Table 3.
Genome-wide significant association signals of agronomic traits using the linear and compressed MLM
| Traits | Ch | Position | Major allele (Count) | Minor allele (Count) | MAFa | R2 | P value | Known Loci (Reference) |
|---|---|---|---|---|---|---|---|---|
| Pericarp color | 7 | 6068072 | A(95) | G(41) | 0.30 | 0.465 | 3.05E-19 | Rc(46) |
| 6 | 21304669 | T(93) | C(43) | 0.32 | 0.286 | 4.87E-11 | ||
| 3 | 3640060 | G(116) | A(13) | 0.12 | 0.268 | 2.48E-10 | ||
| 5 | 11479616 | C(108) | T(26) | 0.20 | 0.255 | 7.57E-10 | ||
| Amylose content | 6 | 1765761 | G(73) | T(61) | 0.46 | 0.555 | 5.55E-09 | Wx(21) |
| Protein content | 7 | 24810573 | A(77) | G(59) | 0.43 | 0.348 | 1.14E-06 | |
| 2 | 26791708 | C(110) | T(25) | 0.19 | 0.347 | 1.27E-06 | ||
| 6 | 18133739 | G(93) | A(42) | 0.31 | 0.339 | 2.15E-06 | ||
| Panicle number | 3 | 30877559 | C(128) | T(9) | 0.07 | 0.404 | 3.13E-08 | |
| 9 | 7760141 | C(128) | T(() | 0.07 | 0.386 | 1.09E-07 |
aMinor allele frequency