A comprehensive study on size and definition of the core group in the proven and young algorithm for single-step GBLUP

Table 2 Distribution of genotyped pigs across years for different core definitions when the core size was equal to the number of largest eigenvalues explaining 99% of variation in the genomic relationship matrix (n = 7320 animals)

MPA: popular animals with more than 15 progeny, both parents known and with own performance record; Rnd: a random subset of animals is sampled from all genotyped animals; Ped: animals were evenly selected from the pedigree sorted in genealogical order; Fam: from each full sib family, one progeny was allowed to be in the core group; Unrel: animals with \(\le\) 0.27 genomic relationship were assigned to the core group; LPM: males with both parents known, without progeny, and without own performance records were used as core; LPF: females with both parents known, without progeny and own performance records were used as core; QR: animals selected based on a QR decomposition of the gene content matrix
^aSome core definitions resulted in less than 7320 individuals because of missing birth year

ISSN: 1297-9686