Polymorphism of CD36 Gene and Its Association Analysis with Meat Quality Traits in Ningdu Yellow Chicken (Gallus gallus domesticus)
XIAO Yong1, TAN Yu-Wen1, ZHU Xue-Nong1,*, ZHOU Min1, WU Yan-Ping2, JIN Chen1, WANG Yu-Cheng1, ZHONG Qiu-Lian1, JIANG Si-Si1, WANG Ting1
1 Jiangxi Provincial Key Laboratory of Poultry Genetic Improvement, Nanchang Normal University, Nanchang 330032, China; 2 Institute of Animal Husbandry and Veterinary Medicine, Jiangxi Academy of Agricultural Sciences, Nanchang 330200, China
Abstract：Ningdu yellow chicken (Gallus gallus domesticus), as an important local high-quality meat chicken breed in China, its core breeding and industrial value are mainly reflected in the outstanding meat quality traits. To investigate the effects of SNP sites and their haplotypes in partial sequences of the cluster of differentiation 36 (CD36) gene on the meat quality traits of Ningdu yellow chicken, this study selected 250 107-day-old Ningdu Yellow roosters as the experimental flock. Polymorphisms in the CD36 gene were detected, and the associations of SNPs and haplotype groups with meat quality traits were analyzed using SAS 8.1 software. Further validation was conducted by qRT-PCR, and the transcription factor binding patterns at the associated sites were predicted using the JASPAR online software (https://jaspar.elixir.no/). The results showed that a total of 9 SNP sites were identified in partial exon 11 and intron 10 of the CD36 gene in Ningdu yellow chicken. Genetic diversity analysis revealed that, except for the C11336291T and A11336367T sites, all other sites were in Hardy-Weinberg equilibrium (HWE). Association analysis indicated that the C11336291T, G11336340C, A11336343C, T11336353C, G11336358A, A11336367T, and C11336479T sites in the CD36 gene were significantly or extremely significantly associated with breast muscle pH value. Among these, the A11336343C, T11336353C, and G11336358A sites exhibited high linkage disequilibrium. qRT-PCR validation results showed that at the 5 sites of C11336291T, A11336343C, T11336353C, G11336358A, and A11336367T, CD36 gene expression levels differed significantly among individuals with different genotypes. Transcription factor prediction results suggested that polymorphisms in the CD36 gene led to changes in certain transcription factor binding sites, and the A11336343C, T11336353C, and G11336358A sites and their resulting haplotypes in the CD36 gene might serve as potential genetic markers for selecting breast muscle pH value in Ningdu yellow chicken. This study provides a theoretical basis for the molecular marker-assisted breeding of the meat quality traits of Ningdu yellow chicken.
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