Theoretical accuracy for indirect predictions based on SNP effects from single-step GBLUP

Table 1 Number of animals with genotypes, phenotypes, and pedigree information in each scenario

Scenario	Genotypes	Phenotypes	Pedigree
direct	54,533	38,000	230,639
apy	54,533	38,000	230,639
2K-50K	2K-50K	38,000	230,639
core (15K)	15,000	38,000	230,639
hacc (15K)	15,000	38,000	230,639
core_prog (15K)	15,000	22,625	101,837
hacc_prog (15K)	15,000	32,673	106,051

direct: all genotyped animals (N = 54,533) and phenotypes with direct \({\textbf{G}}^{-{\bf{1}}}\); apy: all genotyped animals (N = 54,533) and phenotypes with APY \({\textbf{G}}^{-{\bf{1}}}\); 50K-2K: all phenotypes and decreasing the number of genotyped animals from 50K to 2K; core: genotypes for core animals only (N = 15K) and all phenotypes; hacc: genotypes for high accuracy animals only (N = 15K) and all phenotypes; core_prog: genotypes and phenotypes for core animals plus their progeny phenotypes; hacc_prog: genotypes and phenotypes for high accuracy animals plus their progeny phenotypes

ISSN: 1297-9686