Table 3. Marker-traits association based on SNP-GWAS identified in water-limited conditions.
| P valued | ||||||||
|---|---|---|---|---|---|---|---|---|
| Traita | Marker | Chr | MAFb | Positionc | WW | WL | DIFF | Co-localizatione |
| CCI | IWB9746 | 1A | 0.22 | 551050619 | 1.52E-05 | |||
| CCI | IWB72768 | 3A | 0.10 | 4352727 | 6.01E-05 | 7.78E-81 | ||
| CCI | IWB21984 | 3B | 0.09 | 39603457 | 9.05E-06 | |||
| CCI | IWB63113 | 3B | 0.40 | 611176702 | 2.36E-08 | 4.67E-13 | ||
| CCI | IWB6756 | 4A | 0.30 | 24757405 | 1.58E-05 | |||
| CCI | IWB41634 | 5D | 0.34 | 544614652 | 9.41E-09 | 2.52E-05 | ||
| CCI | IWB45289 | 7A | 0.31 | 607556072 | 7.21E-05 | TaMoc1 | ||
| CCI | IWB27075 | 7D | 0.12 | 627325333 | 2.64E-07 | |||
| Chl | IWB36330 | 1B | 0.39 | 17892275 | 6.96E-04 | 6.31E-12 | ||
| Chl | IWB58640 | 1D | 0.17 | 206310986 | 5.88E-04 | |||
| Chl | IWA4651 | 4B | 0.19 | 725661138 | 7.30E-04 | |||
| Chl | IWB28688 | 4D | 0.50 | 2306721 | 3.94E-04 | |||
| Chl | IWB1744 | 5A | 0.27 | 534083687 | 7.68E-04 | 1.36E-20 | ||
| Chl | IWB7864 | 5B | 0.34 | 2559480 | 3.97E-04 | |||
| CT | IWB37531 | 1A | 0.07 | 9556706 | 2.11E-05 | |||
| GS | IWB51237 | 6B | 0.26 | 291778439 | 7.74E-06 | 2.32E-06 | ||
| GS | IWB55521 | 7B | 0.32 | 43880890 | 2.12E-05 | |||
| GY | IWB72112 | 2A | 0.48 | 779818833 | 1.52E-05 | |||
| GY | IWB24186 | 4A | 0.25 | 687548787 | 3.39E-05 | TaCwi-4A | ||
| GY | IWB61578 | 5D | 0.08 | 393057411 | 1.27E-06 | 1.95E-81 | ||
| PH | IWB8266 | 5A | 0.33 | 46232547 | 7.30E-05 | |||
| Proline | IWB61587 | 2A | 0.27 | 5267865 | 4.06E-04 | 2.80E-04 | 3.63E-21 | |
| Proline | IWB48659 | 2B | 0.29 | 664219887 | 6.77E-04 | 1.39E-18 | ||
| Proline | IWA1156 | 7A | 0.23 | 130613253 | 3.84E-04 | 4.46E-04 | ||
| RWC | IWB2303 | 1D | 0.33 | 438369398 | 2.39E-09 | 2.84E-06 | 3.87E-17 | |
| RWC | IWB40605 | 2B | 0.22 | 411517081 | 1.47E-08 | |||
| RWC | IWB31146 | 3B | 0.17 | 409545629 | 5.49E-06 | 2.44E-37 | ||
| RWC | IWB61562 | 3D | 0.39 | 6955053 | 2.01E-05 | |||
| RWC | IWB50770 | 3D | 0.28 | 311662828 | 4.88E-05 | 3.28E-19 | ||
| RWC | IWB53305 | 5B | 0.11 | 327790108 | 6.28E-08 | 1.06E-60 | ||
| RWC | IWB13408 | 6A | 0.07 | 542232293 | 3.94E-06 | |||
| RWC | IWB43804 | 6D | 0.25 | 7104862 | 4.90E-05 | |||
| RWC | IWB43363 | 7A | 0.07 | 705688072 | 2.99E-06 | Hap-7A-RWC1,1.53E-108 | ||
| SDW | IWB75332 | 1D | 0.21 | 325672368 | 2.89E-05 | 1.97E-27 | ||
| SDW | IWB33249 | 5D | 0.42 | 4608766 | 6.47E-05 | 6.26E-07 | ||
| SDW | IWB15529 | 6D | 0.30 | 50743512 | 6.41E-05 | 3.05E-17 | ||
| SFW | IWB11543 | 1A | 0.37 | 512878328 | 6.18E-05 | |||
| SFW | IWA5594 | 3D | 0.12 | 782836300 | 6.64E-05 | |||
