Figure 2.

Accuracies of genomic prediction for traits that are controlled by QTL with different properties when 1000 QTL underlie the trait. Average accuracies of genomic prediction (± standard errors) for Holstein-Friesian (HF, solid fill) and Jersey (J, diagonal fill) animals using a model that included a random across-breed animal effect and a within-breed animal effect, 606 384 SNPs, seven different reference populations and using simulated allele substitution effects (A) randomly sampled from a gamma distribution or (B) with each QTL explaining an equal proportion of the genetic variance, when 1000 QTL underlying the trait were sampled from variants with on average a moderately low allele frequency (black), very low minor allele frequency (dark grey) or extremely low minor allele frequency (light grey).