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The use of genomic data and imputation methods in dairy cattle breeding

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  • Anita Klímová

    (Department of Genetics and Breeding, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Prague - Suchdol, Czech Republic
    Department of Genetics and Breeding of Farm Animals, Institute of Animal Science, Prague - Uhříněves, Czech Republic)

  • Eva Kašná

    (Department of Genetics and Breeding of Farm Animals, Institute of Animal Science, Prague - Uhříněves, Czech Republic)

  • Karolína Machová

    (Department of Genetics and Breeding, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Prague - Suchdol, Czech Republic)

  • Michaela Brzáková

    (Department of Genetics and Breeding of Farm Animals, Institute of Animal Science, Prague - Uhříněves, Czech Republic)

  • Josef Přibyl

    (Department of Genetics and Breeding of Farm Animals, Institute of Animal Science, Prague - Uhříněves, Czech Republic)

  • Luboš Vostrý

    (Department of Genetics and Breeding, Faculty of Agrobiology, Food and Natural Resources, Czech University of Life Sciences Prague, Prague - Suchdol, Czech Republic)

Abstract

The inclusion of animal genotype data has contributed to the development of genomic selection. Animals are selected not only based on pedigree and phenotypic data but also on the basis of information about their genotypes. Genomic information helps to increase the accuracy of selection of young animals and thus enables a reduction of the generation interval. Obtaining information about genotypes in the form of SNPs (single nucleotide polymorphisms) has led to the development of new chips for genotyping. Several methods of genomic comparison have been developed as a result. One of the methods is data imputation, which allows the missing SNPs to be calculated using low-density chips to high-density chips. Through imputations, it is possible to combine information from diverse sets of chips and thus obtain more information about genotypes at a lower cost. Increasing the amount of data helps increase the reliability of predicting genomic breeding values. Imputation methods are increasingly used in genome-wide association studies. When classical genotyping and genome-wide sequencing data are combined, this option helps to increase the chances of identifying loci that are associated with economically significant traits.

Suggested Citation

  • Anita Klímová & Eva Kašná & Karolína Machová & Michaela Brzáková & Josef Přibyl & Luboš Vostrý, 2020. "The use of genomic data and imputation methods in dairy cattle breeding," Czech Journal of Animal Science, Czech Academy of Agricultural Sciences, vol. 65(12), pages 445-453.
    • Handle: RePEc:caa:jnlcjs:v:65:y:2020:i:12:id:83-2020-cjas
    DOI: 10.17221/83/2020-CJAS
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    References listed on IDEAS

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    1. Bryan N Howie & Peter Donnelly & Jonathan Marchini, 2009. "A Flexible and Accurate Genotype Imputation Method for the Next Generation of Genome-Wide Association Studies," PLOS Genetics, Public Library of Science, vol. 5(6), pages 1-15, June.
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