Table 3 Significant marker trait associations identified across all models and barley lines
QTL | Marker | Chr | Pos | Genotype | Model | LOD | Sig. Thres | MAF | Effect ± SE | R2 | Scale | Inferred Locus | Genotypes from Inferred Locus |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Ptm_QTL1 | 1_153947 | 1 | 153,947 | PI269151 | BLINKPC4+Binary | 5.22 | 0.05 | 0.07 | -0.38 ± 0.08 | 19.70% | Binary | vQTL1ABC | Skiff, TR326, 81–82/033, PI392501 |
Ptm_QTL2 | 1_1198910 | 1 | 1,198,910 | PI573662 | BLINK | 5.26 | 0.05 | 0.10 | -0.29 ± 0.09 | 8.70% | Full |  |  |
Ptm_QTL3 | 1_3793576 | 1 | 3,793,576 | CI9776 | BLINKBinary | 9.35 | 0.01 | 0.13 | -0.53 ± 0.10 | 22.70% | Binary |  |  |
Ptm_QTL4 | 1_4658734 | 1 | 4,658,734 | Kombar | BLINKBinary | 8.71 | 0.01 | 0.02 | -0.83 ± 0.17 | 18.80% | Binary | QTL1ABC | Innovation, Hockett, Lacey, Pinnacle, Quest, Stellar |
Ptm_QTL5 | 1_4837851 | 1 | 4,837,851 | Kombar | BLINKBinary | 5.53 | 0.05 | 0.10 | -0.48 ± 0.09 | 23.00% | Binary |  |  |
|  | 1_4837851 | 1 | 4,837,851 | CI7584 | BLINKBinary | 5.41 | 0.05 | 0.10 | -0.65 ± 0.10 | 28.80% | Binary |  |  |
Ptm_QTL6 | 1_5027390 | 1 | 5,027,390 | PI467375 | BLINKBinary | 6.47 | 0.01 | 0.14 | -0.38 ± 0.08 | 19.50% | Binary |  |  |
Ptm_QTL7 | 2_474724 | 2 | 474,724 | TR250 | BLINK | 7.29 | 0.05 | 0.08 | -0.68 ± 0.13 | 22.70% | Full |  |  |
|  | 2_474724 | 2 | 474,724 | Kombar | BLINKBinary | 5.62 | 0.05 | 0.08 | -0.55 ± 0.09 | 25.90% | Binary |  |  |
|  | 2_481844 | 2 | 481,844 | Chebec | BLINKPC15+Binary | 5.33 | 0.05 | 0.06 | 0.05 ± 0.06 | 0.70% | Binary |  |  |
Ptm_QTL8 | 2_3522060 | 2 | 3,522,060 | PI369731 | BLINK | 8.76 | 0.01 | 0.08 | 0.68 ± 0.12 | 25.20% | Full |  |  |
Ptm_QTL9 | 3_63095 | 3 | 63,095 | PI467729 | BLINK | 8.4 | 0.01 | 0.14 | 0.59 ± 0.11 | 22.20% | Full |  |  |
|  | 3_63095 | 3 | 63,095 | CI9819 | BLINKBinary | 9.41 | 0.01 | 0.14 | -0.63 ± 0.08 | 37.60% | Binary |  |  |
|  | 3_63095 | 3 | 63,095 | MXB468 | BLINKPC4 | 12.3 | 0.01 | 0.14 | 1.22 ± 0.11 | 57.00% | Full |  |  |
|  | 3_63095 | 3 | 63,095 | PI573662 | BLINK | 11.9 | 0.01 | 0.14 | 0.43 ± 0.07 | 24.10% | Full |  |  |
Ptm_QTL10 | 3_494752 | 3 | 494,752 | Chebec | BLINKPC15+Binary | 5.82 | 0.01 | 0.03 | -0.56 ± 0.06 | 43.20% | Binary |  |  |
Ptm_QTL11 | 3_1137083 | 3 | 1,137,083 | CI5791 | BLINKPC15+Binary | 5.07 | 0.05 | 0.10 | -0.08 ± 0.04 | 3.70% | Binary |  |  |
Ptm_QTL12 | 3_1659917 | 3 | 1,659,917 | CI3576 | BLINK | 5.7 | 0.01 | 0.08 | 1.32 ± 0.17 | 37.60% | Full |  |  |
Ptm_QTL13 | 3_3029308 | 3 | 3,029,308 | CIho4050 | BLINKPC4 | 5.01 | 0.05 | 0.11 | -0.36 ± 0.09 | 13.50% | Full |  |  |
|  | 3_3029419 | 3 | 3,029,419 | CIho4050 | BLINKPC4 | 5.01 | 0.05 | 0.11 | -0.36 ± 0.09 | 13.50% | Full |  |  |
