Table 2.
Significant SNP markers, QTLs, and candidate genes related to salt tolerance
| Marker | Chr | Position (bp) | -lg(P) (BLUP) | MarkerR2 (BLUP) | Environments | QTL | Physical Chr | Genomic position | No. of genes |
|---|---|---|---|---|---|---|---|---|---|
| TM3300 | 1 | 92,501,634 | 3.41 | 0.084 | BLUP, 14, 15, 16 | qGhST-c1 | A01 | 92,402,641..92562754 | 7 |
| TM4974 | 2 | 56,676,599 | 3.05 | 0.079 | BLUP, 15 | qGhST-c2 | A02 | 56,176,476..56990091 | 6 |
| TM8361 | 3 | 98,536,836 | 3.81 | 0.108 | BLUP, 15, 16 | qGhST-c3 | A03 | 98,507,289..98618065 | 13 |
| TM18816 | 7 | 8,674,003 | 3.26 | 0.083 | BLUP, 15, 16 | qGhST-c7–1 | A07 | 8,654,507..8730789 | 5 |
| TM19026 | 7 | 11,292,696 | 3.22 | 0.090 | BLUP, 15, 16 | qGhST-c7–2 | A07 | 11,270,123..11494991 | 12 |
| TM19028 | 7 | 11,312,723 | 3.06 | 0.087 | BLUP, 15, 16 | A07 | |||
| TM19030 | 7 | 11,334,462 | 3.06 | 0.080 | BLUP, 15, 16 | A07 | |||
| TM19035 | 7 | 11,356,480 | 3.13 | 0.084 | BLUP, 15, 16 | A07 | |||
| TM41811 | 12 | 57,971,233 | 3.25 | 0.065 | BLUP, 15, 16 | qGhST-c12–1 | A12 | 57,740,976..58054684 | 11 |
| TM41814 | 12 | 58,100,057 | 3.33 | 0.069 | BLUP, 14, 15, 16 | qGhST-c12–2 | A12 | 58,097,661..58230406 | 3 |
| TM63245 | 16 | 2,688,021 | 3.00 | 0.060 | BLUP, 16 | qGhST-c16–1 | D07 | 2,555,918..2766294 | 27 |
| TM63387 | 16 | 5,545,380 | 3.73 | 0.099 | BLUP, 14, 15, 16 | qGhST-c16–2 | D07 | 5,518,153..5573449 | 3 |
| TM73567 | 20 | 6,921,040 | 3.43 | 0.068 | BLUP, 14, 15, 16 | qGhST-c20–1 | D10 | 6,887,955..6965236 | 7 |
| TM73573 | 20 | 6,959,800 | 3.02 | 0.077 | BLUP, 15 | D10 | |||
| TM73579 | 20 | 6,996,881 | 3.40 | 0.068 | BLUP, 14,15, 16 | qGhST-c20–2 | D10 | 6,991,910..7032029 | 2 |
| TM67763 | 24 | 16,771,670 | 3.74 | 0.099 | BLUP, 14, 15, 16 | qGhST-c24–1 | D08 | 16,766,258..16776082 | 0 |
| TM68258 | 24 | 19,887,759 | 3.68 | 0.096 | BLUP, 14, 15, 16 | qGhST-c24–2 | D08 | 19,884,918..19901251 | 2 |
| TM3510 | 1 | 96,629,867 | 3.24 | 0.092 | 14 | ||||
| TM776 | 1 | 14,254,094 | 3.40 | 0.098 | 14 | ||||
| TM4108 | 2 | 7,344,966 | 3.00 | 0.082 | 14 | ||||
| TM8353 | 3 | 98,481,949 | 3.01 | 0.079 | 16 | ||||
| TM18851 | 7 | 9,689,745 | 3.05 | 0.084 | 16 | ||||
| TM18989 | 7 | 11,034,281 | 3.07 | 0.081 | 16 | ||||
| TM19015 | 7 | 11,198,513 | 3.01 | 0.078 | 16 | ||||
| TM19017 | 7 | 11,226,724 | 3.09 | 0.080 | 16 | ||||
| TM19018 | 7 | 11,232,229 | 3.07 | 0.079 | 16 | ||||
| TM19023 | 7 | 11,276,537 | 3.20 | 0.082 | 16 | ||||
| TM53602 | 17 | 4,200,687 | 3.18 | 0.092 | 14 | ||||
| TM71972 | 23 | 33,356,265 | 3.02 | 0.064 | 14 | ||||
| TM71987 | 23 | 33,461,358 | 3.09 | 0.066 | 14 | ||||
| TM67849 | 24 | 17,321,002 | 3.89 | 0.112 | 14 | ||||
| TM68645 | 24 | 31,157,957 | 3.21 | 0.089 | 14 | ||||
| TM68879 | 24 | 44,114,822 | 3.03 | 0.060 | 16 |