Table 2 General information on genetic variation in the bitter gourd genome
Whole genome | Sample no. | SNP no. | θπ(10−3) | θw(10−3) | Tajima’s D |
|---|---|---|---|---|---|
M. charantia | |||||
South Asia | 50 | 3,311,877 | 1.94 | 2.42 | −0.79 |
Southeast Asia | 49 | 5,036,642 | 1.92 | 3.73 | −1.61 |
China | 62 | 1,764,264 | 0.69 | 1.23 | −1.45 |
Tanzania | 5 | 880,137 | – | – | – |
 Total | 166 | 6,595,112 | 1.76 | 3.88 | −1.71 |
 TR group | 21 | 6,098,414 | 6.59 | 5.37 | 0.79 |
Genic regions | Sample no. | SNP no. | θπ(10−3) | θw(10−3) | Tajima’s D | Average nonsyn SNPs | Average syn SNPs | Average dN/dS |
|---|---|---|---|---|---|---|---|---|
M. charantia | ||||||||
South Asia | 50 | 506,143 | 0.81 | 1.24 | −1.18 | 8358 | 6608 | 1.27 |
Southeast Asia | 49 | 774,674 | 0.91 | 1.92 | −1.80 | 6381 | 5445 | 1.20 |
China | 62 | 298,347 | 0.35 | 0.70 | −1.67 | 3208 | 2566 | 1.25 |
Tanzania | 5 | 131,308 | – | – | – | – | – | – |
 Total | 166 | 1,133,465 | 0.80 | 2.25 | −2.02 | 5877 | 4777 | 1.24 |
 TR group | 21 | 847,989 | 2.82 | 2.51 | 0.46 | 52,571 | 49,998 | 1.05 |
