TABLE 4.
Main-effect QTL affecting traits of agronomic importance detected in RILs and four TC populations
| Main-effect QTLa
|
Marker interval
|
RILs
|
TCP1
|
TCP2
|
TCP3
|
TCP4
|
Significant teste
|
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chromosome | LODb | Effectc | R2%d | LOD | Effect | R2% | LOD | Effect | R2% | LOD | Effect | R2% | LOD | Effect | R2% | |||
| ph1 | 1 | S1501-C904 | 15.67 | −4.2 | 23.4 | 9.63 | −3.0 | 15.0 | 6.04 | −2.1 | 9.3 | 12.89 | −3.0 | 14.2 | NS, ** | |||
| ph2 | 2 | C920-C1769 | 4.12 | −2.6 | 5.6 | |||||||||||||
| ph3a | 3 | S10656-r273 | 6.26 | 3.0 | 9.3 | |||||||||||||
| ph3b | 3 | RM168-yl-171 | 5.42 | 1.9 | 5.7 | |||||||||||||
| ph4 | 4 | y103D-C2807 | 3.60 | −2.4 | 4.7 | |||||||||||||
| ph5 | 5 | RM274-w143D | 3.83 | −1.9 | 5.4 | |||||||||||||
| ph6 | 6 | C688-S1520 | 4.95 | −3.6 | 14.1 | 6.63 | −1.8 | 4.9 | ** | |||||||||
| ph7 | 7 | C615-R565 | 4.89 | 2.0 | 7.5 | |||||||||||||
| ph8 | 8 | R2662-RZ572 | 8.79 | −2.0 | 3.8 | |||||||||||||
| ph9a | 9 | C1257-G1085 | 4.17 | 2.0 | 6.6 | |||||||||||||
| ph9b | 9 | R1562-C570 | 11.63 | 2.1 | 8.5 | |||||||||||||
| ph10a | 10 | RM304-G2155 | 7.74 | −3.8 | 16.8 | 15.63 | −3.8 | 30.0 | ||||||||||
| ph10b | 10 | S2083-RZ649A | 3.47 | −1.6 | 3.0 | |||||||||||||
| ph11a | 11 | RG2-C1172 | 4.99 | 2.8 | 7.1 | |||||||||||||
| ph11b | 11 | R2918-S1559B | 4.16 | 1.7 | 3.8 | |||||||||||||
| ph11c | 11 | C6-G376 | 7.37 | 2.0 | 7.4 | |||||||||||||
| ph12 | 12 | C2808-RG543 | 3.56 | −2.7 | 6.2 | 4.62 | −2.5 | 8.0 | 7.07 | −2.3 | 11.4 | 5.87 | −1.8 | 4.4 | NS | |||
| hd1 | 1 | y517-S2139 | 6.71 | −2.2 | 7.2 | 3.37 | −1.9 | 2.6 | NS | |||||||||
| hd6a | 6 | C688-S1520 | 12.52 | 4.3 | 54.7 | 14.27 | 3.9 | 57.9 | 15.09 | 5.7 | 69.0 | 4.99 | 1.7 | 21.5 | 6.63 | 1.9 | 36.5 | NS, ** |
| hd6b | 6 | S1809-RM3 | 3.28 | 1.7 | 3.3 | |||||||||||||
| hd7 | 7 | R565-C1521 | 5.82 | 1.9 | 5.9 | |||||||||||||
| ppp2 | 2 | RM341-RM327 | 5.99 | 0.6 | 13.2 | 4.78 | 0.8 | 11.6 | 8.92 | 0.6 | 22.6 | NS | ||||||
| ppp3 | 3 | R2404-R2443 | 4.26 | −0.6 | 10.3 | |||||||||||||
| ppp4 | 4 | R1496-C820 | 3.88 | 0.4 | 7.7 | |||||||||||||
| ppp6 | 6 | C688-S1520 | 3.75 | −1.2 | 14.1 | |||||||||||||
| ppp10 | 10 | RZ649A-G1084 | 3.76 | 0.4 | 8.3 | |||||||||||||
| ppp12 | 12 | S826-C751A | 3.83 | −0.4 | 7.7 | |||||||||||||
| spp1 | 1 | S1501-C904 | 9.64 | −15.1 | 26.1 | 13.52 | −8.5 | 32.8 | 6.02 | −8.4 | 22.1 | 10.85 | −5.3 | 18.4 | 7.25 | −4.5 | 11.9 | NS, *, ** |
| spp2a | 2 | C1769-RM6 | 3.22 | −3.9 | 7.1 | |||||||||||||
| spp2b | 2 | RM327-S2068 | 8.52 | −4.5 | 13.0 | |||||||||||||
| spp4 | 4 | y103D-C2807 | 4.27 | −5.4 | 8.5 | |||||||||||||
| spp5 | 5 | RM164-C624 | 6.38 | −4.1 | 10.9 | 4.57 | −3.5 | 7.2 | NS | |||||||||
| spp6 | 6 | R1679-C751B | 8.20 | 4.2 | 11.7 | |||||||||||||
| spp7 | 7 | R1789-RM242 | 4.29 | 7.0 | 12.9 | 9.36 | 7.0 | 8.4 | ||||||||||
| spp8a | 8 | C309-S2108 | 6.89 | −4.5 | 11.8 | |||||||||||||
| spp8b | 8 | RM342-G1073 | 4.91 | −4.1 | 9.8 | |||||||||||||
| gpp1 | 1 | S1501-C904 | 10.40 | −18.2 | 27.6 | 13.27 | −7.2 | 25.0 | 15.74 | −6.0 | 23.3 | NS, ** | ||||||
| gpp3 | 3 | RM203-R2404 | 10.07 | 4.6 | 13.4 | |||||||||||||
| gpp6a | 6 | C688-S1520 | 4.29 | −13.0 | 12.9 | 3.23 | −3.0 | 4.4 | ** | |||||||||
