Table 4.
Marker-trait associations found for normal and late sown conditions keeping significant threshold p-value at 3.00 (−log10)
| Trait | Marker | Chr | Pos (Mbs) | Allele | MAF | -log10(p) | Marker R2 | |
|---|---|---|---|---|---|---|---|---|
| Days to heading (DH) | NS | S2A_573947917 | 2A | 573.95 | A/G | 0.314 | 3.51 | 0.15 |
| S2B_15783383 | 2B | 15.78 | A/T | 0.253 | 3.38 | 0.12 | ||
| S3D_443442947 | 3D | 443.44 | G/T | 0.079 | 3.33 | 0.13 | ||
| S5D_42549600 | 5D | 42.55 | G/A | 0.365 | 3.56 | 0.15 | ||
| S7B_480230158 | 7B | 480.23 | T/C | 0.057 | 3.06 | 0.1 | ||
| S7D_6002850 | 7D | 6 | C/T | 0.48 | 3.34 | 0.15 | ||
| LS | S1D_416730006 | 1D | 416.73 | T/C | 0.162 | 3.16 | 0.14 | |
| S1D_417084381 | 1D | 417.08 | C/G | 0.193 | 3.13 | 0.11 | ||
| S2A_43211220 | 2A | 43.21 | T/C | 0.252 | 3.22 | 0.14 | ||
| S4A_610095520 | 4A | 610.1 | G/A | 0.115 | 3.29 | 0.14 | ||
| S5B_586352552 | 5B | 586.35 | G/A | 0.497 | 3.36 | 0.15 | ||
| S5D_44161505 | 5D | 44.16 | G/A | 0.288 | 3.31 | 0.13 | ||
| S5D_552389328 | 5D | 552.39 | T/C | 0.185 | 3.29 | 0.13 | ||
| S6A_71077435 | 6A | 71.08 | T/C | 0.353 | 3.17 | 0.15 | ||
| S6B_296392848 | 6B | 296.39 | C/T | 0.121 | 3.27 | 0.13 | ||
| S6B_557614637 | 6B | 557.61 | C/A | 0.382 | 3.44 | 0.11 | ||
| S6B_700058360 | 6B | 700.06 | G/A | 0.113 | 3.58 | 0.15 | ||
| S7A_3066534 | 7A | 3.07 | T/G | 0.306 | 3.08 | 0.12 | ||
| S7A_321565067 | 7A | 321.57 | G/A | 0.066 | 3.05 | 0.12 | ||
| S7A_571203933 | 7A | 571.2 | T/A | 0.104 | 3.13 | 0.13 | ||
| Grain filling duration (GFD) | NS | S1A_48746498 | 1A | 48.75 | T/G | 0.215 | 3 | 0.13 |
| S2B_778750293 | 2B | 778.75 | G/T | 0.155 | 3.37 | 0.14 | ||
| S3B_627922 | 3B | 0.63 | A/G | 0.195 | 3.35 | 0.14 | ||
| S3B_792848261 | 3B | 792.85 | C/T | 0.103 | 3.18 | 0.14 | ||
| S3B_819163184 | 3B | 819.16 | A/C | 0.19 | 3.39 | 0.14 | ||
| S4D_441092051 | 4D | 441.09 | G/A | 0.082 | 3.14 | 0.13 | ||
| S5B_498781903 | 5B | 498.78 | G/A | 0.223 | 3.99 | 0.16 | ||
| S5D_82195139 | 5D | 82.2 | G/A | 0.064 | 3.06 | 0.12 | ||
| S5D_193133124 | 5D | 193.13 | C/G | 0.087 | 3.3 | 0.14 | ||
| S7A_17544272 | 7A | 17.54 | T/C | 0.43 | 3.09 | 0.13 | ||
| S7B_603999358 | 7B | 604 | C/T | 0.053 | 3.59 | 0.16 | ||
| S7D_28710742 | 7D | 28.71 | G/T | 0.052 | 3.03 | 0.1 | ||
