Single-step genomic evaluation for linear type traits of Holstein cows in Czech Republic

• Autorzy: Zavadilova L. , Pribyl J. , Vostry L. , Bauer J.
• Języki publikacji: EN

Abstrakty

EN

The single-step method of genomic evaluation using both a uni-trait and a multi-trait animal model was applied for 20 linear type traits of Holstein cows in the Czech Republic. Phenotypic data on linear scoring were available for 143,208 Holstein cows first calved between years 2005 to 2010. Single nucleotide polymorphism (SNP) markers from the Illumina BovineSNP50 BeadChipV2 (Illumina Inc., San Diego, USA) were available for 631 sires. Breeding values (traditional breeding value, EBV) were estimated by uni-trait and multi-trait BLUP animal models using the pedigreebased relationship matrix. Genomic breeding value (GEBV) was estimated by single step genomic BLUP (ssGBLUP) using the pedigree-based relationship matrix augmented by the genomic relationship matrix. The model included fixed effects of herd-date of classification, classifier and season of calving, linear and quadratic regressions on age at calving and on days in milk and the random additive genetic effect of animal. Correlations between parent average, predicted GEBV and post-progeny test EBV were slightly higher for uni-trait analyses than for multi-trait analyses.Excluding udder traits, the average uni-trait correlations with the post-progeny test EBV were 0.44 for parent average and 0.46 for predicted GEBV, whereas multi-trait correlations were 0.42 and 0.44, respectively. When udder traits were included, average uni-trait correlations with the postprogeny test EBV were 0.09 for parent average and 0.14 for predicted GEBV, while multi-trait correlations were 0.29 and 0.33, respectively.

• Wydawca: -
• Czasopismo: Animal Science Papers and Reports
• Rocznik: 2014
• Tom: 32
• Numer: 3
• Opis fizyczny: p.201-208,ref.

Twórcy

autor

Zavadilova L.

• Institute of Animal Science, Pratelstvi 815, 104 01 Praha - Uhrineves, Czech Republic

autor

Pribyl J.

• Institute of Animal Science, Pratelstvi 815, 104 01 Praha - Uhrineves, Czech Republic

autor

Vostry L.

• Institute of Animal Science, Pratelstvi 815, 104 01 Praha - Uhrineves, Czech Republic

autor

Bauer J.

• Institute of Animal Science, Pratelstvi 815, 104 01 Praha - Uhrineves, Czech Republic

Bibliografia

• AGUILAR I., MISZTAL I., JOHNSON D.L., LEGARRA A., TSURUTA S., LAWLOR T.J., 2010 – Hot topic: A unified approach to utilize phenotypic, full pedigree, and genomic information for genetic evaluation of Holstein final score. Journal of Dairy Science 93, 743-752.
• AGUILAR I., MISZTAL I., TSURUTA S., WIGGANS G.R., LAWLOR T.J., 2011 – Multiple trait genomic evaluation of conception rate in Holsteins. Journal of Dairy Science 94, 2621-2624.
• CALUS M.P.L., 2010 – Genomic breeding value prediction: methods and procedures. Animal 4,157-164.
• CHRISTENSEN O.F., LUND M.S., 2010 – Genomic prediction when some animals are not genotyped. Genetics Selection Evolution 42, 2.
• HAYES B.J., BOWMAN P.J., CHAMBERLAIN A.J., GODDARD M.E., 2009 – Invited review:Genomic selection in dairy cattle: progress and challenges. Journal of Dairy Science 92, 433-443.
• FORNI S., AGUILAR I., MISZTAL I., 2011 – Different genomic relationship matrices for singlestep analysis using phenotypic, pedigree and genomic information. Genetics Selection Evolution 43, 1.
• MADSEN P., JENSEN J., 2010 – DMU – a package for analysing multivariate mixed models Version 6, release 50, 30 pp Retrieved on 10 January 2011, from http://dmu.agrsci.dk
• MISZTAL I., LEGARRA A., AGUILAR I., 2009 – Computing procedures for genetic evaluation including phenotypic, full pedigree, and genomic information. Journal of Dairy Science 92, 4648-4655.
• MISZTAL I., LAWLOR T.J., SHORT T.H., VAN RADEN P.M., 1992 – Multiple-trait estimation of variance components of yield and type traits using an animal model. Journal of Dairy Science 75,544-554.
• NĚMCOVÁ E., ŠTÍPKOVÁ M., ZAVADILOVÁ L., 2011 – Genetic parameters for linear type traits in Holstein cattle. Czech Journal of Animal Science 56, 157-162.
• PRYCE J.E., GREDLER B., BOLORMAA S., BOWMAN P.J., EGGER-DANNER C., FUERST C.,EMMERLING R., SÖLKNER J., GODDARD M.E., HAYES B.J., 2011 – Short communication:Genomic selection using a multi-breed, across-country reference population. Journal of Dairy Science 94, 2625-2630.
• PŘIBYL J., HAMAN J., KOTT T., PŘIBYLOVÁ J., ŠIMEČKOVÁ M., VOSTRÝ L., ZAVADILOVÁ L., ČERMÁK V., RŮŽIČKA Z., ŠPLÍCHAL J., VERNER M., MOTYČKA J., VONDRÁŠEK L.,2012 – Single-step prediction of genomic breeding value in a small dairy cattle population with strong import of foreign genes. Czech Journal of Animal Science 57, 151-159.
• SAS, 2002 – Release 9.1 (TS1M3) of the SAS® System for Microsoft® Windows®. SAS Institute, Inc., Cary, USA.
• SU G., MADSEN P., NIELSEN U.S., MANTYSAARI E.A., AAMAND G.P., CHRISTENSEN O.F.,LUND M.S., 2012 – Genomic prediction for Nordic Red Cattle using one-step and selection index blending Journal of Dairy Science 95, 909-917.
• TSURUTA S., MISZTAL I., AGUILAR I., LAWLOR T.J., 2011 – Multiple-trait genomic evaluation of linear type traits using genomic and phenotypic data in US Holsteins. Journal of Dairy Science 94, 4198-4204.
• VAN RADEN P.M., VAN TASSELL C.P., WIGGANS G.R., SONSTEGARD T.S., SCHNABEL R.D., TAYLOR J.F., SCHENKEL F.S., 2009 – Invited review: Reliability of genomic predictions for North American Holstein bulls. Journal of Dairy Science 92, 16-24.
• VITEZICA Z.G., AGUILAR I., MISZTAL I., LEGARRA A., 2011 – Bias in genomic predictions for populations under selection. Genetic Research 93, 357-366.
• ZAVADILOVÁ L., NĚMCOVÁ E., ŠTÍPKOVÁ M., 2011 – Effect of type traits on functional longevity of Czech Holstein cows estimated from a Cox proportional hazards model. Journal of Dairy Science 94, 4090-4099.
• ZAVADILOVÁ L., ŠTÍPKOVÁ M., 2012 – Genetic correlations between longevity and conformation traits in the Czech Holstein population. Czech Journal of Animal Science 57, 125-136.
• ZINK V., ŠTÍPKOVÁ M., LASSEN J., 2011 – Genetic parameters for female fertility, locomotion,body condition score, and linear type traits in Czech Holstein cattle. Journal of Dairy Science 94,5176-5182.