Table 5.
Average (±SD) difference for multiple genome-wide diversity metrics between the parents and their associated progeny across different mate allocation scenarios
| Breed | Diversity parametera | Relationship used to constrain parental relationshipsb | |||
|---|---|---|---|---|---|
| Random | A | SNPRM | ROHRM | ||
| LW | Pedigree inbreeding | 0.011 (0.001) | −0.001 (0.001) | 0.004 (0.001) | 0.004 (0.001) |
| Heterozygosity | −0.007 (0.001) | −0.004 (0.001) | 0.004 (0.001) | 0.004 (0.001) | |
| ROH5 inbreeding | 0.012 (0.002) | 0.003 (0.002) | −0.012 (0.002) | −0.014 (0.002) | |
| LA | Pedigree inbreeding | 0.008 (0.001) | −0.003 (0.002) | 0.001 (0.001) | 0.001 (0.001) |
| Heterozygosity | −0.003 (0.001) | 0.001 (0.002) | 0.006 (0.002) | 0.005 (0.002) | |
| ROH5 inbreeding | 0.006 (0.003) | −0.003 (0.003) | −0.013 (0.003) | −0.015 (0.003) | |
| DU | Pedigree inbreeding | 0.007 (0.001) | −0.007 (0.001) | −0.001 (0.001) | −0.002 (0.001) |
| Heterozygosity | −0.003 (0.001) | 0.001 (0.001) | 0.008 (0.001) | 0.006 (0.001) | |
| ROH5 inbreeding | 0.003 (0.003) | −0.006 (0.002) | −0.017 (0.002) | −0.019 (0.002) | |
DU Duroc, LW Large White, LA Landrace
aPedigree inbreeding: refers to diagonals of the pedigree-based relationship matrix; heterozygosity (%): proportion of SNPs that are heterozygous; ROH5 inbreeding (%): proportion of the genome that is in a ROH of at least 5 Mb
bRandom refers to random mating; A refers to minimizing pedigree-based parent relationships; SNPRM refers to minimizing SNP-bySNP based parent relationships; ROHRM refers to minimizing ROH-based parent relationships