PIC has announced the development and implemented imputation of 60K SNP genotypes for pig nucleus selection candidates.
This technology is driven by the combination of 60K SNP genotypes of parents with the individual candidate’s genotypes for 300-400 markers. The result is high accuracy for estimated pig breeding values for each pig within a litter at a very early age, according to the company. Previously, 60K genotypes of the parents were only able to give an average genomic EBV to the litter. This advancement in swine breeding was made possible through an active research partnership with the University of New England in Australia. Scientists from the university and Genus developed the methodology and software necessary to implement imputation into PIC’s genomic selection platform.
“This has been a two-and-a-half-year project that began with funding research with UNE,” said Dr. Matthew Cleveland, Genus Quantitative Research Scientist. “A key element to the successful implementation of the imputation process was PIC’s extensive genomic database of over 20,000 animals genotyped on the 60K chip test — the largest genomic database in the industry — that allowed us to ‘train’ the software. PIC then developed the proprietary test for the candidates, verified the imputation result, developed the software system for automated production of breeding values and finally invested in a substantial upgrade in computing power to routinely handle over 1 billion genotypes.”
This technology is driven by the combination of 60K SNP genotypes of parents with the individual candidate’s genotypes for 300-400 markers. The result is high accuracy for estimated pig breeding values for each pig within a litter at a very early age, according to the company. Previously, 60K genotypes of the parents were only able to give an average genomic EBV to the litter. This advancement in swine breeding was made possible through an active research partnership with the University of New England in Australia. Scientists from the university and Genus developed the methodology and software necessary to implement imputation into PIC’s genomic selection platform.
“This has been a two-and-a-half-year project that began with funding research with UNE,” said Dr. Matthew Cleveland, Genus Quantitative Research Scientist. “A key element to the successful implementation of the imputation process was PIC’s extensive genomic database of over 20,000 animals genotyped on the 60K chip test — the largest genomic database in the industry — that allowed us to ‘train’ the software. PIC then developed the proprietary test for the candidates, verified the imputation result, developed the software system for automated production of breeding values and finally invested in a substantial upgrade in computing power to routinely handle over 1 billion genotypes.”
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