Table 3.
Summary of significant markers identified in each experiment based on genome-wide association study using 25K-SNP array and GBS-SNPs and the high confidence genes that they are located within.
| Marker set | Total no. of sig markers | Experiment | No. of markers | No. of Chrom | R2 | P-value | Allele effect | Number of genes | Best GWAS model | ||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Exp.I | 52 | 25K-SNP array | 37 | 11 | 0.82 – 7.31% | 7.19E-06 – 0.001 | (-1.66) – (-0.79) | 25 | FarmCPU+Kin+PCA | ||
| GBS-SNPs | 15 | 6 | 4.68 – 18.27% | 1.29E-05 – 0.001 | (-2.02) – (-1.25) | 5 | FarmCPU+Kin | ||||