Early Detection of Candidate Genes for Body Weight in Indonesian Cattle Breeds with Genome-Wide Association Study (GWAS)

Author:

Putra Widya Pintaka Bayu12ORCID,Hartati Hartati3ORCID,Mariyono Mariyono3ORCID,Noor Ronny Rachman4ORCID,Sumantri Cece4ORCID,Margawati Endang Tri2ORCID

Affiliation:

1. Bogor Agricultural University , Postgraduate School of Faculty Animal Science, Study Program of Animal Production and Technology Science , Bogor , Indonesia ;

2. National Research and Innovation Agency (BRIN), Research Center for Applied Zoology , Bogor , Indonesia ;

3. National Research and Innovation Agency (BRIN), Research Center for Animal Husbandry , Bogor , Indonesia ;

4. Bogor Agricultural University , Faculty of Animal Science, Department of Animal Production and Technology , Bogor , Indonesia

Abstract

Abstract Genome-wide association study (GWAS) was used to detect candidate genes affecting economic traits in livestock. GWAS can detect single nucleotide polymorphisms (SNPs) in all chromosome regions. This study aimed to determine the genetic markers for body weight by GWAS in native cattle breeds of Indonesia. The Illumina Bovine 50K BeadChip was used to determine the candidate genes in three mixed-sex Indonesian cattle breeds of Bali (16 animals), Madura (16 animals), and Ongole grade (13 animals). All animals were raised at the Pasuruan Regency, East Java, Indonesia breeding station. The GWAS was performed in pooled sample of animals (45 animals) with the general linear model (GLM) method using SNP markers with minimum allele frequency (MAF) values more than 0.05 by TASSEL 5.0. software. Therefore, the body weight of cattle at 1 to 3 years of age was collected for each animal for computing Manhattan plot graphics. This research found that SUGT1, SF3A3, and DSCAM genes were detected as potential genetic markers for body weight in cattle breeds of Indonesia. The SUGT1 and DSCAM genes were monomorphic in Bali cattle (Bos javanicus). In addition, both genes were significantly associated (P<0.05) with the body weight of Ongole-grade cattle (Bos indicus) at three years of age. However, the SF3A3 gene was significantly (P<0.05) associated with body weight of Madura cattle (Bos indicus) at 2 and 3 years of age. In conclusion, the GWAS of pool animals reveals three candidate genes significantly associated with body weight in many cattle breeds of Indonesia. Further study to detect SNPs in candidate genes with sequencing method is essential to apply these findings practically.

Publisher

Walter de Gruyter GmbH

Reference43 articles.

1. Kementan RI: Livestock and animal health statistics 2022. 2022. [Jakarta]: Directorate General of Livestock and Animal Health.

2. Kementan RI: Outlook of livestock commodities: beef. 2022 [Jakarta]: Data Center and Agricultural Information System of Ministry of Agriculture.

3. Wiyatna MF: The ratio of meat index of Indonesian cattle (Bali, Madura PO) with Australian cattle (Australian Commercial Cross). JIT 2007, 7:22–25.

4. Gurgul A, Semik E, Pawlina K, Szmatola T, Jasielczuk I, Bugno-Poniewierska M: The application of genome-wide SNP genotyping methods in studies of livestock genomes. J Appl Genetics 2014.

5. Hartati H, Utsunomiya YT, Sonstegard TS, Garcia JF, Jakaria J, Muladno M: Evidence of Bos javanicus × Bos indicus hybridization and major QTLs for birth weight in Indonesian Peranakan Ongole cattle. BMC Genetics 2015, 16:75.

Cited by 1 articles. 订阅此论文施引文献 订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3