Table 4.
Stable genome-wide significant markers
| Trait | SNP ID | Chromosome | Position | P value | Phenotypic variance explained (%) |
|---|---|---|---|---|---|
| Susceptibility to chocolate spot | AX-416788629 | 1S | 1,126,488,632 | 1.10E−06 | 2.4 |
| AX-181482207 | 1S | 189,966,542 | 1.89E−06 | 1.4 | |
| AX-416797900 | 5 | 512,151,958 | 2.63E−06 | 0.5 | |
| Susceptibility to rust cha | AX-416816373 | 1L | 609,902,557 | 2.84E−09 | 0.3 |
| AX-181482848 | 2 | 623,662,818 | 1.15E−07 | 1.5 | |
| AX-416763140 | 2 | 890,099,195 | 3.73E−07 | 0.3 | |
| AX-416742669 | 3 | 23,188,621 | 1.63E−07 | 0.1 | |
| AX-181153730 | 3 | 266,769,997 | 1.62E−07 | 0.2 | |
| Susceptibility to downy mildew cha | AX-416819177 | 1L | 1,030,914,144 | 7.63E−07 | 4.4 |
| AX-181159680 | 1L | 1,502,215,608 | 2.67E−06 | 2.8 | |
| AX-416747244 | 2 | 42,451,531 | 4.52E−19 | 1.0 | |
| AX-416820991 | 2 | 1,683,844,226 | 1.05E−05 | 7.3 | |
| AX-416728514 | 4 | 1,527,172,136 | 8.96E−08 | 2.9 | |
| AX-181460581 | 5 | 1,255,992,674 | 7.70E−08 | 3.2 | |
| AX-181193226 | 6 | 560,591,980 | 6.32E−06 | 1.2 | |
| Susceptibility to downy mildew % | AX-181484321 | 1S | 64,917,771 | 7.51E−11 | 2.8 |
| AX-181463708 | 1L | 1,703,280,330 | 1.98E−06 | 6.3 | |
| AX-416817171 | 2 | 26,807,439 | 3.26E−06 | 0.9 | |
| AX-181189191 | 2 | 880,296,875 | 3.79E−10 | 5.1 | |
| AX-181191536 | 3 | 1,387,296,802 | 6.13E−07 | 6.5 | |
| AX-416735217 | 5 | 602,985,248 | 4.01E−07 | 7.6 | |
| AX-181175083 | 6 | 1,399,261,027 | 6.30E−07 | 1.0 | |
| Plant height | AX-416796020 | 1S | 23,533,826 | 1.94E−08 | 10.8 |
| AX-181446054 | 1L | 1,404,134,788 | 2.90E−08 | 6.0 | |
| AX-181187562 | 2 | 441,935,150 | 7.67E−07 | 2.2 | |
| AX-416787239 | 5 | 605,128,659 | 3.09E−08 | 2.1 | |
| AX-416813291 | 5 | 801,083,781 | 7.66E−06 | 6.0 | |
| AX-416777072 | 6 | 163,296,259 | 2.12E−08 | 0.2 | |
| Lodging | AX-416775708 | 1S | 455,314,558 | 9.75E−06 | 2.4 |
| AX-181197227 | 2 | 480,659,904 | 2.81E−06 | 0.1 | |
| AX-416757116 | 5 | 13,131,678 | 1.07E−07 | 1.2 | |
| AX-416803185 | 5 | 162,933,615 | 7.75E−06 | 4.4 | |
| Earliness of flowering | AX-416722153 | 1S | 922,704,193 | 6.56E−07 | 6.1 |
| AX-416722950 | 3 | 235,822,590 | 6.19E−07 | 0.1 | |
| AX-416824308 | 3 | 1,567,679,832 | 1.24E−09 | 1.0 | |
| AX-181153171 | 5 | 91,387,301 | 3.27E−08 | 1.0 | |
| TGW | AX-416754977 | 1S | 1,016,983,171 | 3.51E−06 | 11.0 |
| AX-416726585 | 1L | 1,060,752,872 | 9.51E−14 | 2.9 | |
| AX-181462618 | 2 | 452,735,554 | 5.21E−06 | 16.7 | |
| AX-181483910 | 4 | 1,216,173,552 | 1.61E−06 | 9.1 | |
| AX-416747467 | 5 | 782,853,817 | 1.22E−06 | 1.0 | |
| AX-416811554 | 6 | 1,348,503,534 | 8.30E−06 | 0.0 | |
| Seed area | AX-181481959 | 1S | 1,318,697,535 | 3.95E−07 | 13.5 |
| AX-416722749 | 1L | 1,014,586,839 | 7.14E−06 | 0.1 | |
| AX-181487107 | 1L | 1,439,666,414 | 1.43E−06 | 8.3 | |
| AX-181193698 | 3 | 484,841,073 | 5.76E−09 | 4.7 | |
| AX-181487700 | 4 | 299,822,811 | 8.65E−08 | 2.8 | |
| AX-181483910 | 4 | 1,216,173,552 | 1.33E−05 | 14.2 | |
| AX-181182248 | 4 | 1,281,997,173 | 5.24E−07 | 2.1 | |
| Seed length | AX-416754977 | 1S | 1,016,983,171 | 4.31E−10 | 6.0 |
| AX-181194033 | 1L | 1,001,211,223 | 6.24E−09 | 2.3 | |
| AX-416780606 | 1L | 1,075,870,570 | 6.01E−10 | 0.8 | |
| AX-181178807 | 3 | 479,477,926 | 1.69E−06 | 19.2 | |
| AX-181487700 | 4 | 299,822,811 | 5.29E−13 | 3.2 | |
| AX-416747267 | 4 | 1,177,761,830 | 8.92E−07 | 16.5 | |
| AX-416789448 | 4 | 1,526,450,873 | 9.10E−06 | 6.5 | |
| Seed width | AX-181481959 | 1S | 1,318,697,535 | 1.66E−06 | 18.8 |
| AX-181170911 | 1L | 1,049,955,413 | 4.59E−07 | 0.2 | |
| AX-181487107 | 1L | 1,439,666,414 | 8.50E−07 | 21.8 | |
| AX-416796690 | 2 | 1,056,170,084 | 1.70E−08 | 3.8 | |
| AX-181193698 | 3 | 484,841,073 | 1.81E−06 | 2.9 | |
| AX-181487700 | 4 | 299,822,811 | 5.44E−09 | 2.8 | |
| AX-416814129 | 4 | 444,381,662 | 4.97E−07 | 13.0 | |
| AX-181483910 | 4 | 1,216,173,552 | 3.32E−06 | 0.4 | |
| AX-181182248 | 4 | 1,281,997,173 | 9.84E−09 | 1.3 |
cha. character, TGW thousand grain weight