Table 3. Association analysis with fiber- or seed- realted traits of SNPs in the GhSus family genes.
| Trait | QTN | LOD | r2(%) | F | P | Favorable allele | |
|---|---|---|---|---|---|---|---|
| Alleles | Effect | ||||||
| LP | GhSus1At-A2940T | 16.59 | 3.43 | 15.16 | 1.01E-04** | GhSus1At-2940T | 0.95% |
| BW | GhSus1At-G1783C | 14.60 | 3.56 | 12.71 | 3.71E-04** | GhSus1At-1783C | 0.18 g |
| GhSus3At-T881A | 15.30 | 1.76 | 77.09 | 3.02E-18** | GhSus3At-881A | 0.23 g | |
| GhSus1At-A2940T × GhSus1Dt-G2709C | 10.64 | 2.03 | 21.42 | 6.03E-10** | GhSus1At-2940T × GhSus1Dt-2709C | 0.14 g | |
| GhSus6At-C4655T × GhSus7Dt-T192C | 8.44 | 0.76 | 33.00 | 1.04E-08** | GhSus6At-4655T × GhSus7Dt-192C | 0.08 g | |
| SI | GhSus3At-T881A | 10.82 | 1.32 | 65.96 | 7.25E-16** | GhSus3At-881A | 0.40 g |
| GhSus1At-A918G × GhSus1Dt-G2709C | 10.98 | 2.10 | 10.83 | 1.01E-03* | GhSus1At-918G × GhSus1Dt-2709C | 0.26 g | |
| GhSus1At-G1783C × GhSus1Dt-G2709C | 17.73 | 2.27 | 28.49 | 5.91E-13** | GhSus1At-1783C × GhSus1Dt-2709C | 0.29 g | |
| GhSus1Dt-G751A × GhSus1Dt-G2709C | 6.58 | 0.89 | 40.02 | 2.98E-10** | GhSus1Dt-751A × GhSus1Dt-2709C | 0.25 g | |
| FL | GhSus1At-A918G × GhSus5Dt-C2648G | 16.53 | 3.48 | 14.62 | 4.90E-07** | GhSus1At-918G × GhSus5Dt-2648G | 0.42 cm |
| GhSus1At-A918G × GhSus6At-C4655T | 7.98 | 1.09 | 31.51 | 2.21E-08** | GhSus1At-918A × GhSus6At-4655C | 0.23 cm | |
| GhSus1Dt-G751A × GhSus3At-T881A | 11.97 | 1.50 | 22.29 | 2.57E-10** | GhSus1Dt-751A × GhSus3At-881A | 0.39 cm | |
| FS | GhSus3At-T881A × GhSus7Dt-T192C | 4.81 | 0.43 | 14.22 | 7.24E-07** | GhSus3At-881A × GhSus7Dt-192C | 0.19 cN/tex |
| FM | GhSus1Dt-G751A × GhSus8Dt-T1334C | 5.15 | 0.89 | 14.56 | 5.17E-07** | GhSus1Dt-751A × GhSus8Dt-1334C | 0.07 |
| GhSus1Dt-G2709C × GhSus8Dt-C577T | 5.11 | 1.27 | 6.72 | 1.23E-03* | GhSus1Dt-2709G × GhSus8Dt-577C | 0.08 | |
| PC | GhSus1At-A918G × GhSus1Dt-G2709C | 9.57 | 2.53 | 11.11 | 1.62E-05** | GhSus1At-918A × GhSus1Dt-2709G | 0.49% |
| OC | GhSus6At-C4655T | 3.67 | 1.96 | 15.21 | 1.04E-04** | GhSus6At-4655C | 0.54% |
* and **at the 0.05 and 0.01 levels of significance on the genome, respectively. LP, lint percentage (LP); BW, boll weight; SI, seed index; FL, fiber length; FM, fiber micronaire; FU, fiber uniformity; FS, fiber strength; PC, protein content; OC, oil content. r2 is the phenotypic variance explained by each QTN.