| SFW | IWB63863 | 5A | 0.09 | 685991984 | 6.84E-06 | 3.44E-74; AWN | ||
| SFW | IWB59042 | 5B | 0.10 | 220817473 | 2.08E-06 | |||
| SFW | IWB18780 | 6D | 0.40 | 143644031 | 7.58E-07 | 3.73E-12 | ||
| SFW | IWB67174 | 7D | 0.20 | 3924400 | 8.68E-06 | |||
| SL | IWB48031 | 1B | 0.34 | 49886407 | 1.98E-04 | |||
| SL | IWA4073 | 1D | 0.27 | 8726971 | 8.93E-04 | 8.14E-21 | ||
| SL | IWB48188 | 2A | 0.26 | 776290034 | 1.81E-04 | |||
| SL | IWB61861 | 2B | 0.27 | 69014963 | 6.41E-04 | |||
| SL | IWB55762 | 6A | 0.10 | 615780928 | 3.14E-04 | |||
| SL | IWB14155 | 6B | 0.14 | 715704473 | 7.52E-04 | |||
| SL | IWA1949 | 7A | 0.31 | 53051117 | 8.78E-04 | |||
| SL | IWB6450 | 7A | 0.31 | 712309084 | 7.54E-04 | 6.65E-17 | ||
| SOD | IWB29553 | 3D | 0.09 | 496676602 | 8.98E-05 | |||
| SOD | IWB4492 | 5D | 0.07 | 394102098 | 5.52E-05 | |||
| Sugar | IWB20120 | 1A | 0.07 | 224826985 | 6.45E-05 | 4.54E-04 | ||
| Sugar | IWB53805 | 3A | 0.43 | 513608135 | 3.79E-04 | 2.60E-04 | ||
| Sugar | IWB56874 | 3D | 0.46 | 5889027 | 3.75E-04 | |||
| Sugar | IWB23415 | 5D | 0.20 | 549864711 | 7.83E-04 | |||
| Sugar | IWB70872 | 6A | 0.17 | 545828799 | 2.93E-04 | |||
| TGW | IWB65286 | 2A | 0.18 | 553276150 | 4.03E-04 | TaCwi-A1 | ||
| TGW | IWB6655 | 3A | 0.10 | 657945858 | 3.30E-04 | 7.17E-86 | ||
| TGW | IWB16311 | 3D | 0.25 | 48365010 | 6.51E-04 | |||
| TGW | IWB8919 | 5B | 0.09 | 576923927 | 7.28E-04 | 1.90E-04 | Vrn-B1 | |
| TGW | IWB58464 | 6A | 0.09 | 38453171 | 6.28E-04 | 3.03E-96 | ||
| TGW | IWB15372 | 7D | 0.25 | 559459585 | 3.34E-04 | Hap-7D-TGW1 | ||
| TP | IWB61466 | 1B | 0.34 | 520899317 | 5.04E-04 | 8.57E-16 | ||
| TP | IWA3583 | 2B | 0.12 | 535137547 | 1.59E-04 | 6.75E-66 | ||
| TP | IWB73711 | 3A | 0.22 | 57012959 | 3.09E-04 | |||
| TP | IWB10457 | 4A | 0.24 | 690845337 | 5.98E-04 | 4.70E-26 | ||
| TP | IWB6762 | 5A | 0.13 | 535138119 | 3.50E-04 | Vrn-A1 | ||
a
Chl: chlorophyll contents (mg/g); CCI: chlorophyll content index; CT: Canopy temperature (°C); GS: grains per spike; GY: grain yield (g m-2); PH: plant height (cm); Proline (µmol/g); RWC: relative water contents (%); SDW: shoot dry weight (g); SFW: shoot fresh weight (g); Sugar (µg/g); TGW: thousand grain weight (g); TP: tillers per plant.
b
MAF: Minor allele frequency.
c
Position of SNP based on IWGSC Ref sequence version 1.0 (https://urgi.versailles.inra.fr/blast_iwgsc/blast.php)
d
P-value significance for marker-trait associations in well-watered (WW), water-limited (WL) and difference between well-watered and water-limited (DIFF) conditions.
e
Co-localization of marker-trait associations with divergent selective sweeps (in case of p-value) and/or functional genes.