Table 1.
Additive QTL clusters of soybean seed fatty acid contents in ZL-RIL population
| Clustera | QTLb | Trait | Chr.c | Left marker | Right marker | Left marker positiond | Right marker positione | Pos.f | LODg | PVEh (%) |
Add.i | Left CIj | Right CI | Env.k |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1*# | qLNA-A1-1 | Linolenic acid | 5 | Satt211 | ss715591655 | 40,414,305 | 41,712,419 | 25.6 | 6.4 | 7.7 | − 0.25 | 19.7 | 31.4 | E3 |
| ss715591655 | ss715591780 | 41,712,419 | 41,007,475 | 28.4 | 2.9 | 3.9 | − 0.22 | 19.7 | 34.0 | E1 | ||||
| 28.4 | 3.6 | 3.6 | − 0.17 | 22.4 | 31.8 | E4 | ||||||||
| qLA-A1-1 | Linoleic acid | 5 | Satt211 | ss715591655 | 40,414,305 | 41,712,419 | 26.0 | 8.0 | 8.7 | − 0.37 | 21.7 | 31.0 | E3 | |
| ss715591655 | ss715591780 | 41,712,419 | 41,007,475 | 28.4 | 6.7 | 7.3 | − 0.29 | 24.9 | 31.2 | E4 | ||||
| 30.0 | 8.2 | 10.2 | − 0.36 | 28.5 | 33.4 | E1 | ||||||||
| Satt511 | Sat_217 | – | 41,679,029 | 6.5 | 3.4 | 4.3 | − 0.27 | 0.6 | 13.2 | E2 | ||||
| qOA-A1-1 | Oleic acid | 5 | ss715591655 | ss715591780 | 41,712,419 | 41,007,475 | 28.4 | 7.0 | 6.7 | 0.58 | 23.6 | 32.8 | E3 | |
| 29.0 | 3.5 | 4.0 | 0.44 | 23.4 | 34.0 | E1 | ||||||||
| 2# | qPA-K-1 | Palmitic acid | 9 | ss715603594 | ss715603616 | 3,215,569 | 3,271,593 | 38.8 | 4.8 | 5.1 | − 0.11 | 34.9 | 41.3 | E3 |
| ss715603616 | ss715604428 | 3,271,593 | 4,137,128 | 41.9 | 3.9 | 4.8 | − 0.16 | 38.8 | 54.7 | E2 | ||||
| 45.5 | 3.0 | 3.6 | − 0.09 | 38.8 | 55.2 | E4 | ||||||||
| qOA-K-1 | Oleic acid | 9 | ss715603594 | ss715603616 | 3,215,569 | 3,271,593 | 38.8 | 3.6 | 3.4 | 0.41 | 36.0 | 41.3 | E3 | |
| ss715603616 | ss715604428 | 3,271,593 | 4,137,128 | 46.3 | 2.8 | 3.7 | 0.56 | 41.4 | 55.2 | E2 | ||||
| qSFA-K-1 | Saturated fatty acid | 9 | ss715603594 | ss715603616 | 3,215,569 | 3,271,593 | 38.8 | 3.7 | 3.7 | − 0.12 | 33.7 | 41.3 | E3 | |
| ss715603616 | ss715604428 | 3,271,593 | 4,137,128 | 43.5 | 3.5 | 4.2 | − 0.18 | 38.8 | 55.2 | E2 | ||||
| ss715605175 | ss715605238 | 5,690,163 | 6,079,042 | 68.8 | 2.8 | 3.1 | − 0.12 | 66.5 | 74.6 | E1 | ||||
| Palmitic acid | 9 | ss715605175 | ss715605238 | 5,690,163 | 6,079,042 | 68.8 | 2.8 | 3.1 | − 0.10 | 66.5 | 73.9 | E1 | ||
| 3# | qOA-O | Oleic acid | 10 | ss715607504 | ss715607483 | 45,629,506 | 45,322,752 | 35.2 | 3.3 | 3.8 | 0.43 | 33.8 | 36.8 | E1 |
| ss715607450 | ss715607435 | 45,023,591 | 44,920,131 | 39.1 | 4.0 | 3.7 | 0.43 | 37.8 | 39.9 | E3 | ||||
| qLNA-O | Linolenic acid | 10 | ss715607504 | ss715607483 | 45,629,506 | 45,322,752 | 35.5 | 6.2 | 6.4 | − 0.23 | 33.8 | 36.8 | E4 | |
| ss715607450 | ss715607435 | 45,023,591 | 44,920,131 | 39.0 | 6.1 | 6.1 | − 0.23 | 37.8 | 39.9 | E3 | ||||
| qLA-O | Linoleic acid | 10 | ss715607504 | ss715607483 | 45,629,506 | 45,322,752 | 36.7 | 2.5 | 2.1 | − 0.18 | 34.3 | 37.7 | E3 | |
