Table II.
Summary of QTL affecting the traits measured in the Bay-0 × Shahdara RIL population
| QTL Cluster | QTLa | Chromosome Markerb | Positionc | LOD Score | R2d | Additivee |
|---|---|---|---|---|---|---|
| HLD-1 | 1-F5I14 | 65.0 | 2.7 | 7 | + | |
| IRA-1 | FTIR 1,434 | 1-F5I14 | 70.1 | 3.3 | 13 | + |
| FTIR 1,639 | 1-MSAT1.13 | 72.3 | 2.5 | 9 | + | |
| FTIR 1,060 | 1-MSAT1.13 | 74.5 | 2.4 | 12 | − | |
| FTIR 1,049 | 1-MSAT1.13 | 74.9 | 2.4 | 13 | − | |
| FTIR 1,041 | 1-MSAT1.13 | 74.9 | 2.3 | 12 | − | |
| FTIR 1,473 | 1-MSAT1.13 | 77.2 | 2.4 | 13 | + | |
| FTIR1 677 | 1-MSAT1.13 | 77.2 | 3.0 | 13 | + | |
| XGM-1 | XXFG | 1-MSAT1.13 | 78.0 | 2.7 | 11 | − |
| XXLG-1 | 1-MSAT1.13 | 78.3 | 3.1 | 11 | + | |
| XXLG/XXFG-1 | 1-MSAT1.13 | 78.7 | 4.5 | 15 | + | |
| ARH-1 | 2-MSAT2.38 | 25.8 | 3.0 | 5 | + | |
| IRA-2 | FTIR 1,496 | 2-MSAT2.36 | 34.3 | 3.6 | 13 | − |
| FTIR 1,157 | 2-MSAT2.41 | 35.3 | 2.3 | 9 | + | |
| FTIR 1,554 | 2-MSAT2.41 | 36.8 | 3.1 | 12 | − | |
| FTIR 1,677-2 | 2-MSAT2.41 | 37.3 | 3.5 | 14 | − | |
| FTIR 1,639-2 | 2-MSAT2.41 | 38.5 | 3.2 | 13 | − | |
| HLD-2 | 3-MSAT3.32 | 45.7 | 4.2 | 12 | + | |
| HLD-3 | 3-MSAT3.18 | 62.5 | 2.7 | 9 | + | |
| XGM-2 | XXLG-2 | 4-MSAT4.9 | 65.6 | 4.3 | 16 | − |
| XXFG Ac-1 | 4-MSAT4.9 | 65.9 | 3.2 | 12 | + | |
| Ac-1 | 4-MSAT4.9 | 68.1 | 3.3 | 10 | + | |
| XXLG/XXFG-2 | 4-MSAT4.9 | 69.7 | 2.7 | 7 | − | |
| XLFG-1 | 4-MSAT4.9 | 69.7 | 2.3 | 6 | + | |
| XGM-4 | Ac-2 | 5-NGA249 | 8.2 | 2.9 | 10 | + |
| XXFG Ac-2 | 5-NGA249 | 8.6 | 2.6 | 10 | + | |
| ARH-2 | 5-NGA249 | 12.4 | 4.6 | 12 | + | |
| HLD-4 | 5-MSAT5.14 | 18.2 | 3.5 | 9 | − | |
| ARH-3 | 5-MSAT5.12 | 70.9 | 18.5 | 51 | + | |
| XGM-3 | XLFG Ac | 5-MSAT5.12 | 73.9 | 5.0 | 16 | + |
| Ac-3 | 5-MSAT5.12 | 74.9 | 4.0 | 11 | + | |
| XLFG ± Ac | 5-MSAT5.12 | 75.1 | 4.2 | 13 | + | |
| XLFG-2 | 5-MSAT5.12 | 76.4 | 2.5 | 8 | + |
a
The name given to a local LOD-score peak includes the trait name and a suffix, with an order number, if necessary.
b
The corresponding marker was used in CIM detection and for ANOVA.
c
The position of the QTL is expressed in centiMorgans with respect to the first marker of the chromosome.
d
Percentage of variance accounted for by the QTL.
e
The sign of the allelic effect is calculated as the mean effect of replacing both Shahdara alleles by Bay-0 alleles at the QTL. Thus, + indicates that the Bay-0 allele increases the trait value.