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Fig. 8 | Genome Biology

Fig. 8

From: Genetic properties of the MAGIC maize population: a new platform for high definition QTL mapping in Zea mays

Fig. 8

Fine mapping of a major QTL for PS. The linkage mapping approach shows a major QTL contributing to PS on Chr 8 (panel a). Green line and red line represent strong (P <0.01) and suggestive (P <0.63) thresholds. The top part of panel b shows founders coefficients. F7 (early flowering) contributes with low alleles to the QTL. The bottom part shows the LOD curve, red arrows point out Vgt2 and Vgt1 loci. Gray shading identifies the confidence interval of the QTL. Note that the region is magnified to show 50 Mb only. In panel c the outcome of the association mapping in the QTL area is reported. The red line is the threshold for significant associations after 500 permutations (P <0.01). Gray dots represent imputed SNPs, and colors are given to common haplotypes. In legend, numbers are given for founder imputed alleles (0 for reference, 1 for heterozygous, 2 for alternative). Haplotype strings indicate founders according to the A-H order. No founder besides the early flowering F7 show a private haplotype in the region. Panel d shows the expression pattern of GRMZM5G861659, within 1 Mb downstream the QTL confidence interval and matching founders’ contribution to the QTL

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