| LS | S1B_608238167 | 1B | 608.24 | G/A | 0.141 | 3.18 | 0.15 | |
| S1D_79799048 | 1D | 79.8 | A/T | 0.068 | 4.03 | 0.13 | ||
| S2B_10582115 | 2B | 10.58 | A/C | 0.127 | 3.07 | 0.13 | ||
| S2B_425762009 | 2B | 425.76 | G/T | 0.279 | 3.33 | 0.14 | ||
| S4A_610095520 | 4A | 610.1 | G/A | 0.115 | 3.24 | 0.14 | ||
| S4A_627995501 | 4A | 628 | G/A | 0.274 | 3.4 | 0.14 | ||
| S5A_551669444 | 5A | 551.67 | G/A | 0.17 | 3.13 | 0.13 | ||
| S6B_92246917 | 6B | 92.25 | A/T | 0.456 | 3.58 | 0.14 | ||
| S6B_256489407 | 6B | 256.49 | G/A | 0.08 | 3 | 0.13 | ||
| Plant height (PH) | NS | S3B_824599939 | 3B | 824.6 | C/T | 0.347 | 3.16 | 0.14 |
| S3D_12741374 | 3D | 12.74 | G/T | 0.083 | 3.9 | 0.17 | ||
| S4A_710817792 | 4A | 710.82 | C/T | 0.059 | 4.98 | 0.18 | ||
| S4B_95449920 | 4B | 95.45 | G/A | 0.165 | 3.01 | 0.12 | ||
| S5A_14254129 | 5A | 14.25 | G/A | 0.057 | 4.4 | 0.23 | ||
| S5A_426002537 | 5A | 426 | G/A | 0.23 | 3.48 | 0.14 | ||
| S5A_432036515 | 5A | 432.04 | G/A | 0.142 | 3.28 | 0.12 | ||
| S6A_212352003 | 6A | 212.35 | A/T | 0.072 | 3.65 | 0.16 | ||
| S7A_163318525 | 7A | 163.32 | G/T | 0.057 | 3.2 | 0.1 | ||
| S7A_618498297 | 7A | 618.5 | T/C | 0.148 | 3.09 | 0.09 | ||
| S7A_643002715 | 7A | 643 | G/A | 0.223 | 3.01 | 0.09 | ||
| LS | S1B_687868186 | 1B | 687.87 | A/T | 0.49 | 3.82 | 0.14 | |
| S2A_14756019 | 2A | 14.76 | A/G | 0.055 | 3.52 | 0.13 | ||
| S2A_748204192 | 2A | 748.2 | A/C | 0.358 | 3.3 | 0.12 | ||
| S2B_9131487 | 2B | 9.13 | T/G | 0.054 | 3.03 | 0.11 | ||
| S2B_18494584 | 2B | 18.49 | A/T | 0.088 | 3.07 | 0.11 | ||
| S2B_770220840 | 2B | 770.22 | G/C | 0.446 | 4.21 | 0.16 | ||
| S3B_32471134 | 3B | 32.47 | A/G | 0.487 | 3.16 | 0.12 | ||
| S3B_33202313 | 3B | 33.2 | A/G | 0.29 | 3.51 | 0.13 | ||
| S3B_375363377 | 3B | 375.36 | G/A | 0.051 | 3.86 | 0.14 | ||
| S5A_625839432 | 5A | 625.84 | C/T | 0.055 | 3.58 | 0.14 | ||
| S6A_611557056 | 6A | 611.56 | C/T | 0.253 | 3.37 | 0.1 | ||
| S7A_6229645 | 7A | 6.23 | G/A | 0.089 | 3.68 | 0.14 | ||
| Spikes per plan (SPP) | NS | S5A_593094332 | 5A | 593.09 | G/A | 0.197 | 3.09 | 0.13 |
| S5B_62834860 | 5B | 62.83 | A/G | 0.347 | 3.03 | 0.12 | ||
| S5B_411753477 | 5B | 411.75 | G/C | 0.314 | 3.68 | 0.15 | ||
| S6A_611078199 | 6A | 611.08 | A/C | 0.131 | 3.04 | 0.09 | ||
