Animal Bioscience

Asian Australasian Association of Animal Production Societies (아세아태평양축산학회)
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Genome-wide association study for loin muscle area of commercial crossbred pigs

  • Menghao Luan (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Donglin Ruan (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Yibin Qiu (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Yong Ye (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Shenping Zhou (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Jifei Yang (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Ying Sun (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Fucai Ma (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Zhenfang Wu (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Jie Yang (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Ming Yang (College of Animal Science and Technology, Zhongkai University of Agriculture and Engineering) ;
  • Enqin Zheng (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Gengyuan Cai (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University) ;
  • Sixiu Huang (College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University)
  • Received : 2022.10.24
  • Accepted : 2022.12.24
  • Published : 2023.06.01
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Abstract

Objective: Loin muscle area (LMA) is an important target trait of pig breeding. This study aimed to identify single nucleotide polymorphisms (SNPs) and genes associated with LMA in the Duroc×(Landrace×Yorkshire) crossbred pigs (DLY). Methods: A genome-wide association study was performed using the Illumina 50K chip to map the genetic marker and genes associated with LMA in 511 DLY pigs (255 boars and 256 sows). Results: After quality control, we detected 35,426 SNPs, including six SNPs significantly associated with LMA in pigs, with MARC0094338 and ASGA0072817 being the two key SNPs responsible for 1.77% and 2.48% of the phenotypic variance of LMA, respectively. Based on previous research, we determined two candidate genes (growth hormone receptor [GHR] and 3-oxoacid Co A-transferase 1 [OXCT1]) that are associated with fat deposition and muscle growth and found further additional genes (MYOCD, ARHGAP44, ELAC2, MAP2K4, FBXO4, FBLL1, RARS1, SLIT3, and RANK3) that are presumed to have an effect on LMA. Conclusion: This study contributes to the identification of the mutation that underlies quantitative trait loci associated with LMA and to future pig breeding programs based on marker-assisted selection. Further studies are needed to elucidate the role of the identified candidate genes in the physiological processes involved in LMA regulation.

Keywords

Acknowledgement

This study was supported by the Guangdong Province Key Area R&D Program (2022B0202090002), the Natural Science Foundation of Guangdong Province (2018B030313011), and the Tip-top Scientific and Technical Innovative Youth Talents of Guangdong Special Support Program (2019BT02N630). The funding agencies had no role in the study design, data collection and analysis, publication decision, or manuscript preparation.

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