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https://doi.org/10.5713/ab.22.0407    [Accepted] Published online January 11, 2023.
Genome-wide association study for loin muscle area of commercial crossbred pigs
Menghao Luan1, Donglin Ruan1, Fanming Meng3, Yibin Qiu1, Yong Ye1, Shenping Zhou1, Jifei Yang1, Ying Sun1, Fucai Ma1, Zhenfang Wu1,2,5,6, Jie Yang1,5, Ming Yang4, Enqin Zheng1,5, Gengyuan Cai1,2,5,*, Sixiu Huang1,5,*
1College of Animal Science and National Engineering Research Center for Breeding Swine Industry, South China Agricultural University, Guangzhou, Guangdong, China
2Guangdong Zhongxin Breeding Technology Co., Ltd, Guangzhou, Guangdong, China
3Guangdong Academy of Agricultural Sciences, Institute of Animal Science, Guangzhou, Guangdong, China
4College of Animal Science and Technology, Zhongkai University of Agriculture and Engineering, Guangzhou, Guangdong, China
5Guangdong Provincial Key Laboratory of Agro-animal Genomics and Molecular Breeding, South China Agricultural University, Guangzhou, Guangdong, China
6Yunfu Subcenter of Guangdong Laboratory for Lingnan Modern Agriculture, Yunfu, Guangdong, China
Correspondence:  Gengyuan Cai,Email: cgy0415@163.com
Sixiu Huang, Tel: +86-13826094680, Fax: +86-13826094680, Email: sxhuang815@scau.edu.cn
Received: 24 October 2022   • Revised: 13 November 2022   • Accepted: 24 December 2022
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)
A genome-wide association study (GWAS) 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).
: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 (GHR and 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.
This study contributes to the identification of the mutation that underlies quantitative trait loci (QTLs) 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: GWAS; Loin Muscle Area; Pig; Single Nucleotide Polymorphism

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