Document Type : Research Paper
Authors
1 Agriculture And Natural Resources University Of Khouzestan
2 Khuzestan Agricultural and Natural Resources University
3 Assistant professor, Department of Animal and Poultry Science College of Aburaihan, University of Tehran 465 Pakdasht, Iran
4 Professor, School of Environmental and Rural Science, University of New England, Armidale, Australia
Abstract
Since SNP markers in genomic selection spread across the genome, they may potentially explain all of genetic variation. In this study, genotype data from Suffolk sheep, genotyped by 50k Illumina SNP chip were used. Birth weight and weaning weight traits were studied in this research. Quality control for minor allele frequency at two thresholds, one and five percent were studied. To study the association between allele frequency spectrum and captured additive genetic variance, all SNPs were partitioned in five MAF bins with the equal numbers of SNPs. The analysis were performed using GREML approach via GCTA method. Using all SNPs with MAF>0.01 estimates of genomic heritability were 0.45 and 0.19 for birth weight and weaning weight, respectively. For MAF>0.05 these values were 0.42 and 0.18 respectively. The contribution of different groups of SNPs with rare allele frequency in justifying genetic variation for the two traits was different. In general, a significant portion of the genetic variance was explained by SNPs with a MAF
Keywords
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