| S7A_695820062 | 7A | 695.82 | A/G | 0.322 | 3.07 | 0.13 | ||
| S7B_687824893 | 7B | 687.82 | A/G | 0.352 | 3.16 | 0.13 | ||
| S7B_700803008 | 7B | 700.8 | A/G | 0.313 | 3.44 | 0.11 | ||
| LS | S1B_475270285 | 1B | 475.27 | G/T | 0.195 | 3.43 | 0.14 | |
| S2D_72213516 | 2D | 72.21 | G/A | 0.131 | 3.17 | 0.12 | ||
| S2D_73405773 | 2D | 73.41 | C/T | 0.128 | 3.12 | 0.12 | ||
| S2D_74859293 | 2D | 74.86 | C/T | 0.135 | 3.65 | 0.12 | ||
| S4B_663622013 | 4B | 663.62 | C/T | 0.155 | 4.06 | 0.14 | ||
| S7A_69855692 | 7A | 69.86 | G/C | 0.12 | 3.28 | 0.12 | ||
| Grain numbers per spike (GNS) | NS | S3A_730295762 | 3A | 730.3 | T/G | 0.169 | 3.02 | 0.1 |
| S5D_503657305 | 5D | 503.66 | A/G | 0.431 | 3.27 | 0.14 | ||
| S7B_687521301 | 7B | 687.52 | T/C | 0.269 | 3.86 | 0.16 | ||
| LS | S2A_1050029 | 2A | 1.05 | A/G | 0.412 | 3.81 | 0.16 | |
| S2A_575379774 | 2A | 575.38 | C/T | 0.142 | 3.18 | 0.12 | ||
| S2D_12870959 | 2D | 12.87 | C/G | 0.234 | 3.02 | 0.13 | ||
| S6A_615812205 | 6A | 615.81 | T/G | 0.132 | 3.2 | 0.12 | ||
| S6D_137788118 | 6D | 137.79 | G/A | 0.13 | 4.35 | 0.19 | ||
| Thousand kernel weight (TKW) | NS | S1B_526812249 | 1B | 526.81 | G/A | 0.228 | 3.2 | 0.13 |
| S2A_752870462 | 2A | 752.87 | A/G | 0.219 | 3.25 | 0.13 | ||
| S2B_235163611 | 2B | 235.16 | T/G | 0.099 | 3.03 | 0.12 | ||
| S4A_733664972 | 4A | 733.66 | C/T | 0.134 | 3.65 | 0.15 | ||
| S4A_737882127 | 4A | 737.88 | T/G | 0.331 | 3.15 | 0.12 | ||
| S6A_453869891 | 6A | 453.87 | A/G | 0.07 | 3.31 | 0.1 | ||
| S6B_47885327 | 6B | 47.89 | C/T | 0.281 | 3.42 | 0.14 | ||
| S6B_48222896 | 6B | 48.22 | C/T | 0.156 | 3.52 | 0.11 | ||
| S6B_48349083 | 6B | 48.35 | T/C | 0.141 | 3.07 | 0.12 | ||
| S6B_51093265 | 6B | 51.09 | A/C | 0.153 | 3.84 | 0.12 | ||
| S7A_646503003 | 7A | 646.5 | G/A | 0.059 | 3.08 | 0.09 | ||
| S7A_718192191 | 7A | 718.19 | T/C | 0.355 | 3.11 | 0.1 | ||
| S7A_732742920 | 7A | 732.74 | A/G | 0.143 | 3.44 | 0.11 | ||
| S7A_735390023 | 7A | 735.39 | A/G | 0.204 | 3.35 | 0.1 | ||
| LS | S2A_763944016 | 2A | 763.94 | G/A | 0.352 | 3.09 | 0.13 | |
| S3B_220267045 | 3B | 220.27 | G/A | 0.202 | 3.43 | 0.11 | ||
| S3B_577609492 | 3B | 577.61 | A/G | 0.165 | 3.07 | 0.1 | ||
| S5B_648308504 | 5B | 648.31 | C/A | 0.22 | 3.13 | 0.13 | ||
