Table 1 QTL of genome-wide significance identified by GWAS for growth and fatness traits in White Duroc × Erhualian F 2 pigs and Sutai pigs
Chr 1 | Trait | Abbreviation | Pop 2 | N snp 3 | Top SNP | Position (bp) | MAF 4 | Frequency 5 | Effect | P -value | Candidate gene | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
Duroc | Erhualian | |||||||||||
2 | Body weight at day 21 | BW21 | Sutai | 1 | ss107909052 | 101694375 | 0.05 | NA | NA | 0.67 | 2.66E-08 | ARRDC3 |
|  | Backfat thickness at the hip | HBFT | F2 | 4 | ss131060419 | 920370 | 0.28 | 0.50 | 1.00 | −0.25 | 2.59E-07 |  |
3 | Body weight at day 21 | BW21 | Sutai | 4 | ss131231938 | 130852806 | 0.06 | NA | NA | 1.05 | 6.70E-08 | Â |
| Â | Average daily gain from day 0 to 21 | ADG0-21 | Sutai | 2 | ss131231938 | 130852806 | 0.06 | NA | NA | 0.06 | 1.22E-08 | Â |
4 | Average backfat thickness | ABFT | F2 | 8 | ss131269801 | 82850635 | 0.46 | 1.00 | 0.00 | −0.28 | 8.50E-09 | PLAG1 |
|  | Backfat thickness at the first rib | FRBFT | F2 | 4 | ss131269801 | 82850635 | 0.46 | 1.00 | 0.00 | −0.31 | 6.04E-08 |  |
|  | Leaf fat weight | LFW | F2 | 6 | ss131269801 | 82850635 | 0.46 | 1.00 | 0.00 | −0.31 | 3.80E-08 |  |
|  | Backfat thickness at the hip | HBFT | F2 | 4 | ss131270942 | 88978451 | 0.44 | 1.00 | 0.00 | −0.32 | 1.46E-08 |  |
| Â | Body weight at day 21 | BW21 | Sutai | 4 | ss131247062 | 134935929 | 0.05 | NA | NA | 1.09 | 1.35E-07 | Â |
| Â | Average daily gain from day 0 to 21 | ADG0-21 | Sutai | 2 | ss131247062 | 134935929 | 0.05 | NA | NA | 0.06 | 1.48E-08 | Â |
| Â | Average daily gain from day 0 to 21 | ADG0-21 | Sutai | 2 | ss107817770 | 133079451 | 0.08 | NA | NA | 0.06 | 1.48E-08 | Â |
7 | Average backfat thickness | ABFT | F2 | 167 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.62 | 7.63E-32 | HMGA1 |
|  | Backfat thickness at the first rib | FRBFT | F2 | 184 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.7 | 3.39E-32 |  |
|  | Leaf fat weight | LFW | F2 | 165 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.66 | 2.61E-30 |  |
|  | Backfat thickness at the hip | HBFT | F2 | 155 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.78 | 6.61E-28 |  |
|  | Backfat thickness at the last rib | LRBFT | F2 | 166 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.57 | 2.17E-24 |  |
|  | Backfat thickness at the shoulder | SBFT | F2 | 115 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.49 | 1.01E-17 |  |
|  | Abdominal fat weight | AFW | F2 | 121 | ss107837325 | 34803564 | 0.46 | 0.00 | 0.94 | −0.15 | 1.79E-14 |  |
|  | Veil fat weight | VFW | F2 | 29 | ss107806758 | 35177641 | 0.45 | 0.00 | 0.88 | −0.14 | 4.92E-08 |  |
|  | Body weight at day 240 | BW210 | F2 | 3 | ss131342496 | 32957768 | 0.49 | 0.00 | 1.00 | −5.44 | 6.77E-07 |  |
10 | Average daily gain from day 0 to 21 | ADG0-21 | Sutai | 1 | ss478939281 | 13838740 | 0.08 | NA | NA | 0.02 | 8.89E-07 | Â |
14 | Average daily gain from day 0 to 21 | ADG0-21 | Sutai | 1 | ss131505908 | 151638018 | 0.09 | NA | NA | 0.05 | 4.46E-08 | Â |
X | Backfat thickness at the hip | HBFT | F2 | 12 | ss131561996 | 62086511 | 0.21 | 0.50 | 0.00 | −0.31 | 6.84E-12 |  |