| ss715607772 | ss715607250 | 48,147,731 | 43,131,019 | 59.6 | 4.0 | 5.4 | − 0.25 | 58.5 | 60.4 | E4 | ||||
| qSA-O | Stearic acid | 10 | ss715607504 | ss715607483 | 45,629,506 | 45,322,752 | 36.7 | 2.6 | 3.1 | − 0.04 | 34.3 | 37.7 | E1 | |
| 4* | qPA-C1-1 | Palmitic acid | 4 | ss715588385 | ss715588105 | 4,421,661 | 4,206,857 | 96.6 | 4.1 | 4.2 | − 0.09 | 95.3 | 97.9 | E4 |
| ss715589072 | Sat_235 | 5,555,278 | – | 77.4 | 3.1 | 3.3 | 0.09 | 77.1 | 79.2 | E3 | ||||
| qSFA-C1-1 | Saturated fatty acid | 4 | ss715588385 | ss715588105 | 4,421,661 | 4,206,857 | 96.6 | 3.3 | 3.8 | − 0.10 | 95.3 | 97.9 | E4 | |
| ss715589072 | Sat_235 | 5,555,278 | – | 77.4 | 2.9 | 2.9 | 0.10 | 77.1 | 79.0 | E3 | ||||
| 5 | qOA-K-2 | Oleic acid | 9 | ss715603840 | ss715603826 | 39,520,644 | 39,418,052 | 122.2 | 4.9 | 4.6 | 0.48 | 122.0 | 122.3 | E3 |
| qLA-K-2 | Linoleic acid | 9 | ss715603840 | ss715603826 | 39,520,644 | 39,418,052 | 122.2 | 3.8 | 3.3 | − 0.23 | 122.1 | 126.9 | E3 | |
| qUSFA-K-2 | Unsaturated fatty acid | 9 | ss715603840 | ss715603826 | 39,520,644 | 39,418,052 | 122.2 | 3.1 | 3.7 | 0.23 | 122.0 | 122.3 | E3 | |
| 6 | qSA-F | Stearic acid | 13 | ss715617090 | Sat_133 | 21,147,361 | 24,949,516 | 96.8 | 2.9 | 4.1 | − 0.04 | 87.1 | 108.4 | E3 |
| qSFA-F | Saturated fatty acid | 13 | ss715617090 | Sat_133 | 21,147,361 | 24,949,516 | 100.1 | 3.6 | 5.5 | − 0.14 | 91.6 | 111.7 | E3 | |
| qPA-F | Palmitic acid | 13 | ss715617090 | Sat_133 | 21,147,361 | 24,949,516 | 101.0 | 2.9 | 4.3 | − 0.10 | 91.3 | 100.9 | E3 | |
| 7# | qLA-C1-2 | Linoleic acid | 4 | ss715589674 | ss715589686 | 9,532,122 | 9,580,008 | 23.1 | 2.8 | 3.3 | − 0.24 | 22.0 | 24.7 | E2 |
| qSFA-C1-2 | Saturated fatty acid | 4 | ss715589674 | ss715589686 | 9,532,122 | 9,580,008 | 23.5 | 3.6 | 4.0 | 0.10 | 23.1 | 25.5 | E4 | |
| qPA-C1-2 | Palmitic acid | 4 | ss715589674 | ss715589686 | 9,532,122 | 9,580,008 | 23.6 | 4.4 | 4.3 | 0.09 | 23.1 | 25.5 | E4 | |
| 8 | qLA-C2 | Linoleic acid | 6 | ss715593873 | ss715593858 | 21,143,967 | 20,686,842 | 93.1 | 9.3 | 8.3 | 0.36 | 93.0 | 93.2 | E3 |
| qLNA-C2 | Linolenic acid | 6 | ss715593858 | ss715593820 | 20,686,842 | 19,486,921 | 93.4 | 4.4 | 4.4 | 0.19 | 93.3 | 94.1 | E3 | |
| qOA-C2 | Oleic acid | 6 | ss715593858 | ss715593820 | 20,686,842 | 19,486,921 | 93.6 | 6.4 | 6.2 | − 0.56 | 93.0 | 94.1 | E3 | |
| Linoleic acid | 6 | ss715593801 | ss715593768 | 18,788,512 | 17,672,411 | 98.3 | 3.8 | 4.3 | 0.24 | 96.8 | 100.3 | E1 | ||
| 9# | qOA-A2 | Oleic acid | 8 | ss715599406 | ss715599449 | 12,393,450 | 13,275,688 | 100.1 | 2.6 | 2.5 | 0.36 | 97.4 | 104.0 | E3 |
| qLNA-A2 | Linolenic acid | 8 | ss715599492 | ss715599497 | 13,890,148 | 13,934,839 | 107.4 | 3.5 | 3.4 | − 0.17 | 106.9 | 108.1 | E3 | |
| ss715599492 | ss715599497 | 13,890,148 | 13,934,839 | 107.4 | 4.8 | 4.9 | − 0.20 | 106.9 | 108.1 | E4 | ||||
