TABLE 2.
Summary of the significant SNPs associated with spot blotch resistance.
| Names of QTLs | SNP | Alleles | Effective allele | Env | Position (Mb) | p-value | MAF | Marker effect | Effect 10X |
| Q.Sb.bisa-1A (Env 1 and 2) | S1A_497201550 | C/T | C | Env1 | 497.20 | 0.001232 | 0.28 | 1.88 | 18.83 |
| C | Env2 | 497.20 | 0.002382 | 0.28 | 1.83 | 18.26 | |||
| S1A_497201682 | G/A | G | Env1 | 497.20 | 0.001232 | 0.28 | –1.88 | –18.83 | |
| G | Env2 | 497.20 | 0.002382 | 0.28 | –1.83 | –18.26 | |||
| Q.Sb.bisa-1B (Env 1 and 2) | S1B_636840957 | A/G | A | Env1 | 636.84 | 0.001754 | 0.37 | 1.61 | 16.14 |
| A | Env2 | 636.84 | 0.002104 | 0.37 | 1.63 | 16.27 | |||
| Q.Sb.bisa-1D (Env 1 and 2) | S1D_89835681 | T/A | A | Env1 | 89.84 | 0.001896 | 0.13 | 2.40 | 23.95 |
| A | Env2 | 89.84 | 0.002417 | 0.13 | 2.40 | 24.00 | |||
| Q.Sb.bisa-2A (Env 1 and 2) | S2A_703111105 | C/T | C | Env2 | 703.11 | 0.002881 | 0.16 | 2.28 | 22.83 |
| C | Env1 | 703.11 | 0.002946 | 0.16 | 2.22 | 22.23 | |||
| S2A_703358397 | T/A | T | Env2 | 703.36 | 0.002881 | 0.16 | –2.28 | –22.83 | |
| T | Env1 | 703.36 | 0.002946 | 0.16 | –2.22 | –22.23 | |||
| S2A_703391915 | T/A | T | Env2 | 703.39 | 0.002881 | 0.16 | –2.28 | –22.83 | |
| T | Env1 | 703.39 | 0.002946 | 0.16 | –2.22 | –22.23 | |||
| S2A_703391992 | C/G | C | Env2 | 703.39 | 0.002881 | 0.16 | 2.28 | 22.83 | |
| C | Env1 | 703.39 | 0.002946 | 0.16 | 2.22 | 22.23 | |||
| S2A_703427639 | C/T | C | Env2 | 703.43 | 0.002881 | 0.16 | 2.28 | 22.83 | |
| C | Env1 | 703.43 | 0.002946 | 0.16 | 2.22 | 22.23 | |||
| S2A_704446408 | C/T | C | Env2 | 704.45 | 0.002881 | 0.16 | 2.28 | 22.83 | |
| C | Env1 | 704.45 | 0.002946 | 0.16 | 2.22 | 22.23 | |||
| Q.Sb.bisa-2B (Env1,2, and 3) | S2B_419320960 | C/T | * | Env3 | 419.32 | 0.002276 | 0.46 | 2.32 | 23.25 |
| S2B_419456700 | T/C | * | Env3 | 419.46 | 0.002138 | 0.45 | –2.33 | –23.30 | |
| S2B_420723687 | G/T | * | Env3 | 420.72 | 0.002497 | 0.46 | 2.30 | 23.03 | |
| S2B_421708152 | A/G | * | Env3 | 421.71 | 0.002655 | 0.46 | 2.30 | 22.98 | |
| S2B_422031949 | T/C | * | Env3 | 422.03 | 0.002655 | 0.46 | –2.30 | –22.98 | |
| S2B_422190984 | C/A | * | Env3 | 422.19 | 0.002655 | 0.46 | –2.30 | –22.98 | |
| S2B_422191033 | A/G | * | Env3 | 422.19 | 0.002655 | 0.46 | 2.30 | 22.98 | |
| S2B_422507900 | C/T | * | Env3 | 422.51 | 0.002655 | 0.46 | 2.30 | 22.98 | |
| S2B_422983662 | A/C | A | Env1 | 422.98 | 0.001657 | 0.11 | 3.01 | 30.07 | |
| A | Env2 | 422.98 | 0.001748 | 0.11 | 3.07 | 30.68 | |||
| S2B_423094651 | G/A | * | Env3 | 423.09 | 0.002655 | 0.46 | –2.30 | –22.98 | |
| S2B_423836280 | C/G | * | Env3 | 423.84 | 0.002655 | 0.46 | 2.30 | 22.98 | |
| Q.Sb.bisa-4A (Env 1 and 2) | S4A_725538462 | C/T | * | Env1 | 725.54 | 0.002455 | 0.21 | 1.94 | 19.41 |
| S4A_725660945 | A/G | A | Env1 | 725.66 | 0.000855 | 0.24 | 2.02 | 20.18 | |
| A | Env2 | 725.66 | 0.002464 | 0.24 | 1.89 | 18.86 | |||
| S4A_725880148 | A/G | * | Env1 | 725.88 | 0.002388 | 0.21 | 1.97 | 19.72 | |
| Q.Sb.bisa-5B (Env1 and 3) | S5B_682958475 | G/A | A | Env3 | 682.96 | 0.002912 | 0.46 | 2.14 | 21.41 |
| S5B_683240735 | G/A | G | Env1 | 683.24 | 0.002373 | 0.07 | –3.14 | –31.37 | |
| Q.Sb.bisa-6D (Env 1 and 2) | S6D_6395796 | T/C | T | Env2 | 6.4 | 0.002335 | 0.27 | –1.78 | –17.77 |
| T | Env1 | 6.4 | 0.002360 | 0.27 | –1.73 | –17.32 | |||
| S6D_6944636 | T/A | T | Env2 | 6.94 | 0.002511 | 0.27 | –1.77 | –17.66 | |
| T | Env1 | 6.94 | 0.002589 | 0.27 | –1.72 | –17.18 | |||
| S6D_7194112 | G/A | G | Env1 | 7.19 | 0.000669 | 0.27 | –1.99 | –19.94 | |
| G | Env2 | 7.19 | 0.000763 | 0.27 | –2.02 | –20.23 |
Env, environment; MAF, minor allele frequency. *Asterisk sign in the effective allele column represents that the allelic effect of the two alleles was not significantly different.