Table 2.
Lineage, resistance profile and mutations evidenced by susceptibility tests and WGS of isolates from Brazil.
| N | BRA Isolate ID |
Lineage | MTBDR plus | MTBDR sl | Xpert | Phenotypic test | Whole genome sequencing | ||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Mut R | Mut H | Mut Fq | Mut iSLD | R | R | H | H | Sm | Mut R | Mut H | Mut Z | Mut E | Mut Sm | Mut iSLD | Mut Fq | Mut PAS | |||
| 1 | 241 | 4.3 | WT, S315T1 (kat G) | No | No | Yes | No | No | KatG Ser315Thr, KasA Gly269Ser | ||||||||||
| 2 | 536 | 2.2 | WT8, S531L | No | Yes | Yes | No | No | |||||||||||
| 3 | 868 | 4.9 | WT8, S531L | WT2, A90V (gyr A) | Yes | Yes | No | No | No | rpoB Ser450Leu | gyrA Ala90Val | ||||||||
| 4 | 1028 | 4.9 | WT, S315T1 (kat G) | No | No | Yes | No | No | KatG Ser315Thr | ||||||||||
| 5 | 1245 | 4.9 | WT7 | WT, S315T1 (kat G), WT (inh A) | Yes | Yes | Yes | No | No | rpoB His445Leu | KatG Ser315Thr | ||||||||
| 6 | 1662 | 4.9 | WT8, S531L | WT, S315T1 (kat G) | Yes | Yes | Yes | No | Yes | rpoB Ser450Leu | KatG Ser315Thr | pncA Ala3Pro | embB Met306Val | rpsL Lys43Arg | |||||
| 7 | 1696 | 4.9 | WT3 | Yes | No | No | No | No | |||||||||||
| 8 | 1804 | 4.3 | WT, S315T1 (kat G) | No | No | Yes | No | No | KatG Ser315Thr, KasA Gly269Ser | ||||||||||
| 9 | 1874 | 4.3 | WT1, C15T (inh A) | No | No | Yes | No | Yes | inhA C15T | ||||||||||
| 10 | 2080 | 4.3.2 | WT, S315T1 (kat G) | No | No | Yes | No | Yes | KatG Ser315Thr | rrs intragenic | |||||||||
| 11 | 2370 | 4.3 | WT8, S531L | WT, S315T1 (kat G) | WT3, D94N/Y (gyr A) | WT1 A1401G (rrs) | Yes | Yes | Yes | Yes | Yes | rpoB Ser450Leu | KatG Ser315Thr | pncA Ser104Arg | embB Met306Ile rpsL Lys88Arg, rrs intragenic | rpsL Ly88Argrrs intragenic | rrs intragenic | gyrA Asp94Asn | folC Arg49Gln |
| 12 | 2591 | 4.3 | WT8, S531L | WT, S315T1 (kat G) | Yes | Yes | Yes | No | No | rpoB Ser450Leu | KatG Ser315Thr, KasA Gly269Ser | pncA Arg140His, pncA Phe94Val | |||||||
| 13 | 2782 | 4.9 | WT2 | WT, C15T (inh A) | Yes | No | Yes | No | No | ||||||||||
| 14 | 2943 | 4.3 | WT3 | Yes | No | No | No | Yes | rpoB Ser431Thr | rrs intragenic | rrs intragenic | ||||||||
| 15 | 3052 | 4.3 | S531L | WT, S315T1 (kat G) | Yes | Yes | Yes | No | No | rpoB Ser450Leu | KatG Ser315Thr | ||||||||
| 16 | 3200 | 4.9 | WT8, S531L | WT, S315T1 | Yes | Yes | Yes | Yes | Yes | rpoB Ser450Leu | KatG Ser315Thr | pncA Ala3Pro | embB Met306Val | rpsL Lys43Arg | |||||
| WT3, A90V, D94G, D94N/Y (gyr A) | gyrA Ala90Val, gyrA Asp94Gly | ||||||||||||||||||
| 17 | 3360 | 4.3 | S531L | WT, S315T1 (kat G) | No | Yes | Yes | No | No | KatG Ser315Thr, KasA Gly269Ser | embB Met306Ile | ||||||||
Mut R: mutations in rpoB gene related to rifampicin resistance; Mut H: mutations related no isoniazid resistance.
Mut Fq: mutations related to fluoroquinolones resistance; Mut iSLD: mutations related to injectable second-line drugs resistance; WT: absence of wild-type band; Xpert R: rifampicin resistance detected by Xpert MTB/RIF; R: rifampicin. H: isoniazid; E: ethambutol; Sm: streptomycin; Z: pyrazinamide; PAS: para-aminosalicylic acid.