A whole genome association study to detect additive and dominant singlenucleotide polymorphisms for growth and carcass traits in Korean nativecattle, Hanwoo

Collection with item attached
2017
Item details URL
http://open-repository.kisti.re.kr/cube/handle/open_repository/474142.do
DOI
10.5713/ajas.16.0170
Title
A whole genome association study to detect additive and dominant singlenucleotide polymorphisms for growth and carcass traits in Korean nativecattle, Hanwoo
Description
This work was supported by Program for the Outstanding Innovative Teamsof Higher Learning Institutions of Shanxi (Yi Li), the National NaturalScience Foundation of China No. 31501002 & 31470070 (Yi Li), ShanxiScholarship Council of China No.2013-072 (Yi Li) and the Natural ScienceFoundation of Shanxi No.2014011030-4 (Yi Li). Dr. Jong-Joo Kim issupported by a grant (715003-07) from the Research Center fromProduction Management and Technical Development for High QualityLivestock Products through Agriculture, Food and Rural Affairs ResearchCenter Support Program (2016).
abstract
Objective: A whole genome association study was conducted to identify single nucleotide polymorphisms (SNPs) with additive and dominant effects for growth and carcass traits in Korean native cattle, Hanwoo.
Methods: The data set comprised 61 sires and their 486 Hanwoo steers that were born between spring of 2005 and fall of 2007. The steers were genotyped with the 35,968 SNPs that were embedded in the Illumina bovine SNP 50K beadchip and six growth and carcass quality traits were measured for the steers. A series of lack-of-fit tests between the models was applied to classify gene expression pattern as additive or dominant.
Results: A total of 18 (0), 15 (3), 12 (8), 15 (18), 11 (7), and 21 (1) SNPs were detected at the 5% chromosome (genome) - wise level for weaning weight (WWT), yearling weight (YWT), carcass weight (CWT), backfat thickness (BFT), longissimus dorsi muscle area (LMA) and marbling score, respectively. Among the significant 129 SNPs, 56 SNPs had additive effects, 20 SNPs dominance effects, and 53 SNPs both additive and dominance effects, suggesting that dominance inheritance mode be considered in genetic improvement for growth and carcass quality in Hanwoo. The significant SNPs were located at 33 quantitative trait locus (QTL) regions on 18 Bos Taurus chromosomes (i. e. BTA 3, 4, 5, 6, 7, 9, 11, 12, 13, 14, 16, 17, 18, 20, 23, 26, 28, and 29) were detected. There is strong evidence that BTA14 is the key chromosome affecting CWT. Also, BTA20 is the key chromosome for almost all traits measured (WWT, YWT, LMA).
Conclusion: The application of various additive and dominance SNP models enabled better characterization of SNP inheritance mode for growth and carcass quality traits in Hanwoo, and many of the detected SNPs or QTL had dominance effects, suggesting that dominance be considered for the whole-genome SNPs data and implementation of successive molecular breeding schemes in Hanwoo.
provenance
Made available in Cube on 2018-09-28T10:38:19Z (GMT). No. of bitstreams: 0
language
English
author
Li, Yi
Gao, Yuxuan
Kim, You-Sam
Iqbal, Asif
Kim, Jong-Joo
accessioned
2018-09-28T10:38:19Z
available
2018-09-28T10:38:19Z
issued
2017
citation
ASIAN-AUSTRALASIAN JOURNAL OF ANIMAL SCIENCES(30): 1
issn
1011-2367
uri
http://open-repository.kisti.re.kr/cube/handle/open_repository/474142.do
Funder
농림수산식품부
Funding Program
생명산업기술개발
Project ID
1545005238
Jurisdiction
Rep.of Korea
Project Name
고기능성ㆍ고품질 한우육 생산기술 개발
rights
openAccess
subject
Hanwoo
Single Nucleotide Polymorphism
Whole Genome Association
Carcass Traits
Growth Traits
type
article


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