| 10 | qLNA-C1-3 | Linolenic acid | 4 | ss715588097 | ss715588036 | 44,684,894 | 43,971,465 | 17.5 | 2.6 | 2.7 | 0.15 | 15.9 | 18.7 | E4 |
| qPA-C1-3 | Palmitic acid | 4 | ss715588097 | ss715588036 | 44,684,894 | 43,971,465 | 17.8 | 4.7 | 5.2 | 0.13 | 16.1 | 17.9 | E1 | |
| qSFA-C1-3 | Saturated fatty acid | 4 | ss715588054 | ss715587943 | 44,142,247 | 42,905,456 | 19.8 | 4.0 | 4.7 | 0.15 | 18.9 | 20.8 | E1 | |
| 11* | qOA-J | Oleic acid | 16 | ss715624870 | ss715624875 | 36,583,392 | 36,635,344 | 156.4 | 3.0 | 3.3 | 0.40 | 156.0 | 156.8 | E1 |
| qPA-J | Palmitic acid | 16 | ss715624993 | Sat_395 | 37,518,951 | 37,577,362 | 163.8 | 4.3 | 4.7 | − 0.13 | 161.1 | 175.4 | E1 | |
| qSFA-J | Saturated fatty acid | 16 | ss715624993 | Sat_395 | 37,518,951 | 37,577,362 | 165.5 | 3.3 | 4.1 | − 0.14 | 160.9 | 178.7 | E1 | |
| 12 | qLNA-H | Linolenic acid | 12 | ss715611672 | ss715611537 | 1,766,819 | 1,464,938 | 124.6 | 3.7 | 3.6 | − 0.17 | 123.8 | 125.8 | E3 |
| qLA-H | Linoleic acid | 12 | ss715611564 | ss715611525 | 1,536,763 | 1,438,251 | 126.2 | 4.1 | 3.5 | − 0.24 | 125.9 | 127.1 | E3 | |
| qOA-H | Oleic acid | 12 | ss715611435 | ss715611407 | 1,234,005 | 1,166,537 | 129.3 | 3.6 | 3.3 | 0.41 | 127.1 | 129.3 | E3 | |
| 13* | qPA-D2 | Palmitic acid | 17 | ss715627538 | ss715627484 | 3,644,762 | 3,611,437 | 194.2 | 3.3 | 3.5 | − 0.09 | 193.2 | 194.4 | E3 |
| qSFA-D2 | Saturated fatty acid | 17 | ss715627538 | ss715627484 | 3,644,762 | 3,611,437 | 194.2 | 2.8 | 2.7 | − 0.10 | 193.2 | 194.4 | E3 | |
| 14 | qOA-N | Oleic acid | 3 | ss715585348 | ss715585205 | 3,582,559 | 3,362,229 | 162.1 | 3.7 | 4.1 | 0.45 | 157.5 | 162.8 | E1 |
| qLA-N | Linoleic acid | 3 | ss715585205 | ss715585138 | 3,362,229 | 3,192,661 | 163.3 | 2.8 | 3.1 | − 0.20 | 162.8 | 165.3 | E1 | |
| 15 | qSFA-A1-2 | Saturated fatty acid | 5 | ss715591194 | ss715591168 | 35,722,019 | 35,533,047 | 83.8 | 2.9 | 3.2 | − 0.09 | 81.1 | 84.6 | E4 |
| qOA-A1-2 | Oleic acid | 5 | ss715591168 | ss715591141 | 35,533,047 | 35,309,800 | 84.1 | 4.1 | 5.4 | 0.46 | 82.3 | 84.6 | E4 | |
| 16* | qPA-A2 | Palmitic acid | 8 | ss715599230 | ss715599242 | 10,700,780 | 10,963,012 | 85.0 | 3.3 | 3.3 | − 0.08 | 84.1 | 85.0 | E4 |
Note: a* indicated the QTL clusters further verified by ZQ-RIL population in this study. # indicated the QTL clusters further verified by the natural population in this study
bThe nomenclature of QTL included: QTL, trait, and linkage group
cChromosome
dPhysical position of left marker in soybean genome (Gmax2.0)
ePhysical position of right marker in soybean genome (Gmax2.0)
fPosition
gLikelihood odds ratio
hProportion of phenotypic variation explained by QTL
iAdditive effect
jConfidence interval
kEnvironment: E1, Qingxian-2015; E2, Qingyuan-2015; E3, Qingyuan-2016; E4, HAU Breeding Center-2016