| S6A_453869891 | 6A | 453.87 | A/G | 0.07 | 3.07 | 0.1 | ||
| S6B_680699350 | 6B | 680.7 | C/T | 0.223 | 4.33 | 0.18 | ||
| S7A_720839381 | 7A | 720.84 | T/C | 0.299 | 3.06 | 0.1 | ||
| Grain yield (GY) | NS | S1A_22415204 | 1A | 22.42 | G/T | 0.232 | 3.04 | 0.13 |
| S1B_465548215 | 1B | 465.55 | A/C | 0.169 | 3.1 | 0.13 | ||
| S1D_351086570 | 1D | 351.09 | C/T | 0.421 | 3.29 | 0.14 | ||
| S2B_43278561 | 2B | 43.28 | T/C | 0.076 | 3.54 | 0.12 | ||
| S2B_79870855 | 2B | 79.87 | G/A | 0.107 | 3.68 | 0.12 | ||
| S2B_753442043 | 2B | 753.44 | G/C | 0.439 | 3.18 | 0.13 | ||
| S3A_661975132 | 3A | 661.98 | C/A | 0.129 | 3.02 | 0.12 | ||
| S3B_285767866 | 3B | 285.77 | C/T | 0.247 | 3.09 | 0.14 | ||
| S3B_697598464 | 3B | 697.6 | C/A | 0.18 | 3.4 | 0.14 | ||
| S5B_310279281 | 5B | 310.28 | C/A | 0.084 | 3.03 | 0.12 | ||
| S6A_340738287 | 6A | 340.74 | T/C | 0.326 | 3.2 | 0.13 | ||
| S6D_3422539 | 6D | 3.42 | G/A | 0.138 | 4.36 | 0.19 | ||
| S6D_6070376 | 6D | 6.07 | T/A | 0.089 | 3.46 | 0.14 | ||
| S7A_720744946 | 7A | 720.74 | G/A | 0.233 | 3.02 | 0.14 | ||
| S7B_608086910 | 7B | 608.09 | C/A | 0.168 | 3.1 | 0.1 | ||
| S7D_4215106 | 7D | 4.22 | G/A | 0.238 | 3.19 | 0.14 | ||
| LS | S1A_14224631 | 1A | 14.22 | C/T | 0.126 | 3.19 | 0.13 | |
| S1B_49723852 | 1B | 49.72 | C/T | 0.178 | 3.22 | 0.13 | ||
| S1B_164107163 | 1B | 164.11 | G/C | 0.365 | 3.59 | 0.14 | ||
| S1B_592939183 | 1B | 592.94 | C/T | 0.133 | 3.58 | 0.16 | ||
| S1D_250212446 | 1D | 250.21 | T/C | 0.292 | 3 | 0.12 | ||
| S1D_450556479 | 1D | 450.56 | A/G | 0.107 | 4.45 | 0.15 | ||
| S2A_488411487 | 2A | 488.41 | T/C | 0.182 | 3.11 | 0.13 | ||
| S2A_748559027 | 2A | 748.56 | T/C | 0.435 | 3.03 | 0.12 | ||
| S2D_21561794 | 2D | 21.56 | G/C | 0.293 | 3.61 | 0.15 | ||
| S2D_22673899 | 2D | 22.67 | G/C | 0.301 | 3.66 | 0.16 | ||
| S3A_21102523 | 3A | 21.1 | T/C | 0.419 | 3.1 | 0.1 | ||
| S5A_129333455 | 5A | 129.33 | C/T | 0.285 | 3.09 | 0.15 | ||
| S6D_471249189 | 6D | 471.25 | A/T | 0.335 | 4.23 | 0.17 | ||
| S7A_268653916 | 7A | 268.65 | T/G | 0.244 | 3.39 | 0.13 | ||
| S7A_511720607 | 7A | 511.72 | G/A | 0.184 | 3.52 | 0.11 | ||
| S7A_512974235 | 7A | 512.97 | C/T | 0.179 | 3.72 | 0.15 | ||
| S7B_700803008 | 7B | 700.8 | A/G | 0.313 | 3.01 | 0.1 |