Ordas et al. BMC Genomics 2010, 11:174 http://www.biomedcentral.com/1471-2164/11/174 Page 5 of 10 Table 3 Summary of QTLs detected in the RIL population derived from a EP39 × EP42 evaluated in two environments under artificial infestation with corn borer eggs. Cross validation âTS.ESd QTL bina Confidence interval LOD score Flanking markers R2adj pb âc Frequency (%) P Median Percentile (10, 90) Stalk tunnel length (cm) 1.02 4-30 4.25 bumnlgc11202124 11.6 -2.83 -2.85 (-3.33, -2.42) 91.9 3.05 71-98 3.87 uummcc11157349 9.6 2.40 2.47 (2.14, 3.01) 78.7 8.05 4-21 3.46 uummcc11988548 9.6 2.57 2.63 (2.22, 3.22) 77.7 Final fit 33.2 8.7 Relative stalk tunnel length 8.05 9-21 4.91 uummcc11988548 15.0 0.02 0.02 (0.018, 0.027) 65.0 Final fit 28.4 0.0 Cob damage (1-9 scale)e 1.12 297-301 2.54 uummcc11772957 7.5 0.29 0.33 (0.29, 0.37) 29.0 Final fit 7.0 0.0 Silking (days) 1.03 51-70 3.22 upmhi0c011003 9.5 -0.94 -0.98 (-1.19, -0.85) 34.9 2.08 148-196 3.48 pbhnil1g217520 11.2 2.11 2.19 (1.86, 2.63) 50.4 4.04 64-86 4.87 uummcc11916432 13.7 1.58 1.43 (1.19, 1.71) 55.3 4.06 124-138 2.80 uummcc11382497 8.2 -0.87 -1.07 (-1.29, -0.91) 59.7 8.05 22-30 10.8 ubmnlgc11885182 29.4 -1.62 -1.41 (-1.64, -1.13) 92.1 9.05 61-85 5.49 ubmnlgc11489122 15.9 1.35 1.27 (1.06, 1.55) 63.3 Final fit 45.5 18.9 Plant height (cm) 3.05 71-98 5.97 uummcc11157349 16.6 5.04 5.27 (4.18, 6.94) 98.4 Final fit 16.1 12.8 Grain humidity (%) 3.05 71-101 5.60 ubmnlgc1159379 16.0 0.63 0.66 (0.51, 0.89) 95.8 Final fit 11.7 0.7 Yield (t ha-1) 4.08 158-192 2.44 uummcc11656773 7.3 0.21 0.22 (0.18, 0.26) 36.5 5.05 93-128 2.85 uummcc11509119 8.5 -0.18 -0.22 (-0.28, -0.19) 44.6 8.05 10-30 3.46 ubmnlgc11885281 10.3 0.23 0.23 (0.20, 0.28) 39.8 8.08 55-66 4.07 uummcc11035854 12.5 0.25 0.24 (0.20, 0.32) 51.4 Final fit 22.5 9.06 a Bin locations are designed by an X.Y code, where X is the linkage group containing the Bin and Y is the location of the Bin within the linkage group (Gardiner et al., 1993). b Proportion of the genotypic variance explained by detected QTL, adjusted for QTL × Environment interaction, and calculated using the whole data set. c Additive effects calculated in the whole data set. Positive additive effects indicate that the EP42 allele increases the value of the trait. d Median and percentiles of the additive effects, frequency of QTL detection and proportion of the genotypic variance explained by detected QTL alculated in 200 cross-validation runs. e Cob damage was estimated on a 9 point scale (9 = without injury; 1 = wholly damaged)