Table 4.
QTLs for agronomic, biofortification and disease resistance traits in the MAGIC Plus population.
| Trait | QTL | Peak SNP | Chr | Position (kb) | -log (p-Value) | PVE (%) | Environment |
|---|---|---|---|---|---|---|---|
| DF | qDF3.1 | S3_1796079 | 3 | 1002–1796 | 4.7 | 14.9, 12.4 | E1, E2 |
| qDF6.1 | S6_2962502 | 6 | 2963 | 3.3 | 9.3 | E2 | |
| qDF6.2 | S6_12197939 | 6 | 12198 | 3.8 | 11.8,10.0 | E1, E2 | |
| qDF8.1 | S8_4697108 | 8 | 4697 | 3.3 | 10.1 | E2 | |
| qDF8.2 | S8_7600625 | 8 | 7601 | 3.3 | 10.4 | E2 | |
| qDF9.1 | S9_6951509 | 9 | 6952 | 3.3 | 9.2, 8.5 | E1, E2 | |
| qDF10.1 | S10_18851296 | 10 | 18116–19895 | 4.3 | 13 | E1 | |
| PH (cm) | qPH1.1 | S1_38423736 | 1 | 37162–38997 | 8.2 | 29.6, 19.0, 17.0, 20.4 | E1, E2, E3, E4 |
| qPH5.1 | S5_5654614 | 5 | 5448–5848 | 4.1 | 12.5, 10.3 | E1, E2 | |
| qPH8.1 | S8_4090648 | 8 | 4091–6230 | 4.6 | 14.1 | E2 | |
| qPH12.1 | S12_18006609 | 12 | 18017 | 4.7 | 14.6 | E2 | |
| NT | qNT8.1 | S8_7600625 | 8 | 7601 | 4.1 | 12.5 | E1 |
| NP | qNP1.1 | S1_6708268 | 1 | 5657–6788 | 3.7 | 11 | E2 |
| PL (cm) | qPL1.1 | S1_7082709 | 1 | 7083 | 3.7 | 10.6 | E2 |
| qPL2.1 | S2_24680686 | 2 | 24.681–25077 | 3.8 | 11.1 | E1 | |
| qPL5.1 | S5_1200965 | 5 | 1201 | 4.1 | 12.7 | E1 | |
| qPL8.1 | S8_4697108 | 8 | 4697–5217 | 5.9 | 18.8 | E2 | |
| qPL11.1 | S11_22311064 | 11 | 22069–22311 | 3.8 | 11.6 | E2 | |
| FG | qFG5.1 | S5_365928 | 5 | 163–411 | 3.8 | 11.4 | E1 |
| qFG7.1 | S7_3494228 | 7 | 3494–3609 | 3.3 | 9.5 | E2 | |
| GL (mm) | qGL2.1 | S2_35133297 | 2 | 35133 | 3.4 | 9.9 | E2 |
| qGL3.1 | S3_16840727 | 3 | 14528–17044 | 9.3 | 32.2, 33.3 | E1, E2 | |
| GW (mm) | qGW2.1 | S2_30785672 | 2 | 28899–30785 | 3.5 | 10.8 | E2 |
| qGW3.1 | S3_34200598 | 3 | 33986–34201 | 3.8 | 11.1, 8.43 | E1, E2 | |
| qGW11.1 | S11_24295017 | 11 | 24295–24398 | 3.4 | 9.9, 12.3 | E1, E2 | |
| TGW (g) | qTGW3.1 | S3_20691702 | 3 | 20692 | 3.3 | 9.6 | E2 |
| YLD (Kg/ha) | qYLD2.1 | S2_10083985 | 2 | 9976–10084 | 3.7 | 12.2 | E3 |
| qYLD2.2 | S2_35265874 | 2 | 35266 | 4.0 | 11.8 | E2 | |
| qYLD4.1 | S4_20359349 | 4 | 20359–20468 | 3.5 | 10.7 | E4 | |
| qYLD7.1 | S7_81373 | 7 | 45–134 | 3.6 | 10.9 | E4 | |
| Fe (ppm) | qFe3.1 | S3_13026098 | 3 | 12926–13026 | 3.3 | 9.9 | E4 |
| qFe3.2 | S3_29613916 | 3 | 28530–29663 | 3.3 | 9.5 | E3 | |
