基于“桂芯一号”液相芯片的南丹瑶鸡鸡冠性状全基因组关联分析

doi:10.16431/j.cnki.1671-7236.2025.04.024

摘要/Abstract

摘要： 【目的】筛选影响南丹瑶鸡鸡冠性状的候选基因和分子标记，以期为南丹瑶鸡鸡冠性状的选育工作提供技术支撑。【方法】本研究收集了464只南丹瑶鸡在7、10、15、18、22、26周龄的鸡冠表型，同时采集试验鸡血样提取DNA，并通过“桂芯一号”液相芯片进行分型。使用GEMMA软件的单变量混合线性模型对不同周龄南丹瑶鸡鸡冠的高度、长度、厚度和面积进行全基因组关联分析(GWAS)。利用ANNOVAR对关联的单核苷酸多态性(SNP)位点进行注释，并对注释到的基因进行GO功能及KEGG通路富集分析。【结果】南丹瑶鸡鸡冠面积、鸡冠高度、鸡冠长度、鸡冠厚度4个表型指标分别关联到7、8、21和10个SNPs位点，共注释到37个基因，通过相关生物信息学分析及功能注释，最终筛选出7个与南丹瑶鸡鸡冠性状相关的候选基因：CELF2、MAP7、MAP3K5、AKT3、IFNGR1、IL20RA和MANBA。【结论】本研究鉴定了39个与南丹瑶鸡鸡冠性状潜在相关的SNPs，并筛选出7个可能影响鸡冠大小的候选基因。研究结果为南丹瑶鸡鸡冠性状的选育提供了有效分子标记，为培育优良地方品种提供了重要理论基础。

关键词: 南丹瑶鸡; 鸡冠; “桂芯一号”液相芯片; 全基因组关联分析

Abstract: 【Objective】 The aim of this study was to identify candidate gene and molecular marker that affected the comb trait of Nandan-Yao chickens,thus to provide technical support for the selection and breeding of comb traits in Nandan-Yao chickens.【Method】 In this study,phenotypes of comb traits were collected from 464 Nandan-Yao chickens at 7,10,15,18,22 and 26 weeks of age.Meanwhile,DNA were extracted from blood samples and genotyping was conducted using "GXChickChip-I" chip.Genome-wide association study (GWAS) were performed on the comb height,comb length,comb thickness and comb area of Nandan-Yao chickens at different ages by the univariate mixed linear model in GEMMA software.The gene annotated from the associated single nucleotide polymorphism (SNP) were subjected to GO function and KEGG pathway enrichment analysis.【Result】 A total of 7,8,21 and 10 SNPs were detected to be associated with comb area,comb height,comb length and comb thickness in Nandan-Yao chickens,respectively.These SNPs were annotated to 37 genes.Through bioinformatics analysis and gene functional annotation,7 genes of CELF2,MAP7,MAP3K5,AKT3,IFNGR1,IL20RA and MANBA were identified as candidate genes related to comb traits in Nandan-Yao chickens.【Conclusion】 This study revealed 39 potential SNPs associated with comb traits in Nandan-Yao chickens,and 7 genes that might influence comb size were identified.The results could provide effective molecular makers for the selection of comb traits of Nandan-Yao chickens and an important theoretical foundation for the breeding of excellent indigenous chickens.

Key words: Nandan-Yao chickens; comb traits; "GXChickChip-I" chip; genome-wide association study

中图分类号:

S831.2
Q78

杨祝良, 罗锦堂, 张珍, 黎剑能, 李福球, 杨秀荣. 基于“桂芯一号”液相芯片的南丹瑶鸡鸡冠性状全基因组关联分析[J]. 中国畜牧兽医, 2025, 52(4): 1716-1728.

YANG Zhuliang, LUO Jintang, ZHANG Zhen, LI Jianneng, LI Fuqiu, YANG Xiurong. Genome-wide Association Study of Comb Traits in Nandan-Yao Chickens Based on the "GXChickChip-I" Chip[J]. China Animal Husbandry and Veterinary Medicine, 2025, 52(4): 1716-1728.

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