Figure 3

Manhattan plots generated in association analyses using the best linear unbiased predictor (BLUP) values of the three traits analyzed. Six different models were tested: general, additive, simplex dominant reference (1-dom-ref), simplex dominant alternative (1-dom-alt), diploidized general (diplo-general) and diploidized additive (diplo-additive). On the x-axis, S represents scaffolds not associated with any of the S. spontaneum chromosomes.