Evolving to the best SNP panel for Hanwoo breed proportion estimates

Title
Evolving to the best SNP panel for Hanwoo breed proportion estimates
Publication Date
2015
Author(s)
Esquivelzeta-Rabell, Cecilia
Al-Mamun, Hawlader A
Lee, S H
Lee, H K
Song, K D
Gondro, Cedric
( author )
OrcID: https://orcid.org/0000-0003-0666-656X
Email: cgondro2@une.edu.au
UNE Id une-id:cgondro2
Editor
Editor(s): Kim Bunter, Tim Byrne, Hans Daetwyler, Susanne Hermesch, Kathryn Kemper, James Kijas, David Nation, Wayne Pitchford, Suzanne Rowe, Matt Shaffer, Alison van Eenennaam
Type of document
Conference Publication
Language
en
Entity Type
Publication
Publisher
Association for the Advancement of Animal Breeding and Genetics (AAABG)
Place of publication
Armidale, Australia
UNE publication id
une:19957
Abstract
Hanwoo is highly prized for its marbling ability and is the most important cattle breed in Korea. In order to maintain the integrity of the breed and for product certification purposes it is important to develop tools to confirm the origin of the products. Breed composition estimates based on a large number of molecular markers (e.g. HD SNP arrays) are highly accurate but expensive for routine usage. The identification of a reliable panel with a small number of markers will reduce costs and can enable broader adoption of the technology by industry. In this work a heuristic optimization method was used to find the most reliable subset of markers, from the Illumina BovineHD array, to estimate breed proportion in Hanwoo. Accuracies of breed proportion estimates above 90% can be achieved using as little as 200 markers. The best balance between accuracy and number of SNP was obtained with 500 markers achieving 94% accuracy. Rapid and cost effective breed composition prediction in Hanwoo cattle based on a SNP panel with at least 200 markers will help to certify the products with an acceptable accuracy and ensure breed purity within the breeding program. The method described herein is directly applicable to other breeds.
Link
Citation
Proceedings of the Association for the Advancement of Animal Breeding and Genetics, v.21, p. 473-476
ISSN
1328-3227
ISBN
9780646945545
Start page
473
End page
476

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