Table 4.
Single-nucleotide polymorphisms identified in the study (except case 5) by WGS.
| Category | Ref. positiona | Gene | Base substitution | Classification | Change |
|---|---|---|---|---|---|
| SNP used for phylogeny (n = 20) | 335 | dnaA | C → T | Non-synonymous | T200I |
| 19137 | pbpA | A → G | Synonymous | ||
| 907266 | Rv0812 | G → A | Non-synonymous | D282N | |
| 1065308 | Rv0954 | C → T | Non-synonymous | T61I | |
| 1192843 | Rv1069c | C → T | Synonymous | ||
| 1253425 | Rv1129c | G → C | Non-synonymous | D370E | |
| 1807087 | chaA | T → G | Non-synonymous | S303A | |
| 2538666 | C → T | Intergenic | |||
| 2604957 | Rv2331A | A → T | Non-synonymous | K73M | |
| 2729831 | Rv2434c | G → T | Non-synonymous | P244T | |
| 2729832 | Rv2434c | G → C | Synonymous | ||
| 2951317 | C → T | Intergenic | |||
| 2955447 | G → A | Intergenic | |||
| 2980915 | C → T | Intergenic | |||
| 3526043 | nuoN | T → C | Non-synonymous | L85P | |
| 3714256 | sigJ | T → G | Non-synonymous | D26A | |
| 3859116 | Rv3439c | G → C | Non-synonymous | Q183E | |
| 4206273 | fadE36 | G → A | Synonymous | ||
| 4237927 | dprE2 | T → G | Non-synonymous | Stop255G | |
| 4248143 | embB | T → C | Synonymous |
a
Reference position relative to H37Rv genome.