Fitting and validating the genomic evaluation model to Polish Holstein-Friesian cattle

详细信息    查看全文

• 作者：Joanna Szyda (1)
  Andrzej ?arnecki (2)
  Tomasz Suchocki (1)
  Stanis?aw Kamiński (3)
  
• 关键词：Dairy cattle ; Genomic selection ; Model validation ; Single nucleotide polymorphism
• 刊名：Journal of Applied Genetics
• 出版年：2011
• 出版时间：August 2011
• 年：2011
• 卷：52
• 期：3
• 页码：363-366
• 全文大小：140KB
• 参考文献：1. Calus MPL (2010) Genomic breeding value prediction: methods and procedures. Animal 4:157-64 CrossRef
  2. Clark SA, Hickey JM, van der Werf JHJ (2010) How Would Different Models of Genetic Variation Affect Genomic Selection? Proceedings of the 9th WCGALP, Leipzig, Germany
  3. Grisart B, Coppieters W, Farnir F, Karim L, Ford C, Berzi P, Cambisano N, Mni M, Reid S, Simon P, Spelman R, Georges M, Snell R (2002) Positional candidate cloning of a QTL in dairy cattle: identification of a missense mutation in the bovine DGAT1 gene with major effect on milk yield and composition. Genome Res 12:222-31 CrossRef
  4. Hayes BJ, Bowman PJ, Chamberlain AJ, Goddard ME (2009) Genomic selection in dairy cattle: progress and challenges. J Dairy Sci 92:433-43 CrossRef
  5. Habier D, Tetens J, Seefried FR, Lichtner P, Thaller G (2010) The impact of genetic relationship information on genomic breeding values in German Holstein cattle. Genet Sel Evol 42:5 CrossRef
  6. Henderson CR (1984) Applications of Linear Models in Animal Breeding, University of Guelph
  7. Interbull, International Bull Evaluation Service (2010) http://www.interbull.org
  8. Jairath L, Dekkers JCM, Schaeffer LR, Liu Z, Burnside EB, Kolstad B (1998) Genetic Evaluation for Herd Life in Canada. J Dairy Sci 81:550-62 CrossRef
  9. Konstantinov KV, Hayes BJ (2010) Comparison of BLUP and Reproducing kernel Hilbert spaces methods for genomic prediction of breeding values in Australian Holstein Friesian cattle. Proceedings of the 9th WCGALP, Leipzig, Germany
  10. Legarra A, Misztal I (2008) Technical Note: Computing Strategies in Genome-Wide Selection. J Dairy Sci 91:360-66 CrossRef
  11. Liu Z (2010) Dairy cattle genetic evaluation enhanced with genomic information. Proceedings of the 9th WCGALP, Leipzig, Germany
  12. Lund MS, Su G (2009) Genomic selection in the Nordic countries. Interbull 39:29-2
  13. M?ntysaari E, Liu Z, VanRaden P (2010) Interbull Validation Test for Genomic Evaluations. Interbull, Bulletin, 41
  14. Mrode R, Coffey MP, Strandén I, Meuwissen THE, van Kaam JBCHM, Kearney JF, Berry DP (2010) A Comparison Of Various Methods For The Computation Of Genomic Breeding Values Of Dairy Bulls Using Software At Genomicselection.net. Proceedings of the 9th WCGALP, Leipzig, Germany
  15. Shepherd R. Meuwissen THE, Woolliams J (2010) A Fast EM Algorithm For Genomic Selection. Proceedings of the 9th WCGALP, Leipzig, Germany
  16. Strandén I, Garrick DJ (2009) Technical note: Derivation of equivalent computing algorithms for genomic predictions and reliabilities of animal merit. J Dairy Sci 92:2971-975 CrossRef
  17. VanRaden PM (2008) Efficient methods to compute genomic predictions. J Dairy Sci 91:4414-423 CrossRef
  18. VanRaden PM, Van Tassell CP, Wiggans GR, Sonstegard TS, Schnabel RD, Taylor JF, Schenkel FS (2009) Invited Review: Reliability of genomic predictions for North American Holstein bulls. J Dairy Sci 92:16-4 CrossRef
  19. ?arnecki A, Morek-Kope? M, Jagusiak W (2003) Genetic parameters of linearly scored conformation traits of Polish Black-and-White cows. J Anim Feed Sci 12:689-96
  
• 作者单位：Joanna Szyda (1)
  Andrzej ?arnecki (2)
  Tomasz Suchocki (1)
  Stanis?aw Kamiński (3)
  
  1. Department of Animal Genetics, Wroc?aw University of Environmental and Life Sciences, Ko?uchowska 7, 51-31, Wroc?aw, Poland
  2. Institute of Animal Breeding and Genetics, National Research Institute of Animal Production, Krakowska 1, 32-83, Kraków, Poland
  3. Department of Animal Genetics, University of Warmia and Mazury, Oczapowskiego 5, 10-18, Olsztyn, Poland
  
• ISSN：2190-3883

文摘

The aim of the study was to fit the genomic evaluation model to Polish Holstein-Friesian dairy cattle. A training data set for the estimation of additive effects of single nucleotide polymorphisms (SNPs) consisted of 1227 Polish Holstein-Friesian bulls. Genotypes were obtained by the use of Illumina BovineSNP50 Genotyping BeadChip. Altogether 29 traits were considered: milk-, fat- and protein- yields, somatic cell score, four?female fertility traits, and 21 traits describing conformation. The prediction of direct genomic values was based on a mixed model containing deregressed national proofs as a dependent variable and random SNP effects as independent variables. The correlations between direct genomic values and conventional estimated breeding values estimated for the whole data set were overall very high and varied between 0.98 for production traits and 0.78 for non return rates for cows. For the validation data set of 232 bulls the corresponding correlations were 0.38 for milk-, 0.37 for protein-, and 0.32 for fat yields, while the correlations between genomic enhanced breeding values and conventional estimated breeding values for the four traits were: 0.43, 0.44, 0.31, and 0.35. This model was able to pass the interbull validation criteria for genomic selection, which indicates that it is realistic to implement genomic selection in Polish Holstein-Friesian cattle.