Table 2.
Correlation between genotypic and phenotypic isoniazid (INH) susceptibility testing in 88 patients with data available for both methods.
| Total | Phentotypic DST level of resistance |
|||||
|---|---|---|---|---|---|---|
| S | Low | Moderate | High | No data | ||
| Susceptible on gDST | ||||||
| Wild type | 21 | 4 | 9 | 0 | 0 | 8 |
| ahpC 52C > T | 1 | 0 | 0 | 0 | 0 | 1 |
| ahpC 81C > T | 1 | 0 | 0 | 0 | 1 | 0 |
| Low-level resistance on gDST | ||||||
| fabG1 15C > T | 1 | 0 | 0 | 1 | 0 | 0 |
| fabG1 15C > Ta | 13 | 0 | 6 | 0 | 0 | 7 |
| fabG1 17 G > T | 1 | 0 | 0 | 1 | 0 | 0 |
| fabG1 8 T > C | 1 | 0 | 1 | 0 | 0 | 0 |
| InhA Ile194Thra | 3 | 0 | 0 | 0 | 1 | 2 |
| InhA Ile21Val | 2 | 0 | 1 | 0 | 0 | 1 |
| InhA Ser94Ala | 2 | 0 | 0 | 0 | 0 | 2 |
| Moderate-level resistance on gDST | ||||||
| ahpC 48 G > A, KatG Ser315Thr | 1 | 0 | 0 | 0 | 0 | 1 |
| fabG1 15C > Ta, InhA Ile194Thra | 3 | 0 | 0 | 0 | 0 | 3 |
| fabG1 15C > Ta, InhA Ser94Alaa | 1 | 0 | 0 | 0 | 0 | 1 |
| fabG1 15C > T, InhA Ser94Ala | 1 | 0 | 0 | 0 | 1 | 0 |
| fabG1 8 T > Aa, InhA Ile194Thra | 1 | 0 | 0 | 0 | 0 | 1 |
| InhA Ile21Thr, fabG1 15C > Ta | 1 | 0 | 0 | 0 | 0 | 1 |
| InhA Ile21Val, fabG1 15C > Ta | 3 | 0 | 0 | 0 | 0 | 3 |
| InhA Ile21Val, fabG1 8 T > Aa | 1 | 0 | 0 | 0 | 0 | 1 |
| InhA Ser94Ala, fabG1 15C > Ta | 1 | 0 | 0 | 0 | 0 | 1 |
| KatG Ala264Thr | 2 | 0 | 0 | 0 | 0 | 2 |
| KatG Asn138His | 1 | 0 | 0 | 0 | 0 | 1 |
| KatG Asn138Ser | 2 | 0 | 0 | 0 | 0 | 2 |
| KatG Ser315Asn | 3 | 0 | 0 | 0 | 0 | 3 |
| KatG Ser315Thr | 337 | 1 | 0 | 45 | 7 | 284 |
| High-level resistance on gDST | ||||||
| fabG1 15C > Ta, KatG Ser315Glya, InhA Ile194Thra | 1 | 0 | 0 | 0 | 0 | 1 |
| fabG1 15C > T, KatG Ser315Thr | 1 | 0 | 0 | 0 | 1 | 0 |
| katG 2153889_2156147del | 1 | 0 | 0 | 0 | 0 | 1 |
| katG 54_55insAC, fabG1 15C > Ta | 1 | 0 | 0 | 0 | 0 | 1 |
| KatG Met126Ile, InhA Ser94Alaa | 1 | 0 | 0 | 1 | 0 | 0 |
| KatG Ser315Thr, fabG1 15C > Ta | 31 | 0 | 0 | 0 | 6 | 25 |
| KatG Ser315Thr, InhA Ser94Alaa | 1 | 0 | 0 | 0 | 0 | 1 |
| KatG Ser315Thr, KatG Thr275Ala | 5 | 0 | 0 | 0 | 1 | 4 |
| KatG Trp397Ter | 1 | 0 | 0 | 0 | 0 | 1 |
| KatG Trp90Ter | 1 | 0 | 0 | 0 | 0 | 1 |
| KatG Tyr155Cys, InhA Ile21Val | 1 | 0 | 0 | 0 | 0 | 1 |
| Total | 449 | 5 | 17 | 48 | 18 | 361 |
DST, drug susceptibility testing; gDST, genotypic drug susceptibility testing; R, resistant; S, susceptible.
a
Genomic variants associated with drug resistance having a sequencing depth below the default threshold of 10× but greater than 1×, and with no heteroresistance (i.e. 100% of reads showed that allele).