From: Genome-wide association study of four yield-related traits at the R6 stage in soybean
Traits | SNPa | MAFb | Physical position | Significant region | Meanc | Effectd | Enve | Known QTLsf | |||
---|---|---|---|---|---|---|---|---|---|---|---|
Chr. | Position | Start | End | -Log10(P) | R2(%) | ||||||
PFW | AX-90490395 | 0.34 | 2 | 46,440,530 | 46,321,460 | 46,559,600 | 6.41 | 27.72 | 3.81 | 15,16,mean | seed weight 50–12 |
AX-90483564 | 0.27 | 3 | 36,787,728 | 36,668,658 | 36,906,798 | 6.60 | 29.19 | 4.57 | 15,16,mean | ||
AX-90435834 | 0.18 | 4 | 1,402,717 | 1,283,647 | 1,521,787 | 6.08 | 25.12 | 11.06 | 15,16,mean | Seed weight per plant 6–2; Seed weight 47–3; Seed height 1–12, Seed length 1–13 | |
AX-90328574 | 0.11 | 9 | 39,625,218 | 39,506,148 | 39,744,288 | 6.52 | 27.10 | 11.46 | 15,16,mean | Seed weight 50–5; Seed yield 31–10 | |
AX-90481424 | 0.24 | 14 | 5,733,475 | 5,614,405 | 5,852,545 | 6.52 | 27.22 | 4.58 | 15,16,mean | Seed weight 36–14 | |
AX-90512978 | 0.14 | 14 | 45,661,649 | 45,542,579 | 45,780,719 | 6.49 | 27.16 | 15.43 | 15,16,mean | Seed yield 31–1 | |
AX-90496773 | 0.07 | 16 | 1,617,227 | 1,498,157 | 1,736,297 | 7.03 | 29.99 | 16.33 | 15,16,mean | Seed yield 23–6; Pod maturity 19–6; Pod maturity 9–1 | |
AX-90370125 | 0.08 | 16 | 5,791,933 | 5,672,863 | 5,911,003 | 7.54 | 33.61 | 0.53 | 15,16,mean | Seed yield 29–2 | |
AX-90519309 | 0.35 | 17 | 4,197,693 | 4,078,623 | 4,316,763 | 7.34 | 32.14 | 8.22 | 15,16,mean | Seed weight 21–2; Seed weight 22–3; Seed weight 22–4 | |
SFW | AX-90490395 | 0.34 | 2 | 46,440,530 | 46,321,460 | 46,559,600 | 6.26 | 26.86 | 0.64 | 15,16,mean | Seed weight 50–12 |
AX-90481424 | 0.24 | 14 | 5,733,475 | 5,614,405 | 5,852,545 | 6.45 | 26.54 | 0.75 | 15,16,mean | Seed weight 36–14 | |
AX-90370125 | 0.08 | 16 | 5,791,933 | 5,672,863 | 5,911,003 | 6.37 | 27.80 | 0.01 | 15,16,mean | Seed yield 29–2 | |
AX-90519309 | 0.35 | 17 | 4,197,693 | 4,078,623 | 4,316,763 | 6.35 | 27.47 | 1.74 | 15,16,mean | Seed weight 21–2;, Seed weight 22–3, Seed weight 22–4 | |
SDW | AX-90505318 | 0.12 | 1 | 50,248,686 | 50,129,616 | 50,367,756 | 7.31 | 17.69 | 3.71 | 15,16,mean | Seed weight 15–2; Seed weight 45–2 |
AX-90395822 | 0.14 | 1 | 50,267,101 | 50,148,031 | 50,386,171 | 7.12 | 19.42 | 3.79 | 15,16,mean | Seed weight 15–2; Seed weight 45–2 | |
AX-90328574 | 0.11 | 9 | 39,625,218 | 39,506,148 | 39,744,288 | 5.84 | 16.24 | 0.48 | 15,16,mean | Seed weight 50–5; Seed yield 31–10 | |
AX-90501040 | 0.05 | 14 | 42,496,533 | 42,377,463 | 42,615,603 | 9.58 | 24.87 | 5.81 | 15,16,mean | Seed yield 32–3; Pod maturity 27–3 | |
AX-90367415 | 0.05 | 14 | 42,696,630 | 42,577,560 | 42,815,700 | 6.58 | 18.05 | 3.69 | 15,16,mean | Seed yield 32–3; Pod maturity 27–3 | |
AX-90480993 | 0.05 | 14 | 42,700,090 | 42,581,020 | 42,819,160 | 6.58 | 18.05 | 3.69 | 15,16,mean | Seed yield 32–3; Pod maturity 27–3 | |
