Table 3.
Comparison of QTL identified for pod shatter resistance from linkage mapping and association analysis of mapping populations.
| Mapping population | Phenotyping year | QTL | Chra | LOD | P-Value for GWAS association | Lead SNP with highest P-value | Physical map position | Genetic map position (cM)* | Confident Interval | R2 (%) | Candidate gene |
|---|---|---|---|---|---|---|---|---|---|---|---|
| DH | 2014 | qSRI.A01a | A01 | 5.43 | Bn-A01-p11702957 | 11221208 | 71.5 | 69.5–75.4 | 13.14 | ||
| IF2 | 2014 | qSRI.A01b | A01 | 7.07 | Bn-A01-p2365493 | 1858394 | 56.9 | 54.3–61.5 | 12.92 | SPATULA (SPT) | |
| GWAS | qSRI.A01c | A01 | 8E-06 | Bn-A01-p10523833 | 883265 | – | – | 6.37 | |||
| IF2 | 2014 | qSRI.A03 | A03 | 3.84 | Bn-scaff_22728_1-p75030 | 5375993 | 62 | 58.7–64.3 | 4.01 | ||
| DH | 2013 | qSRI.A06a | A06 | 2.93 | Bn-A06-p15913910 | 17373387 | 60.4 | 56.2–63.4 | 5.66 | GIBBERELLIN 3-OXIDASE 1 | |
| DH | 2014 | qSRI.A06b | A06 | 2.88 | Bn-A06-p115948 | 79870 | 57.8 | 54–59.8 | 6.47 | GIBBERELLIN 3-OXIDASE 1 | |
| IF2 | 2014 | qSRI.A06b | A06 | 4.19 | Bn-A06-p115948 | 79870 | 58.3 | 55.1–62.3 | 3.69 | ||
| GWAS | qSRI.A06b | A06 | 1.5E-05 | Bn-A06-p115948 | 79870 | – | – | 6.61 | |||
| GWAS | qSRI.A07 | A07 | 1E-06 | Bn-A07-p7392457 | 858774 | – | – | 7.3 | YABBY1 | ||
| DH | 2013 | qSRI.A09 | A09 | 7.69 | Bn-A09-p30171993 | 3297223 | 68.1 | 65.8–75.9 | 16.91 | SHATTERPROOF 1/2, ARF18 | |
| DH | 2014 | qSRI.A09 | A09 | 4.31 | Bn-A09-p30171993 | 3297223 | 68.1 | 67.4–76.5 | 9.81 | ||
| IF2 | 2014 | qSRI.A09 | A09 | 12.41 | Bn-A09-p30171993 | 3297223 | 68.1 | 67.4–76.5 | 10.89 | ||
| GWAS | qSRI.A09 | A09 | 4.4E-09 | Bn-A09-p30171993 | 3297223 | – | – | 12.07 | |||
| GWAS | qSRI.C02 | C02 | 6.5E-06 | Bn-scaff_15712_6-p214229 | 40565480 | – | – | 6.32 | |||
| GWAS | qSRI.C05 | C05 | 1.1E-06 | Bn-scaff_17869_1-p1058624 | 19589640 | – | – | 7.23 |
a
Chromosome;
*
not applicable.
Consistent QTL identified across mapping populations/environments are in bold.