| qFe7.1 | S7_29288449 | 7 | 29281–29288 | 3.4 | 10 | E1 | |
| qFe9.1 | S9_11707990 | 9 | 11707–11930 | 3.8 | 10.9 | E1 | |
| qFe9.2 | S9_22203582 | 9 | 22186–22415 | 4.5 | 13.7 | E1 | |
| qFe10.1 | S10_13883426 | 10 | 13883–14678 | 3.3 | 9.5,11.6 | E2, E4 | |
| qFe11.1 | S11_7122972 | 11 | 7123 | 3.3 | 9.3 | E3 | |
| Zn (ppm) | qZn1.1 | S1_2636746 | 1 | 2637 | 3.3 | 9.4 | E4 |
| qZn2.1 | S2_29206428 | 2 | 28727–29206 | 3.8 | 11.6 | E2 | |
| qZn4.1 | S4_22026522 | 4 | 22027–23200 | 3.2 | 9.2, 9.5 | E2, E4 | |
| qZn6.1 | S6_217858 | 6 | 218 | 3.4 | 10.4 | E3 | |
| qZn6.2 | S6_2939487 | 6 | 2785–2963 | 3.8 | 10.9, 10.4 | E2, E3 | |
| qZn7.1 | S7_29350591 | 7 | 29288–29624 | 4.1 | 10.1, 13.7, 11.2, 13.75 | E1, E2, E3, E4 | |
| qZn12.1 | S12_22528624 | 12 | 22529–24056 | 3.3 | 10.1, 9.8 | E1, E2 | |
| PXO61 | qBLB11.1 | S11_27496928 | 11 | 20064–28967 | 18.4 | 24.6 | GH |
| PXO99 | qBLB11.1 | S11_27183806 | 11 | 27176–28920 | 5.2 | 14.3 | GH |
| PXO341 | q BLB11.1 | S11_28870403 | 11 | 20064–28967 | 17.4 | 62 | GH |
| PXO86 | qBLB5.1 | S5_475895 | 5 | 79–1224 | 8.1 | 24.6 | GH |
| Blast | qBlast1.1 | S1_12361598 | 1 | 12350–12362 | 3.6 | 10 | GH |
| qBlast1.2 | S1_13333611 | 1 | 13334–13798 | 3.3 | 8.8 | GH | |
| qBlast2.1 | S2_35794171 | 2 | 35357–35794 | 3.9 | 11.9 | GH | |
| qBlast6.1 | S6_28930159 | 6 | 28927–28930 | 3.4 | 9.2 | GH | |
| qBlast7.1 | S7_7542380 | 7 | 7542 | 3.0 | 9.2 | GH | |
| qBlast8.1 | S8_233996 | 8 | 234 | 3.8 | 10.4 | GH | |
| qBlast8.2 | S8_6212298 | 8 | 6212 | 3.9 | 10.6 | GH | |
| qBlast9.1 | S9_9917128 | 9 | 9675–9917 | 3.6 | 8.3 | GH | |
| qBlast9.2 | S9_10480792 | 9 | 10161–11269 | 3.1 | 9.8 | GH | |
| qBlast10.1 | S10_22628151 | 10 | 21804–22628 | 4.0 | 13.2 | GH | |
| qBlast11.1 | S11_5457506 | 11 | 5458 | 3.3 | 9.6 | GH | |
DF, days to 50% flowering; PH, plant height (cm); NT, number of tillers; NP, number of panicles; PL, panicle length (cm); GL, grain length (mm); GW, grain width (mm); FG, number of filled grains; TGW, thousand grain weight (g); YLD, grain yield (Kg/ha); Fe, iron (ppm); Zn, zinc (ppm); QTL, quantitative trait loci; kb, kilobase; SNP, single nucleotide polymorphism; PVE, phenotypic variance explained (%); Chr, chromosome; GH, green house; E, denotes environments.