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Performance of single markers vs. haplotypes to identify genomic loci associated with mastitis resistance in German Holstein cattle

Tuesday, August 19, 2014: 4:30 PM
Bayshore Grand Ballroom A (The Westin Bayshore)
Hamdy Abdel-Shafy , Department for Crop and Animal Sciences, Humboldt-Universität zu Berlin, Berlin, Germany
Ralf H Bortfeldt , Department for Crop and Animal Sciences, Humboldt-Universität zu Berlin, Berlin, Germany
Jens Tetens , Institute of Animal Breeding and Husbandry, Christian-Albrechts-Universität zu Kiel, Kiel, Germany
Georg Thaller , Institute of Animal Breeding and Husbandry, University Kiel, Kiel, Germany
Gudrun A Brockmann , Department for Crop and Animal Sciences, Humboldt-Universität zu Berlin, Berlin, Germany
Recorded Presentation (flv)
Abstract Text: GWAS using 43,062 informative SNPs and 11,374 inferred haplotype blocks were performed with EBVs for SCS in a population of 2,360 German Holstein bulls. Considering the population sub-structure, 17 SNPs and 12 haplotypes in six genomic regions were identified. Loci on BTA5, 6, 18 and 19 coincided with known QTL affecting SCS, while additional loci were found on chromosomes 13 and X. The differences between alternative SNP alleles were up to 14,000 cells/ml. The total genetic variance explained by all significant haplotype blocks was 6.6%, while it was only 4.8% by significant SNPs in those blocks. GWAS using SNP- and haplotype-based approaches may maximize the potential for finding biologically important loci. The results verify the importance of previously reported QTL and provide evidence for additional loci. Identified markers are located within or very closed to promising candidate genes.

Keywords: Dairy cattle, Udder health, Haplotypes, Candidate genes

See more of: Integrating the Discovery and Usage of Functional Mutations into Dairy Genomic selection Programs for Complex Traits
See more of: Species Breeding: Dairy cattle
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