• Home
  • E-Submission
  • Sitemap
  • Contact Us
Asian-Australas J Anim Sci. Search

CLOSE


Go to Top Go to Bottom
Asian-Australas J Anim Sci > Accepted Articles
DOI: https://doi.org/10.5713/ajas.18.0816    [Accepted] Published online February 14, 2019.
Accuracy of Genomic-Polygenic EBV for Milk Yield and Fat Yield in the Thai Multibreed Dairy Population with Five SNP Sets
Bodin Wongpom1, Skorn Koonawootrittriron1,*  , Mauricio A. Elzo2, Thanathip Suwanasopee1, Danai Jattawa1
1Department of Animal Science, Kasetsart University, Bangkok 10900, Thailand
2Department of Animal sciences, University of Florida, Gainesville, FL 32611-0910, USA
Correspondence:  Skorn Koonawootrittriron, Tel: +66-2-5791120, Fax: +66-2-5791120, Email: agrskk@ku.ac.th
Received: 28 October 2018   • Revised: 23 November 2018   • Accepted: 12 February 2019
Abstract
Objective: The objectives were to compare variance components, genetic parameters, prediction accuracies, and genomic-polygenic EBV rankings for milk yield (MY) and fat yield (FY) in the Thai multibreed dairy population computed using five SNP sets from GeneSeek GGP80K chip.

Methods

The dataset contained monthly MY and FY of 8,361 first-lactation cows from 810 farms. Variance components, genetic parameters, and EBV for five SNP sets from the GeneSeek GGP80K chip were obtained using a 2-trait single-step average-information REML procedure. The SNP sets were the complete SNP set (all available SNP; SNP100), top 75% set (SNP75), top 50% set (SNP50), top 25% set (SNP25) and top 5% set (SNP5). The 2-trait models included herd-year-season, heterozygosity and age at first calving as fixed effects, and animal additive genetic and residual as random effects.

Results

The estimates of additive genetic variances for MY and FY from SNP subsets were mostly higher than those of the complete set. The SNP25 MY and FY heritability estimates (0.276 and 0.183) were higher than those from SNP75 (0.265 and 0.168), SNP50 (0.275 and 0.179), SNP5 (0.231 and 0.169) and SNP100 (0.251and 0.159). The SNP25 EBV accuracies for MY and FY (39.76% and 33.82%) were higher than for SNP75 (35.01% and 32.60%), SNP50 (39.64% and 33.38%), SNP5 (38.61% and 29.70%) and SNP100 (34.43% and 31.61%). All rank correlations between SNP100 and SNP subsets were above 0.98 for both traits, except for SNP100 and SNP5 (0.93 for MY; 0.92 for FY).
Conclusion
The high SNP25 estimates of genetic variances, heritabilities, EBV accuracies, and rank correlations between SNP100 and SNP25 for MY and FY indicated that genotyping animals with SNP25 dedicated chip would be a suitable alternative to maintain genotyping costs low while speeding up genetic progress for MY and FY in the Thai dairy population.
Keywords: Accuracy; Cattle; Genome; Imputation; Ranking; Tropics


ABOUT
SPECIALTIES
BROWSE ARTICLES
FOR AUTHORS AND REVIEWERS
Editorial Office
Asian-Australasian Association of Animal Production Societies(AAAP)
Room 708 Sammo Sporex, 23, Sillim-ro 59-gil, Gwanak-gu, Seoul
08776, Korea   TEL : +82-2-888-6558    FAX : +82-2-888-6559   
E-mail : jongkha@hotmail.com               

Copyright © 2019 by Asian-Australasian Journal of Animal Sciences. All rights reserved.

Developed in M2community

Close layer
prev next