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Four Parent Maize (FPM) Population: Effects of Mating Designs on Linkage Disequilibrium and Mapping Quantitative Traits

Intermating did not expand phenotypic variation of quantitative traits in FPM populations. Three intermating generations increased genetic resolution 4‐fold, reducing LD 2.5‐fold. Mating designs had little effect on mapping power, population size was more important. Some intermating is needed to minimize admixture LD in multi‐parent crosses. Surprisingly few QTL were detected, given high heritability and large population size.