AX-90496773 | 0.07 | 16 | 1,617,227 | 1,498,157 | 1,736,297 | 6.16 | 17.29 | 0.60 | 15,16,mean | Seed yield 23–6; Pod maturity 19–6; Pod maturity 9–1 | |
AX-90421382 | 0.09 | 16 | 5,520,943 | 5,401,873 | 5,640,013 | 5.51 | 13.46 | 2.76 | 15,16,mean | Seed yield29–2 | |
MCFS | AX-90441957 | 0.46 | 5 | 41,791,118 | 41,672,048 | 41,910,188 | 7.38 | 19.52 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 |
AX-90371675 | 0.47 | 5 | 41,797,554 | 41,678,484 | 41,916,624 | 7.36 | 19.32 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90525251 | 0.46 | 5 | 41,807,238 | 41,688,168 | 41,926,308 | 7.38 | 19.52 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90320946 | 0.47 | 5 | 41,807,727 | 41,688,657 | 41,926,797 | 7.36 | 19.32 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90347760 | 0.46 | 5 | 41,808,982 | 41,689,912 | 41,928,052 | 7.38 | 19.52 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90335134 | 0.46 | 5 | 41,815,650 | 41,696,580 | 41,934,720 | 7.38 | 19.52 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90418462 | 0.47 | 5 | 41,818,004 | 41,698,934 | 41,937,074 | 7.36 | 19.32 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90492796 | 0.47 | 5 | 41,818,197 | 41,699,127 | 41,937,267 | 7.36 | 19.32 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90363684 | 0.47 | 5 | 41,818,450 | 41,699,380 | 41,937,520 | 7.36 | 19.32 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90392895 | 0.46 | 5 | 41,828,027 | 41,708,957 | 41,947,097 | 7.38 | 19.52 | 3.39 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90333199 | 0.46 | 5 | 41,831,486 | 41,712,416 | 41,950,556 | 7.18 | 18.99 | 3.36 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90344127 | 0.44 | 5 | 41,833,722 | 41,714,652 | 41,952,792 | 7.64 | 20.59 | 3.36 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90494650 | 0.46 | 5 | 41,853,747 | 41,734,677 | 41,972,817 | 7.36 | 19.32 | 3.36 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90424180 | 0.47 | 5 | 41,866,507 | 41,747,437 | 41,985,577 | 7.75 | 20.30 | 3.47 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90335974 | 0.46 | 5 | 41,882,999 | 41,763,929 | 42,002,069 | 7.00 | 20.68 | 3.51 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90435701 | 0.47 | 5 | 41,903,235 | 41,784,165 | 42,022,305 | 7.34 | 21.56 | 3.51 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90460290 | 0.47 | 5 | 41,927,984 | 41,808,914 | 42,047,054 | 8.19 | 21.56 | 3.51 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90337409 | 0.47 | 5 | 41,932,683 | 41,813,613 | 42,051,753 | 8.09 | 21.17 | 3.47 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90391337 | 0.48 | 5 | 41,947,344 | 41,828,274 | 42,066,414 | 7.36 | 19.34 | 3.37 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 | |
AX-90415951 | 0.48 | 5 | 41,955,229 | 41,836,159 | 42,074,299 | 7.36 | 19.34 | 3.37 | 15,16,mean | Seed thickness 1–3; Seed arabinose plus galactose 1–1; Seed yield 15–3 |