Table 3.
The estimated heritability and predicted genetic effects of all detected significant SNP loci for four yield traits.
| Trait | QTS | Chr. | Allele | Effect type | Effect size | −log 10(P) | h 2(%) | (%) |
|---|---|---|---|---|---|---|---|---|
| GYD | rs8203251 | 4 | C/T | a | −1.54 | 12.43 | 10.91 | 43.06 |
| ae1 | −0.65 | 1.62 | 1.91 | |||||
| ae2 | 0.64 | 1.61 | ||||||
| rs26662491 | 5 | A/C | a | −1.04 | 6.09 | 5.02 | ||
| rs5137246 | 6 | T/G | a | 1.19 | 7.76 | 6.56 | ||
| rs26302731 | 6 | G/A | a | −1.42 | 10.75 | 9.34 | ||
| rs12354751 | 9 | A/G | a | −0.93 | 4.98 | 4.01 | ||
| rs17926420 | 12 | C/A | a | −1.07 | 6.4 | 5.31 | ||
| NP | rs28989077 | 3 | C/T | a | −0.83 | 20.65 | 18.54 | 43.35 |
| rs20829501 | 7 | C/T | a | −0.65 | 13.01 | 11.39 | ||
| rs20270326 | 9 | T/C | a | −0.44 | 6.23 | 5.12 | ||
| rs9429313 | 10 | A/C | a | −0.47 | 7.16 | 5.98 | ||
| rs20829501 & rs9429313 | 7 & 10 | C/T & A/C | aa | 0.29 | 3.12 | 2.32 | ||
| NFGP | rs41315645 | 1 | G/A | a | 6.31 | 9.7 | 8.16 | 44.40 |
| rs27878540 | 3 | C/T | a | 4.31 | 4.87 | 3.82 | ||
| rs29922937 | 3 | A/T | a | 6.45 | 10.1 | 8.53 | ||
| rs31992782 | 4 | A/T | a | −4.6 | 5.45 | 4.33 | ||
| rs645267 | 5 | A/G | a | −5.57 | 7.7 | 6.35 | ||
| rs24646393 | 6 | G/A | a | 4.23 | 4.7 | 3.67 | ||
| rs23681930 | 11 | C/T | a | 5.83 | 8.38 | 6.96 | ||
| rs645267 & rs23681930 | 5 & 11 | A/G & C/T | aa | 3.55 | 3.47 | 2.58 | ||
| GW | rs7115540 | 1 | C/T | a | −0.49 | 7.09 | 5.43 | 48.36 |
| rs12778614 | 2 | A/T | a | −0.44 | 5.93 | 4.45 | ||
| rs18572583 | 3 | T/C | a | −0.82 | 18.52 | 15.19 | ||
| rs13250114 | 5 | A/C | a | −0.5 | 7.4 | 5.69 | ||
| rs23416877 | 6 | G/A | a | −0.54 | 8.64 | 6.74 | ||
| rs2377773 | 11 | C/T | a | −0.46 | 6.43 | 4.87 | ||
| rs25458920 | 12 | T/C | a | 0.51 | 7.76 | 5.99 |
QTS = the detected significant SNPs associated with the yield and yield components traits; Chr. = chromosome; Allele = paternal allele/maternal allele; a = additive effect for paternal allele homozygotes (QQ, ZH9308), ae = additive by environmental interaction effect, aa = additive by additive epistasis effect; −log 10(P) = inverse of the base 10 logarithm of p value; h 2(%) = heritability in percentage due to the genetic component effect; (%) = total heritability equal to summation of heritabilities of all individual QTSs; GYD = grain yield, NP = number of panicles per plant, NFGP = number of filled grains per panicle, GW = grain weight.