|  | 3_3029420 | 3 | 3,029,420 | CIho4050 | BLINKPC4 | 5.01 | 0.05 | 0.11 | -0.36 ± 0.09 | 13.50% | Full |  |  |
Ptm_QTL14 | 3_4245269 | 3 | 4,245,269 | TR326 | BLINKPC4+Binary | 10.66 | 0.01 | 0.02 | -0.58 ± 0.12 | 18.20% | Binary | QTL3B | Stellar, Lacey |
|  | 3_4247579 | 3 | 4,247,579 | PI498434 | BLINKPC4+Binary | 9.69 | 0.01 | 0.03 | -0.61 ± 0.11 | 22.90% | Binary | QTL3B | Stellar, Lacey |
Ptm_QTL15 | 3_4268498 | 3 | 4,268,498 | CI9214 | BLINK | 9.62 | 0.01 | 0.19 | -0.42 ± 0.08 | 20.20% | Full | QTL3B | Stellar, Lacey |
Ptm_QTL16 | 4_1832576 | 4 | 1,832,576 | PI573662 | BLINK | 5.31 | 0.05 | 0.03 | 0.18 ± 0.14 | 1.40% | Full |  |  |
Ptm_QTL17 | 4_2772570 | 4 | 2,772,570 | PI467729 | BLINK | 6.34 | 0.01 | 0.03 | 0.79 ± 0.20 | 13.10% | Full |  |  |
Ptm_QTL18 | 4_2863635 | 4 | 2,863,635 | PI565826 | BLINKPC15 | 5.02 | 0.05 | 0.02 | -0.17 ± 0.31 | 0.30% | Full |  |  |
Ptm_QTL19 | 5_186459 | 5 | 186,459 | TR326 | BLINKPC4+Binary | 5.21 | 0.05 | 0.03 | -0.34 ± 0.12 | 6.90% | Binary |  |  |
Ptm_QTL20 | 5_516326 | 5 | 516,326 | CI9214 | BLINK | 5.13 | 0.05 | 0.07 | 0.31 ± 0.13 | 5.60% | Full |  |  |
Ptm_QTL21 | 5_2662282 | 5 | 2,662,282 | PI498434 | BLINKPC4+Binary | 6.11 | 0.01 | 0.01 | -0.42 ± 0.15 | 7.50% | Binary | vQTL3 | Skiff |
Ptm_QTL22 | 5_3532773 | 5 | 3,532,773 | CIho3694 | BLINK | 6.95 | 0.01 | 0.07 | -0.57 ± 0.16 | 11.60% | Full |  |  |
Ptm_QTL23 | 8_1149348 | 8 | 1,149,348 | Chebec | BLINKPC15+Binary | 13.6 | 0.01 | 0.03 | -0.10 ± 0.08 | 1.40% | Binary |  |  |
Ptm_QTL24 | 8_1808397 | 8 | 1,808,397 | CIho3694 | BLINK | 9.62 | 0.01 | 0.09 | 0.82 ± 0.11 | 27.90% | Full |  |  |
Ptm_QTL25 | 10_1598365 | 10 | 1,598,365 | TR250 | BLINK | 5.37 | 0.05 | 0.31 | 0.07 ± 0.11 | 0.40% | Full |  |  |
Ptm_QTL26 | 11_309227 | 11 | 309,227 | Kombar | BLINKBinary | 6.49 | 0.01 | 0.03 | 0.23 ± 0.16 | 2.00% | Binary |  |  |
Ptm_QTL27 | 11_393533 | 11 | 393,533 | Chebec | BLINKPC15+Binary | 10.41 | 0.01 | 0.03 | -0.41 ± 0.07 | 22.80% | Binary |  |  |
Ptm_QTL28 | 11_760041 | 11 | 760,041 | TR250 | BLINK | 6.94 | 0.01 | 0.06 | 0.67 ± 0.15 | 16.50% | Full |  |  |
Ptm_QTL29 | 11_1735066 | 11 | 1,735,066 | PI573662 | BLINK | 5.71 | 0.01 | 0.02 | -0.47 ± 0.17 | 6.50% | Full |  |  |
Ptm_QTL30 | 11_1834542 | 11 | 1,834,542 | CI3576 | BLINK | 8.99 | 0.01 | 0.17 | 1.14 ± 0.12 | 45.40% | Full |  |  |
|  | 1_4243533 | 1 | 4,243,533 | PI467375 | BLINKBinary | 4.89 | N/A | 0.05 | -0.53 ± 0.11 | 18.80% | Binary |  |  |
Ptm_QTL6 | 1_5027390 | 1 | 5,027,390 | CI9819 | BLINKBinary | 4.92 | N/A | 0.14 | -0.54 ± 0.09 | 27.20% | Binary |  |  |
|  | 3_4383898 | 3 | 4,383,898 | CI7584 | BLINKBinary | 4.91 | N/A | 0.26 | 0.49 ± 0.09 | 24.50% | Binary |  |  |
|  | 6_1258294 | 6 | 1,258,294 | Keel | BLINKPC4 | 4.93 | N/A | 0.14 | 0.32 ± 0.09 | 10.20% | Full |  |  |