Extended Data Table 2 |. Low-frequency PDIM mutation analysis.
Low-frequency non-synonymous PDIM variants detected in laboratory stocks of virulent Mtb strains (Fig. 2a). Variant calling was performed using the Geneious variant finder with the following thresholds: ≥ 10% variant frequency, ≥ 10 × coverage, P < 1 x 10−10.
| Strain | PDIM mutations | Frequency | REF/ALT | P value |
|---|---|---|---|---|
| H37Rv-A | ppsB p.Leu250Pro | 11.6% | 99/13 | 3.1 × 10−23 |
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| H37Rv-B | n.d. | |||
|
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| Erdman | ppsA c.3418insA | 67.9% | 27/57 | 2.9 × 10−161 |
| ppsE p.Cys414* | 10.7% | 50/6 | 3.2 × 10−14 | |
|
| ||||
| KZN 4207 | n.d. | |||
|
| ||||
| HN878 | fadD28 c.347delT | 14.3% | 126/21 | 2.6 × 10−30 |
| ppsD p.Gly1636Arg | 18.8% | 26/6 | 1.4 × 10−14 | |
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| ||||
| CDC1551-A | ppsA p.Phe327Val | 10.2% | 115/13 | 7.1 × 10−20 |
| ppsE c.3496insA | 12.6% | 118/17 | 9.9 × 10−41 | |
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| ||||
| CDC1551-B | n.d. | |||
n.d. = none detected.