TABLE 2

Rifampicin susceptibility profiles for rifampicin for 23 pulmonary Mycobacterium tuberculosis isolates comparing Xpert MTB/RIF, GenoType MTBDRplus, phenotypic drug susceptibility tests (pDST) and whole-genome sequencing (WGS) looking for mutations that confers resistance to rifampicin

SampleXpert tests performed nSampleXpert resultGenoType pluspDSTWGS: rpoB mutationConcordance Xpert and pDST or WGS#
11Sputum1 RRRNAYes
21Sputum1 RRNAH445NYes
31Sputum1 RNANANo mutationNo
41Sputum1 RRRS450LYes
51Sputum1 RNARNAYes
61Sputum1 RRRS450LYes
71BAL1 RNANANANot TB
81BAL1 RRRS450LYes
91GW1 RRRD435 V/H445DYes
102Sputum2 RRRS450LYes
112Sputum2 RRRS450LYes
122Sputum2 RSNAL430P/H445NYes
132Sputum2 RRRS450LYes
142Sputum2 RRRS450LYes
152Sputum2 RRSNo mutationNo
162Sputum2 RRRS450LYes
172Sputum2 RRRS450LYes
182Sputum2 RRRS450LYes
192Sputum2 RRRS450LYes
202Sputum2 RRRNo mutationYes
212Sputum2 RRRS450LYes
222BAL1 R; 1 SSNANo mutationYes
232GW1 R; 1 SSNANANA

R: resistant; NA: not available; BAL: bronchoalveolar lavage; GW: gastric washing; S: susceptible. #: concordance between RR-Xpert compared with WGS and pDST; : Xpert-positive with resistance to rifampicin in a BAL sample collected after a bronchoscopy in a patient not confirmed with pulmonary tuberculosis (contamination).