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Table 6 SNP markers significantly associated (−log10(P) ≥ 3) with yellow pigment content identified by GWAS (model MLM + K + PCs) in the whole tetraploid wheat collection and in the durum sub-population evaluated in two environments (F08, V09)

From: The carotenoid biosynthetic and catabolic genes in wheat and their association with yellow pigments

SNP marker SNP allele Chrom Position cM Whole collection Durum subpopulation
     Allele frequency F08 V09 Mean R2 (%) Effect Allele frequency F08 V09 Mean R2 (%) Effect
IWB9815 A/G 3B 93.8 0.15–0.85 3.4 - -     - - -   
IWB58319 A/G 4B 17.7 0.50–0.50 - 3.8 3.0 5.3 −0.84 0.55–0.45 - 3.8 3.3 10.9 −1.17
IWB72011 C/T 4B 43.9 0.67–0.33 - - -    0.84–0.16 - 3.3 3.0 10.9 1.79
IWB68046 A/G 5A 84.2 0.84–0.16 3.0 - -     - - -   
IWB57337 A/G 5B 53.4 0.70–0.30 - 3.1 -     - - -   
IWB72567 C/T 7A 102.3 0.53–0.47 6.0 5.5 6.1 13.6 −1.54 0.28–0.72 5.7 4.9 5.4 22.1 −1.90
IWB49295 A/G 7A 203.4 0.34–0–66 - 3.8 4.0 7.2 −1,10 0.19–0.81 - 3.2 3.2 10.4 −1.43
  1. - = not significant
  2. R2 = Phenotypic variation explained by the QTL (%)
  3. Chromosome and map position from Maccaferri [29] and -log10(P) value are reported for each marker in each environment and in the mean of the environments. Phenotypic variation (R2) and additive effect are reported only for markers significant in the mean of all two environments