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Table 2 Summary of QTL based on a skeleton map derived from the 2846 loci data set.

From: Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley

Trait, QTL number and QTL interaction Chrom. QTL peak position 2-LOD confidence interval Morphological and/or cloned genes within 2 LOD conf. interval LOD Additive effect R2* LOD threshold MIM R2** H2
Final leaf number        3.0 0.47 0.87
1 1H 158 (154-158)   6.9 -0.9 0.17    
2 4H 118 (117-120) VRN-H2 4.6 0.7 0.10    
3 5H 157 (154-161) VRN-H1 3.5 -0.7 0.09    
4 7H 29 (26-36)   3.6 0.7 0.08    
Plant height        3.1 0.82 0.94
1 1H 131 (120-136)   7.1 -6.7 0.06    
2 2H 156 (155-158) ZEO1 32.1 -22.8 0.67    
3 3H 51 (43-60)   6.1 6.3 0.05    
4 6H 100 (74-104)   6.0 5.7 0.05    
Spike number        2.9 0.50 0.63
1 2H 99 (95-102) VRS1 13.3 3.5 0.38    
2 5H 43    2.4 -1.3 0.05    
3 6H 80    2.7 1.3 0.06    
Spike length        3.1 0.93 0.98
1 1H 158 (152-158)   6.7 -0.5 0.00    
2 2H 156 (155-159) ZEO1 45.8 -3.0 0.81    
3 3H 20 (13-23)   5.0 -0.5 0.04    
4 5H 138 (137-144)   3.8 -0.3 0.02    
5 6H 95 (93-100)   4.5 0.4 0.02    
1 × 2       0.5 0.05    
Floret number        3.0 0.87 0.97
1 1H 156 (150-158)   9.4 -5.8 0.06    
2 2H 99 (97-101) VRS1 40.3 -21.6 0.79    
3 3H 36    2.9 -2.9 0.01    
4 4H 120 (112-127) VRN-H2 3.6 3.3 0.02    
5 6H 91 (73-103)   4.6 3.7 0.02    
Grain number        3.0 0.74 0.92
1 1H 151 (142-156)   3.9 -4.9 0.01    
2 2H 99 (99-101) VRS1 20.1 -12.3 0.46    
3 2H 156 (150-163) ZEO1 10.4 -7.3 0.18    
1 × 2       2.9 0.04    
2 × 3       3.4 0.05    
Hundred grain weight       2.9 0.66 0.78
1 2H 99 (97-101) VRS1 19.9 0.5 0.53    
2 6H 60 (54-61)   3.5 -0.1 0.04    
3 7H 103 (96-111)   4.2 0.2 0.05    
Grain yield       3.1 0.29 0.49
1 1H 157 (153-158)   4.4 -2.9 0.11    
2 2H 160 (150-165) ZEO1 8.1 -4,1 0.23    
  1. ***Proportion of phenotypic the variance explained by individual QTL
  2. **R2 of the multi-locus model that includes QTL and their significant interactions calculated with MIM
  3. The QTLs in italics and underlined showed a trend in the RAD-only map but did not reach the LOD threshold.