全基因组关联分析与转录组学联合分析静原鸡蛋壳颜色的调控机制

doi:10.16431/j.cnki.1671-7236.2023.11.009

摘要/Abstract

摘要： 【目的】利用全基因组关联分析与转录组学联合分析筛选调控静原鸡蛋壳颜色的候选基因，探究静原鸡蛋壳颜色调控机制。【方法】选择180日龄产绿壳蛋和产粉壳蛋静原鸡母鸡各50只，采集血液并进行简化基因组测序，通过全基因组关联分析筛选候选基因；采集300日龄产绿壳蛋和产粉壳蛋母鸡的蛋壳腺组织进行转录组测序，筛选差异表达基因并进行GO功能与KEGG通路富集分析；通过全基因组和转录组学联合分析，筛选调控蛋壳颜色相关基因并进行蛋白互作网络分析。【结果】简化基因组测序结果显示，从产粉壳蛋和产绿壳蛋静原鸡中分别筛选到232 465和241 008个SNPs标记，利用全基因组关联分析共筛选出溶质载体有机阴离子转运蛋白家族成员1A2（SLCO1A2）、SLCO1C1和磷脂酰肌醇-4-磷酸3-激酶催化亚基2型γ（PIK3C2G）等54个与蛋壳颜色相关的候选基因。转录组测序筛选到277个差异表达基因，其中85个上调，192个下调。GO功能和KEGG通路富集分析发现，差异表达基因主要在亚油酸新陈代谢、亚麻酸代谢和花生四烯酸代谢、酪氨酸代谢、黑色素生成、黏着斑以及钙信号等相关通路中显著富集。全基因组和转录组学联合分析鉴定到内皮素3（EDN3）和锌指蛋白831（ZNF831）2个与蛋壳颜色显著相关的基因。【结论】通过全基因组关联分析与转录组学联合分析发现EDN3、ZNF831基因可能是调控蛋壳颜色的候选基因。研究结果为蛋壳颜色调控机制研究提供理论基础，为静原鸡蛋壳颜色选育提供分子遗传标记。

关键词: 静原鸡; 蛋壳颜色; 全基因组关联分析; 转录组测序

Abstract: 【Objective】 The aim of this study was to screen the candidate genes related to the regulation of eggshell color in Jingyuan chickens by genome-wide association study and transcriptomic analysis, and explore the regulatory mechanism of eggshell color in Jingyuan chickens.【Method】 A total of 50 green shell laying hens and 50 pink shell laying hens at 180 days of age were selected to collect blood and perform simplified genome sequencing.Candidate genes were screened by genome-wide association study.The eggshell gland tissues of green shell hens and pink shell hens at 300 days of age were collected for transcriptome sequencing, differentially expressed genes were screened, and GO function and KEGG pathway enrichment analysis were performed.Through genome-wide and transcriptomic analysis, the genes related to the regulation of eggshell color were screened and the protein interaction network was analyzed.【Result】 The results of simplified genome sequencing showed that 232 465 and 241 008 SNPs were screened from pink shell laying and green shell laying hens, respectively.A total of 54 candidate genes related to eggshell color, including solsolic carrier organic anion transporter family members 1A2 (SLCO1A2), SLCO1C1 and phosphatidylinositol 4-phosphate 3-kinase catalytic subunit type 2 γ (PIK3C2G) were screened by genome-wide association study.277 differentially expressed genes were identified by transcriptome sequencing, of which 85 genes were up-regulated and 192 genes were down-regulated.GO function and KEGG pathway enrichment analysis showed that differentially expressed genes were significantly enriched in related pathways such as linoleic acid metabolism, linolenic acid metabolism, arachidonic acid metabolism, tyrosine metabolism, melanin production, adhesion plaques and calcium signaling.Genome-wide and transcriptomic analysis identified two genes that were significantly associated with eggshell color, which were endothelin-3 (EDN3) and zinc finger protein 831 (ZNF831) genes.【Conclusion】 Through genome-wide association study and transcriptomic analysis, it was found that EDN3 and ZNF831 genes might be candidate genes for regulating eggshell color, which provided a theoretical basis for the study of the regulation mechanism of eggshell color, and provided molecular genetic markers for shell color selection of Jingyuan chickens.

Key words: Jingyuan chickens; eggshell color; genome-wide association study; transcriptome sequencing

中图分类号:

S831.2

魏榕, 邓占钊, 曹国伟, 朱红芳, 禹保军, 赵薇, 陈亚飞, 张统, 张娟. 全基因组关联分析与转录组学联合分析静原鸡蛋壳颜色的调控机制[J]. 中国畜牧兽医, 2023, 50(11): 4403-4413.

WEI Rong, DENG Zhanzhao, CAO Guowei, ZHU Hongfang, YU Baojun, ZHAO Wei, CHEN Yafei, ZHANG Tong, ZHANG Juan. Genome-wide Association Study and Transcriptomics Combined to Analyze the Regulatory Mechanisms of Eggshell Color in Jingyuan Chickens[J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(11): 4403-4413.

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