| gpp6b | 6 | RM3-R2654 | 3.21 | 3.4 | 5.6 | |||||||||||||
| gpp7 | 7 | R1789-RM242 | 4.27 | 12.4 | 8.5 | |||||||||||||
| gpp8a | 8 | G278-C166 | 3.51 | −8.2 | 4.0 | |||||||||||||
| gpp8b | 8 | C309-S2108 | 4.52 | −3.9 | 7.6 | 8.55 | −4.4 | 12.3 | NS | |||||||||
| gpp10 | 10 | RM304-G2155 | 7.89 | −9.7 | 21.5 | 6.96 | −10.8 | 20.8 | NS | |||||||||
| gw1a | 1 | C904-R596 | 10.6 | −1.1 | 16.2 | 5.51 | −0.5 | 13.1 | 9.38 | −0.4 | 6.3 | 5.38 | −0.3 | 4.5 | NS, ** | |||
| gw1b | 1 | CDO455-RM5 | 4.18 | 0.6 | 5.6 | 4.66 | 0.3 | 4.4 | NS | |||||||||
| gw1c | 1 | RM283-C101 | 3.46 | 0.4 | 7.1 | |||||||||||||
| gw2a | 2 | Y1-400-R208 | 10.2 | 0.5 | 8.5 | 14.00 | 0.6 | 8.3 | NS | |||||||||
| gw2b | 2 | C920-C1769 | 3.33 | −0.3 | 2.7 | |||||||||||||
| gw3a | 3 | y4831-RM135 | 5.27 | −0.8 | 9.7 | |||||||||||||
| gw3b | 3 | RM55-RM203 | 3.02 | −0.4 | 7.3 | 5.44 | −0.3 | 5.2 | 4.07 | −0.3 | 4.5 | NS | ||||||
| gw3c | 3 | RM282-G162 | 3.59 | −0.4 | 7.9 | 3.13 | −0.3 | 4.3 | NS | |||||||||
| gw5 | 5 | C624-RM26 | 3.14 | −0.6 | 5.5 | 4.55 | −0.3 | 3.1 | NS | |||||||||
| gw6 | 6 | R1679-C751B | 5.40 | −0.7 | 6.8 | 3.16 | −0.3 | 4.3 | * | |||||||||
| gw7 | 7 | C615-R565 | 8.13 | 0.9 | 13.1 | |||||||||||||
| gw8a | 8 | S2108-C483 | 6.08 | 0.7 | 6.3 | 7.08 | 0.3 | 5.5 | 3.62 | 0.3 | 3.6 | NS, * | ||||||
| gw8b | 8 | R2662-RZ572 | 8.04 | −0.5 | 8.2 | |||||||||||||
| gw9 | 9 | RM205-S11302 | 5.33 | 0.4 | 3.0 | |||||||||||||
| gw10 | 10 | G1084-RG257 | 4.49 | −0.3 | 3.5 | |||||||||||||
| gw11 | 11 | R2918-S1559B | 4.24 | −0.7 | 6.9 | 17.66 | −0.9 | 21.4 | 8.04 | −0.5 | 6.2 | NS, * | ||||||
| gypp1 | 1 | S1501-C904 | 18.08 | −3.4 | 31.3 | 6.08 | −2.6 | 13.3 | 4.23 | −1.6 | 10.8 | 6.93 | −1.5 | 15.4 | NS, *, ** | |||
| gypp3a | 3 | R1925-G1318 | 4.53 | 1.4 | 6.6 | |||||||||||||
| gypp3b | 3 | G162-y4831 | 3.13 | 1.1 | 7.8 | |||||||||||||
| gypp4 | 4 | C2807-RM252 | 3.06 | −1.2 | 4.6 | |||||||||||||
| gypp6 | 6 | C688-S1520 | 3.37 | −5.2 | 10.5 | 2.95 | −4.3 | 7.7 | NS | |||||||||
| gypp8 | 8 | C309-S2108 | 6.89 | −4.5 | 11.8 | |||||||||||||
| gypp10 | 10 | RM304-G2155 | 5.68 | −6.6 | 17.1 | 8.08 | −2.6 | 16.4 | ** | |||||||||
NS, no significance; *significance levels of P < 0.05; **significance levels of P < 0.01.
QTLs are named by trait abbreviations plus chromosomal number.
A LOD score of 3.0 was used for declaring the existence of a putative QTL, according to the method of Lynch and Walsh (1998).
In the RILs, QTL effect is the additive effect, i.e., the average substitution effect of the B5 allele by the Minhui allele. In the TC populations, QTL effects were estimated by the difference between the heterozygote tester/Minhui and the heterozygote tester/B5. The heterozygosity was 17.22, 16.67, 14.44, and 17.78% for Zhenshan97B/B5, II-32B/B5, YuetaiB/B5, and Peiai64s/B5, respectively, and 19.94, 20.00, 19.44, and 18.89% for Zhenshan 97B/Minhui, II-32B/Minhui, YuetaiB/Minhui, and Peiai64s/Minhui, respectively. The genetic expectation of the QTL effect is the additive gene effect (α) when estimated from the RILs, the additive effects, and the dominance effects (α + d) from the F1 mean values.
Variation explained by each QTL.
For testing the difference of QTL effect estimated among different populations.