Table 2.
List of markers-trait associations identified for osmotic stress and control condition by at least two GWAS methods.
| Trait | Condition | Marker | Chr | Position | Method | p-value (FDR) | PVE% | LD block |
|---|---|---|---|---|---|---|---|---|
| Max.NR-PEG | Osmotic stress | BOPA2_12_30275 | 2H | 475,258,998 | BLINK | 1.30E-03 | 5.63 | LD Block 2H - 370 |
| FarmCPU | 2.30E-02 | 9.59 | ||||||
| Net.Area | Control | JHI-Hv50k-2016-464245 | 7H | 55,410,960 | BLINK | 4.69E-03 | 7.06 | LD Block 7H - 243 |
| FarmCPU | 2.14E-02 | 5.34 | ||||||
| Net.Area-PEG | Osmotic stress | JHI-Hv50k-2016-93675 | 2H | 402,933,731 | BLINK | 2.46E-02 | 4.73 | LD Block 2H - 354 |
| FarmCPU | 2.18E-03 | 2.69 | ||||||
| JHI-Hv50k-2016-187836 | 3H | 477,631,357 | BLINK | 3.85E-04 | 10.1 | - | ||
| FarmCPU | 8.04E-07 | 8.55 | ||||||
| Net.Con.A-PEG | Osmotic stress | BOPA2_12_10166 | 1H | 437,092,173 | BLINK | 4.00E-05 | 8.04 | - |
| FarmCPU | 4.31E-07 | 7.56 | ||||||
| JHI-Hv50k-2016-228324 | 4H | 6,499,257 | BLINK | 1.66E-02 | 2.15 | LD Block 4H - 43 | ||
| 6,500,571 | FarmCPU | 2.53E-05 | 5.33 | |||||
| Net.Dep-PEG | Osmotic stress | JHI-Hv50k-2016-77039 | 2H | 39,484,827 | BLINK | 1.44E-06 | 8.23 | - |
| FarmCPU | 6.21E-03 | 7.07 | ||||||
| JHI-Hv50k-2016-250777 | 4H | 499,577,241 | BLINK | 4.05E-02 | 0.87 | - | ||
| FarmCPU | 3.11E-04 | 3.67 | ||||||
| Net.Len | Control | JHI-Hv50k-2016-93361 | 2H | 388,503,654 | BLINK | 2.56E-02 | 3.25 | - |
| FarmCPU | 4.07E-02 | 9.02 | ||||||
| Net.Len.Dis-PEG | Osmotic stress | JHI-Hv50k-2016-382108 | 6H | 32,581,204 | BLINK | 2.52E-02 | 3.24 | LD Block 6H - 159 |
| FarmCPU | 2.51E-02 | 8.94 | ||||||
| Net.Len-PEG | Osmotic stress | SCRI_RS_154135 | 2H | 647,527,751 | BLINK | 9.47E-03 | 5.48 | LD Block 2H - 866 |
| FarmCPU | 9.22E-02 | 5.26 | ||||||
| JHI-Hv50k-2016-187836 | 3H | 477,631,357 | BLINK | 5.14E-04 | 8.24 | - | ||
| FarmCPU | 4.35E-03 | 9.4 | ||||||
| Net.Solid-PEG | Osmotic stress | JHI-Hv50k-2016-260522 | 4H | 566,353,428 | BLINK | 2.46E-03 | 11.38 | LD Block 4H - 487 |
| Net.Width | Control | JHI-Hv50k-2016-317067 | 5H | 489,074,858 | BLINK | 6.61E-02 | 9.67 | - |
| FarmCPU | 1.01E-04 | 9.35 | ||||||
| RDW | Control | JHI-Hv50k-2016-413564 | 6H | 502,948,428 | BLINK | 8.00E-04 | 1.88 | LD Block 6H – 488 |
| FarmCPU | 1.73E-02 | 2.79 | ||||||
| RDW-PEG | Osmotic stress | JHI-Hv50k-2016-277549 | 5H | 2,137,151 | BLINK | 1.04E-03 | 1.63 | LD Block 5H - 13 |
| JHI-Hv50k-2016-277552 | 2,137,666 | FarmCPU | 2.65E-04 | 1.79 | ||||
| RFW | Control | JHI-Hv50k-2016-311308 | 5H | 464,498,212 | BLINK | 1.62E-02 | 3.53 | LD Block 5H - 449 |
| FarmCPU | 6.03E-03 | 3.48 | ||||||
| RFW-PEG | Osmotic stress | BOPA2_12_10554 | 6H | 14,517,119 | BLINK | 4.12E-03 | 1 | – |
| FarmCPU | 3.48E-03 | 1.22 | ||||||
| RSR-PEG | Osmotic stress | JHI-Hv50k-2016-247715 | 4H | 466,110,916 | BLINK | 2.25E-03 | 22.69 | – |
| FarmCPU | 3.85E-03 | 4.45 | ||||||
| RSR-PEG/Control-ratio | Ratio | JHI-Hv50k-2016-250905 | 4H | 500,121,703 | GAPIT | 9.89E-02 | 1.83 | LD Block 4H - 345 |
| JHI-Hv50k-2016-250920 | 500,270,838 | BLINK | 3.30E-04 | 2.06 | ||||
| FarmCPU | 3.58E-04 | 2.13 | ||||||
| GAPIT | 9.89E-02 | 0.27 | ||||||
| JHI-Hv50k-2016-317209 | 5H | 489,458,348 | BLINK | 4.35E-03 | 4.06 | – | ||
| FarmCPU | 3.61E-02 | 1.35 | ||||||
| RWC-PEG | Osmotic stress | JHI-Hv50k-2016-153756 | 3H | 8,583,074 | BLINK | 1.44E-07 | 8.8 | – |
| FarmCPU | 3.56E-03 | 8.57 | ||||||
| GAPIT | 2.73E-02 | 7.9 | ||||||
| SDW | Control | JHI-Hv50k-2016-518088 | 7H | 626,758,933 | BLINK | 7.49E-02 | 3.48 | – |
| FarmCPU | 9.79E-02 | 1.37 | ||||||
| SDW-PEG | Osmotic stress | JHI-Hv50k-2016-273264 | 4H | 604,203,108 | BLINK | 2.24E-06 | 0.58 | – |
| FarmCPU | 1.51E-03 | 0.56 | ||||||
| GAPIT | 1.25E-02 | 0.52 | ||||||
| JHI-Hv50k-2016-512739 | 7H | 615,801,734 | FarmCPU | 1.51E-03 | 14.71 | – | ||
| GAPIT | 3.89E-02 | 13.73 | ||||||
| SFW-PEG | Osmotic stress | BOPA2_12_30191 | 1H | 485,117,907 | BLINK | 5.64E-02 | 15.01 | – |
| FarmCPU | 9.53E-02 | 14.48 | ||||||
| JHI-Hv50k-2016-273264 | 4H | 604,203,108 | BLINK | 2.09E-07 | 1.34 | – | ||
| FarmCPU | 2.68E-04 | 1.3 | ||||||
| JHI-Hv50k-2016-417034 | 6H | 523,026,467 | BLINK | 1.85E-02 | 0.53 | LD Block 6H - 552 | ||
| FarmCPU | 1.32E-02 | 0.33 | ||||||
| TotalBio-PEG | Osmotic stress | JHI-Hv50k-2016-82606 | 2H | 70,465,843 | BLINK | 2.30E-03 | 4.54 | LD Block 2H - 247 |