Table 2.
Significant SNP markers, with QTL map positions
| Trait | SNP | Chrom | Position | Interval (nra) | −log10 (fp) | % σg2 | Effect | s.e. |
|---|---|---|---|---|---|---|---|---|
| Yield | 11_10191 | 2H | 63.53 | 63.53 (3) | 3.15 | 8.29 | 0.18 | 0.05 |
| 11_11348 | 7H | 70.4 | 70.4 (1) | 3.26 | 10.99 | 0.14 | 0.04 | |
| 11_11445 | 7H | 84.92 | 84.92 (1) | 3.05 | 10.46 | −0.12 | 0.04 | |
| Heading date | 11_10357 | 1H | 100.69 | 100.69 (1) | 3.07 | 6.84 | 1.78 | 0.53 |
| 11_20438 | 2H | 63.53 | 63.53 (9) | 4.95 | 10.91 | −3.70 | 0.84 | |
| 11_20366 | 2H | 128.26 | 128.26 (1) | 3.11 | 6.88 | 2.11 | 0.59 | |
| 11_11401 | 3H | 58.01 | 58.01 (1) | 3.42 | 7.07 | 1.84 | 0.55 | |
| 11_11090 | 5H | 132.63 | 132.63 (1) | 3.32 | 6.60 | 2.59 | 0.74 | |
| Harvest index Height | 11_20603 | 1H | 135.56 | 135.56 (1) | 3.27 | 11.00 | −0.52 | 0.16 |
| 11_10191 | 2H | 63.53 | 63.53 (3) | 3.64 | 10.38 | 0.98 | 0.27 | |
| 11_10918 | 3H | 123.68 | 123.68 (1) | 2.95 | 12.68 | 0.52 | 0.16 | |
| 11_10376 | 2H | 131.77 | 131.77 (1) | 3.39 | 8.05 | 1.53 | 0.43 | |
| 11_20894 | 5H | 2.09 | 2.09 (1) | 2.91 | 6.09 | −1.68 | 0.52 | |
| Thousand kernel weight Grains per spike | 11_10796 | 2H | 58.24 | 58.24 (3) | 4.21 | 9.86 | −2.18 | 0.54 |
| 11_10213 | 2H | 86.63 | 86.63 (1) | 3.08 | 5.21 | −1.50 | 0.45 | |
| 11_20680 | 4H | 26.19 | 24.59–26.19 (2) | 3.49 | 6.85 | 2.25 | 0.62 | |
| 11_20121 | 1H | 75.45 | 75.45 (1) | 2.94 | 8.88 | 1.36 | 0.42 | |
| 11_10436 | 2H | 62.82 | 62.82 (1) | 3.16 | 9.01 | 2.06b | 0.61 | |
| 11_10287 | 2H | 85.92 | 82.75–86.63 (3) | 4.85 | 14.86 | 2.28 | 0.52 | |
| 11_21453 | 2H | 155.3 | 155.3 (2) | 3.28 | 8.89 | −1.36 | 0.39 | |
| 11_20422 | 4H | 24.59 | 24.59–26.19 (8) | 14.35 | 41.35 | 4.15 | 0.53 | |
| 11_20610 | 4H | 54.25 | 54.25–54.98 (3) | 3.42 | 10.42 | 1.95 | 0.55 | |
| 11_20732 | 4H | 92.38 | 92.38 (1) | 4.08 | 14.69 | −1.57 | 0.39 | |
| Spikes per m2 | 11_20422 | 4H | 24.59 | 24.59–26.19 (5) | 4.93 | 29.52 | −20.8 | 4.74 |
| 11_20553 | 5H | 2.81 | 2.81 (1) | 3.14 | 12.38 | 10.54 | 3.12 |
Number of significant SNP markers and a genetic position range is provided when more than one significant SNP was present. −log10 (p value), percentage of explained genetic variance (σ2g), effect size and standard error of the effect are shown only for the most significant marker within the interval
aNumber of significant SNP markers within the positive interval
bSNPs not in phase with neighbour SNPs linked to QTL for other yield components traits. Direction of genetic effects is based on the base calling of the individual SNPs, which does not necessarily reflect the haplotypes linked to the causal variants