Genomic prediction based on selective linkage disequilibrium pruning of low-coverage whole-genome sequence variants in a pure Duroc population

Table 1 Summary of the populations, number of animals used in the analyses, and means/medians of the phenotypic traits

Phenotype	Population	Individuals	Mean ± standard deviation	Median
AGE	Discovery	1000	154.66 ± 9.01	154.48
	Training	2108	155.07 ± 9.43	155.01
	Validation	441	153.81 ± 9.41	154.06
BF	Discovery	1000	10.94 ± 2.36	10.61
	Training	2107	10.98 ± 2.17	10.77
	Validation	441	10.76 ± 1.92	10.64
TTN	Discovery	1000	10.70 ± 1.05	11.00
	Training	2108	10.71 ± 1.07	11.00
	Validation	441	10.76 ± 1.03	11.00

The discovery population was used in the GWAS to select significant SNPs. The training population was used to optimize the parameters of SLDP and LDP and as the reference population to predict the GEBV of the validation samples. The validation population included animals born in or after 2014 and was used for validation in the genomic prediction test
AGE age to 100 kg live weight, BF back fat thickness, TTN total teat number

ISSN: 1297-9686