Table 2. Multitrait QTL detected using data pooled across environments.
| QTL Namea | QTL ID | Chr | Position (cM) |
Peak SNP | CI_LLb | CI_ULc | -log10(P) | Traitsd | AEe | PVEf (%) | HVAg | Detected in single environment analysish |
Detected in multi- environment |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Qmt.tamu.1B.1 | 18 | 1B.1 | 111.4 | IWB37118 | 91.3 | 123.1 | 10.9 | BW, GY, KPS, MSHW, TS, TW |
0.17, 0.23, 0.18, 0.19, 0.24, 3.60 |
3.0, 5.4, 3.3, 3.7, 1.1, 8.0 |
P2, P1, P1, P1, P2, P2 |
Yes: for TW in HY13 and ET13 | No |
| Qmt.tamu.2B.1 | 5 | 2B.1 | 165.5 | IWB43273 | 163.5 | 167.5 | 17.3 | DTH, GFL, GLA, HI, TKW, TW |
0.43, 0.76, 0.63, 0.48, 0.35, 2.15 |
18.4, 57.7, 39.2, 22.9, 12.0, 2.8 |
P1, P1, P1, P2, P2, P2 |
Yes: for GFL and GLA in BS14; HI, GFL, GLA, and GY in CH14; DTH and HI in ET13; DTH, TW, and TKW in HY13 | Yes: for DTH, GFL, GLA, GY, HI, and SPM |
| Qmt.tamu.2B.1.1 | 19 | 2B.1 | 269.3 | IWB70591 | 221.3 | 317.3 | 7.6 | GY, SPM, TKW, TW | 0.19, 0.15, 0.16, 2.96 | 3.5, 2.2, 2.4, 5.2 | P2, P2, P1, P1 | Yes: for GY in ET13 | No |
| Qmt.tamu.2D.3 | 6 | 2D.3 | 1.2 | IWB26013 | 0.0 | 8.4 | 9.9 | DTH, GFL, GLA, TW | 0.27, 0.10, 0.11, 0.42 | 7.5, 1.0, 1.1, 17.7 | P2, P2, P2, P1 | Yes: for TW in ET13, ET14, and HY13; DTH in AB13 | Yes: for TW |
| Qmt.tamu.5A.1 | 8 | 5A.1 | 100.4 | IWB912 | 83.6 | 117.2 | 5.1 | KPM, GY, MSHW, PH, SPM, TKW, TS |
0.19, 0.20, 0.24, 0.15, 0.15, 0.27, 0.30 |
3.7, 4.0, 5.6, 2.2, 2.1, 7.3, 9.0 |
P1, P2, P2, P2, P1, P2, P1 |
Yes: for KPM in BS14 | Yes: for GY |
| Qmt.tamu.5A.2 | 9 | 5A.2 | 17.7 | IWB6809 | 0.0 | 56.4 | 4.9 | GFL, KPM, TKW, TW | 0.09, 0.18, 0.20, 2.19 | 0.8, 3.4, 3.9, 2.8 | P2, P2, P1, P2 | Yes: for TKW in BS14; KPM in CH14; TW in HY13 | Yes: for KPM, KPS, and TKW |
| Qmt.tamu.5B.1 | 11 | 5B | 226.5 | IWB21839 | 201.2 | 251.8 | 7.3 | DTH, GFL, GLA, GY, HI, SPM |
0.16, 0.15, 0.12, 0.26, 0.14, 0.15 |
2.7, 2.4, 1.4, 7.0, 2.0, 2.2 |
P1, P1, P1, P2, P2, P2 |
Yes: for GY in HY13 | Yes: for GY |
| Qmt.tamu.6A.2 | 14 | 6A.2 | 130.7 | IWB26244 | 111.6 | 133.5 | 11.8 | DTH, HI, KPS, MSHW, PH, SPM, TKW, TS, TW |
0.14, 0.23, 0.13, 0.15, 0.25, 0.13, 0.29, 0.17, 3.35 |
1.9, 5.1, 1.6, 2.2, 6.3, 1.7, 8.3, 2.9, 6.9 |
P2, P1, P2, P1, P1, P2, P1, P2, P1 |
Yes: for SPM and TKW in ET13; TKW in ET14; TKW, TW, and PH in HY13 | Yes: for HI, PH, and TKW |
| Qmt.tamu.7A.1 | 16 | 7A.1 | 20.6 | IWB7632 | 2.9 | 38.3 | 4.9 | BW, KPS, PH, TKW | 0.17, 0.18, 0.19, 0.30 | 3.0, 3.3, 3.7, 8.7 | P1, P2, P1, P1 | Yes: GY in ET14; KPS and TKW in HY13 | Yes: for KPS and TKW |
a QTL name including trait, institute, and chromosome location; the chromosome location part is unique for each numbered QTL if the peak positions were less than 40 cM; within each chromosome fragment, different numbered QTL will have various chromosome fragment parts starting from the fragment name, then adding “.1, .2, …”.
b CI_LL, lower limit of QTL confidence interval in centiMorgans.
c CI_UL, upper limit of QTL confidence interval in centiMorgans.
d Abbreviation of traits: GY grain yield, TW test weight, DTH days to heading, PH plant height, HI harvest index, KPM kernels m2, BW biomass weight, SPM spike m2, KPS kernels spike1, MSHW mean single head weight, TKW, thousand kernel weight, TS total stems, GLA green leaf area, GFL greenness of flag leaf
e Additive effects corresponding to each trait in the trait column.
f PVE, phenotypic variance explained (%) corresponding to each trait in the trait column.
g HVA, High value allele corresponding to each trait in the trait column. P1 = CO960293-2, P2 = TAM 111.
h ENV, environment, AB13 Aberdeen 2013, BS14 Bushland 2014, CH14 Chillicothe 2014, ET13 Etter 2013, ET14 Etter 2014, HY13 Hays 2013, HY14 Hays 2014.