Table 3.
QTNs with high phenotypic variance explained (R2 > 5%).
| Traits | Model1 | QTN2 | R2 (%)3 | LOD4 | MAF5 |
|---|---|---|---|---|---|
| NWW; NWW_Dep; RDWt | 3,6; 3; 5 | Chr1:756854* | 6.32–13.07 | 3.1–6.0 | 6.06 |
| RDWt | 5 | Chr1:4908649 | 8.50 | 4.8 | 7.07 |
| MedR | 4 | Chr1:11064283 | 7.82 | 3.9 | 7.07 |
| SDWt | 4 | Chr1:18970469 | 10.65 | 3.6 | 8.08 |
| SDWt | 5 | Chr1:20356976 | 8.04 | 6.7 | 6.06 |
| NWDis | 3 | Chr2:4513304 | 11.49 | 3.4 | 5.94 |
| NWW_Dep | 2 | Chr2:5963452 | 14.88 | 3.9 | 9.9 |
| NWDis | 4 | Chr2:7095057 | 10.54 | 3.4 | 10.1 |
| MaxR; MedR; NWL; NWPer; NWA; NWSA | 2; 3; 3,6; 6; 3 6 | Chr3:6925560 | 9.00–13.34 | 3.7–4.4 | 3.96 |
| NWW | 3,6 | Chr3:16939026 | 8.89 | 4.2–4.6 | 3.96 |
| SDWt | 4 | Chr3:17343476 | 7.48 | 3.7 | 8.08 |
| NWDis | 3 | Chr3:18772054 | 9.68 | 4.206 | 4.95 |
| NWDis | 4 | Chr3:25380098 | 12.72 | 3.7 | 13.13 |
| NWDep | 2,3,4,6 | Chr4:17242614* | 7.18–22.68 | 3.6–5.1 | 7.07 |
| SRL | 2,3,5,6 | Chr4:18399285 | 10.65–15.60 | 3.3–4.9 | 10.1 |
| MedR | 4 | Chr5:1375386 | 12.94 | 4.0 | 9.09 |
| RDWt | 3,7 | Chr5:2645287 | 21.88 | 4.2 | 6.93 |
| MedR | 4 | Chr5:11019409 | 10.32 | 3.4 | 6.06 |
| NWDep; NWL; NWSA | 1,2,3,4,6; 6; 4 | Chr5:15312783* | 5.61–19.26 | 3.0–7.4 | 15.15 |
| SDWt | 5,6 | Chr6:3310382* | 11.45–17.64 | 3.3 | 13.13 |
| SRL | 3 | Chr6:7732273 | 5.47 | 3.2 | 9.9 |
| MedR | 4 | Chr7:4774423 | 7.72 | 3.025 | 6.06 |
| NWW_Dep | 3,4 | Chr7:6346464 | 7.32–13.46 | 3.7–3.9 | 10.1 |
| SRL | 3,6 | Chr8:21825897 | 5.00 | 3.4 | 13.86 |
| RDWt | 5 | Chr9:15946848 | 9.16 | 5.3 | 7.07 |
| NWPer | 3,7 | Chr9:19061342* | 24.20 | 4.0–9.8 | 11.88 |
| MedR | 2 | Chr11:5382629 | 8.27 | 3.2 | 5.94 |
| SDWt | 3,7 | Chr11:8154007 | 16.53 | 4.8 | 7.92 |
| NWV | 3,6 | Chr12:255713 | 11.34–11.40 | 3.1–3.2 | 5.94 |
| SL | 3 | Chr12:3690290 | 12.58 | 3.3 | 5.94 |
| SDWt | 4 | Chr12:12200657 | 10.05 | 3.5 | 18.18 |
| NWL; NWPer; NWA; NWSA | 4,6; 4; 4; 4 | Chr14:13363192* | 5.33–10.69 | 3.2–4.6 | 9.09 |
| NWW_Dep | 3 | Chr14:15462441 | 14.77 | 5.0 | 2.97 |
| MedR | 4 | Chr15:10531332 | 8.52 | 3.8 | 6.06 |
| NWL; NWPer; NWA; NWSA; NWV; NWW | 3,4,6; 3,4,6 3,4,6; 2,3,4,6 2,3,6; 2,4 | Chr15:11371216* | 5.36–14.17 | 3.0–4.6 | 6.06 |
1Models are 1 = FASTmrEMMA, 2 = FASTmrMLM, 3 = ISIS EM-BLASSO, 4 = mrMLM, 5 = pKWmEB, 6 = pLARmEB; LFMM = 7 (only QTN that passed the Bonferroni correction criterion).
2QTN, quantitative trait nucleotide, chromosome number and position are indicated, asterisks (*) indicate QTNs detected by multiple models from both 7K and 3K datasets.
3R2, coefficient of determination explaining phenotypic variation due to allelic effect.
4LOD, logarithm of odds.
5MAF, minor allele frequency.