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Genomic Prediction with 12.5 Million SNPs for 5503 Holstein Friesian Bulls

Tuesday, August 19, 2014
Posters (The Westin Bayshore)
Rianne van Binsbergen , Biometris, Wageningen UR, Wageningen, Netherlands
Mario P. L. Calus , Animal Breeding and Genomics Centre, Wageningen UR Livestock Research, Wageningen, Netherlands
Marco C.A.M. Bink , Biometris, Wageningen UR, Wageningen, Netherlands
Chris Schrooten , CRV, Arnhem, Netherlands
Fred A. van Eeuwijk , Biometris, Wageningen UR, Wageningen, Netherlands
Roel F. Veerkamp , Animal Breeding and Genomics Centre, Wageningen UR Livestock Research, Wageningen, Netherlands
Abstract Text: This study reports the first preliminary results of genomic prediction with whole-genome sequence data  (12,590,056 SNPs) for 5503 bulls with accurate phenotypes. Two methods were compared: genome-enabled best linear unbiased prediction (GBLUP) and a Bayesian approach (BSSVS). Results were compared with results using BovineHD genotypes (631,428 SNPs). Results were reported for somatic cell score, interval between first and last insemination, and protein yield. For all traits, and both methods genomic prediction with sequence data showed similar results compared to BovineHD and GBLUP showed similar results compared to BSSVS. However, it remains to be seen if reliability of BSSVS with sequence data will improve after more sampling cycles have been finished.

Keywords:

Whole-genome sequence

Bayesian stochastic search variable selection

GBLUP

See more of: Posters: Methods and Tools - Genome Sequencing
See more of: Methods and Tools: Genome sequencing
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