Sparse single-step method for genomic evaluation in pigs

Table 5 Summary statistics for animals in the core groups for the Duroc breed for alternate scenarios for choice of the core group

Scenario	Mean pedigree relatedness within core	Mean of absolute values of columns of \({\mathbf{A}}_{22}^{ - 1}\) for core	Mean number of genotyped offspring	Part of genotyped animals in core for each birth year
Scenario	Mean pedigree relatedness within core		Mean number of genotyped offspring	2014	2013	2012	2011	<2011
NormalG^a	0.21	0.0005	1.0	1	1	1	1	1
Random10^b	0.21	0.0006	1.0	0.10	0.10	0.11	0.10	0.10
Unrelated10^c	0.15	0.0006	0.7	0	0	0.01	0.05	0.44
Offspring10^d	0.19	0.0022	9.8	0	0.08	0.17	0.13	0.23
OffspringRandom10^e	0.21	0.0021	9.4	0.09	0.06	0.13	0.10	0.13
Random30^b	0.21	0.0005	1.0	0.31	0.29	0.31	0.29	0.30
Random50^b	0.21	0.0006	1.0	0.50	0.48	0.50	0.50	0.51
Old10^f	0.15	0.0008	1.6	0	0	0	0	0.48
Young10^g	0.25	0.0003	0	0.29	0	0	0	0

^aNormalG is the usual single-step procedure without sparse approximations
^bRandom10, Random30, Random50 are the sparse single-step, where a random subset of animals (10, 30, 50 %) were treated as core
^cUnrelated10 is 10 % animals chosen as core by minimizing the degree of relatedness between core animals
^dOffspring10 is 10 % animals chosen based on the number of genotyped offspring
^eOffspringRandom10 is, for old animals (excluding last year of birth) 10 % animals chosen based on the number of genotyped offspring, whereas for young animals (last year of birth) 10 % of the animals were chosen at random
^fOld10 is the sparse single-step, where the 10 % oldest animals were treated as core
^gYoung10 is the sparse single-step, where the 10 % youngest animals were treated as core

ISSN: 1297-9686