that abolish the start codon, including synonymous mutations at the start codons of eis, mmpR, and whiB7, as these genes start with a valine). Unlike Cepheid, Hain has not disclosed the precise eis promoter region interrogated by its SL-LPA, which is why this information could not be included (67).