Table 2.
Chromosomal locations and parameters associated with quantitative trait loci (QTL) of disease index (DX) in MD 96-5722 and ‘Spencer’ RIL population evaluated in three different environments in Carbondale, IL in 2010, Valmeyer, IL in 2010 and Valmeyer, IL in 2011
| No. | QTL (Env.) | LG/Chr | Peak position (cM)a | 2-LOD support interval (cM)b | Markers interval | Peak LODc | R2 (%)d | Additive effectse |
|---|---|---|---|---|---|---|---|---|
| 1 | qDX001 (Car.10) | D1b/Chr_1 | 15.7 | 15.60–15.90 | ss244562583-ss244554797 | 7.36 | 0.92 | 11.77 |
| 2 | qDX002 (Val.11) | D1b/Chr_1 | 15.7 | 15.40–16.10 | ss244562583-ss244554797 | 3.61 | 0.50 | −0.14 |
| 3 | qDX003 (Car.10) | N/Chr_3 | 15.80 | 15.70–15.90 | ss245026358-ss245025977 | 9.19 | 0.80 | 13.24 |
| 4 | qDX004 (Val.11) | N/Chr_3 | 16.1 | 15.90–16.10 | ss245025977-ss245026227 | 3.48 | 0.10 | 2.96 |
| 5 | qDX005 (Car.10) | A1/Chr_5 | 9.50 | 9.20–10.00 | ss245747167-ss245786667 | 9.21 | 0.04 | −1.46 |
| 6 | qDX005 (Val.11) | A1/Chr_5 | 9.50 | 8.50–11.70 | ss245747167-ss245786667 | 10.10 | 0.01 | −0.28 |
| 7 | qDX006 (Car.10) | C2/Chr_6 | 7.30 | 7.20–7.30 | ss246091245-ss246092064 | 5.55 | 0.89 | 12.71 |
| 8 | qDX007 (Val.10) | C2/Chr_6 | 7.30 | 7.20–7.50 | ss246087580-ss246092064 | 3.38 | 0.60 | 12.26 |
| 9 | qDX008 (Val.11) | C2/Chr_6 | 7.30 | 7.20–7.30 | ss246091245-ss246092064 | 7.40 | 0.54 | 0.46 |
| 10 | qDX009 (Val.11) | K/Chr_9 | 0.50 | 0.40–0.50 | ss246870684-ss246865400 | 4.13 | 0.53 | 0.49 |
| 11 | qDX010 (Car.10) | O/Chr_10 | 2.30 | 1.30–3.30 | ss247085505-ss247098566 | 7.63 | 0.04 | −0.80 |
| 12 | qDX011 (Car.10) | F/Chr_13 | 2.70 | 2.50–2.80 | ss247942156-ss247937719 | 5.04 | 0.11 | −0.08 |
| 13 | qDX012 (Car.10) | B2/Chr_14 | 3.00 | 1.40–4.10 | ss248293401-ss248275088 | 5.96 | 0.03 | 0.87 |
| 14 | qDX013 (Car.10) | B2/Chr_14 | 15.00 | 12.90–18.20 | ss248293401-ss248275088 | 17.10 | 0.03 | 0.45 |
| 15 | qDX014 (Val.11) | B2/Chr_14 | 12.00 | 10.30–13.00 | ss248293401-ss248275088 | 6.39 | 6.37 | 14.33 |
| 16 | qDX015 (Car.10) | E/Chr_15 | 2.50 | 1.50–3.00 | ss248604753-ss248616287 | 4.30 | 0.05 | 0.09 |
| 17 | qDX016 (Val.11) | E/Chr_15 | 2.50 | 1.40–2.70 | ss248604753-ss248616287 | 5.89 | 0.60 | 3.11 |
| 18 | qDX017 (Car.10) | J/Chr_16 | 11.90 | 11.50–14.00 | ss248983974-ss248977568 | 10.18 | 0.85 | −0.58 |
| 19 | qDX018 (Car.10) | L/Chr_19 | 0.10 | 0.0–0.70 | ss250232030-ss250233870 | 3.12 | 0.01 | 0.33 |
aPosition of peak LOD value on composite maps described previously (Coles et al. 2010)
bThe positions that define the two LOD intervals around the position of peak likelihood for the QTL
cThe log of odds (LOD) value at the position of peak likelihood of the QTL
dR2 estimates the proportion of RIL mean variance (%) explained by the detected QTL
eA positive number in additive effect of the QTL indicate that the allele for susceptibility was derived from the line indicated and a negative number mean that the allele for resistance was derived from the line indicated