Genomic evaluation by including dominance effects and inbreeding depression for purebred and crossbred performance with an application in pigs

Table 5 Marker-based and pedigree-based inbreeding coefficients f and estimated inbreeding depression parameter b (piglets per 100% of inbreeding) in different scenarios for each breed

	L	Y	LY
Marker-based inbreeding coefficient f ^a	0.695 (0.019)	0.698 (0.020)	0.565 (0.012)
Pedigree-based inbreeding coefficient f ^b	0.111 (0.032)	0.078 (0.031)	0
Nogen (b)	−4.821	−3.561	0
Gen_AM (b)	−9.656	−1.924	−5.122
Gen_ADM (b)	−9.731	−1.878	−5.055

The inbreeding coefficient is the mean inbreeding coefficient across individuals within each breed
Numbers between brackets are the standard deviations of the mean inbreeding coefficient
For Nogen, the inbreeding depression parameter b is the regression of phenotype on pedigree-based inbreeding. For Gen_AM and Gen_ADM, the inbreeding depression parameter b is the regression of phenotype on marker-based inbreeding
^aCalculated as the proportion of homozygous loci per individual
^bCalculated as in Meuwissen and Luo [41]

ISSN: 1297-9686