不同产蛋数岩鸽卵巢转录组的SNP分析

doi:10.14088/j.cnki.issn0439-8114.2024.04.034

湖北农业科学 ›› 2024, Vol. 63 ›› Issue (4): 185-190.doi: 10.14088/j.cnki.issn0439-8114.2024.04.034

不同产蛋数岩鸽卵巢转录组的SNP分析

毛楠楠^1,2, 孙勇胜^1,2, 陈辉^1,2, 周荣艳^1,2, 籍颖¹

1.河北农业大学动物科技学院,河北保定 071001;
2.河北省肉鸽产业技术研究院,河北阜平 073299

收稿日期:2022-11-26 出版日期:2024-04-25 发布日期:2024-05-07
通讯作者: 周荣艳（1978-）,女,河北衡水人,教授,博士,主要从事动物遗传育种研究,（电话）13503383289（电子信箱）rongyanzhou@126.com。
作者简介:毛楠楠（2000-）,女,河南周口人,在读硕士研究生,研究方向为动物遗传育种,（电话）15811369473（电子信箱）3442688852@qq.com。
基金资助:
河北省农业农村厅畜禽育种创新能力提升基金资助项目; 河北省现代农业产业技术体系创新团队蛋鸡肉鸡良繁体系与品种培育岗位基金资助项目（HBCT2023210205）

SNP analysis of the ovarian transcriptome of Columba livia with different egg production numbers

MAO Nan-nan^1,2, SUN Yong-sheng^1,2, CHEN Hui^1,2, ZHOU Rong-yan^1,2, JI Ying¹

1. College of Animal Science and Technology,Hebei Agricultural University,Baoding 071001, Hebei,China;
2. Research Institute of Meat Pigeon Industry Technology of Hebei province, Fuping 073299, Hebei,China

Received:2022-11-26 Online:2024-04-25 Published:2024-05-07

摘要/Abstract

摘要： 为探索岩鸽（Columba livia）产蛋数相关基因及其遗传标记,利用STAR对高产蛋数和低产蛋数岩鸽卵巢组织转录组数据高质量序列与参考基因组进行比对,去除重复序列后利用GATK进行单核苷酸多态性（SNP）筛选,利用VCFtools对SNP质控后进行主成分分析、进化树构建和Fst计算,利用KEGG富集分析SNP所在基因。结果显示,高产蛋组共有SNP数为298 957个,低产蛋组共有SNP数为296 137个,高产蛋组、低产蛋组共有SNP数为254 118个,KEGG分析结果发现,SNP所在基因显著富集在孕酮调节的卵母细胞成熟、卵母细胞减数分裂和代谢等信号通路;高产蛋组和低产蛋组的102个特异SNP分布在14个注释基因上（LOC110357454、KDM5A、PIGS、BNC2、GBF1、SLAIN2、FGD4、DIAPH2、KIF3B、NFIB、EPG5、OSTF1、EMB、ST3GAL3）,且富集的信号通路可能与其产蛋能力密切相关。

关键词: 岩鸽（Columba livia）, 卵巢转录组, SNP, 产蛋数

Abstract: In order to explore the genes and genetic markers related to egg production in Columba livia, STAR was used to compare high-quality transcriptome sequences of ovarian tissue transcriptome data from high and low egg production Columba livia with the reference genome,after removing duplicate sequences, single nucleotide polymorphism （SNP） screening was performed using GATK. After controlling SNP quality using VCFtools, principal component analysis, evolutionary tree construction, and Fst calculation were performed. KEGG enrichment analysis was used to identify the gene where the SNP was located. The results showed that the high-yielding egg group had a total of 298 957 SNPs, the low yielding egg group had a total of 296 137 SNPs, and the high-yielding and low-yielding egg groups had a total of 254 118 SNPs. The KEGG analysis results showed that the SNP gene was significantly enriched in the progesterone regulated signaling pathways of oocyte maturation, meiosis, and metabolism;102 specific SNPs were distributed on 14 annotation genes（LOC110357454, KDM5A, PIGS, BNC2, GBF1, SLAIN2, FGD4, DIAPH2, KIF3B, NFIB, EPG5, OSTF1, EMB, and ST3GAL3） in the high and low egg production groups, and the enriched signaling pathways may be closely related to their egg production ability.

Key words: Columba livia（Columba livia）, ovarian transcriptome, SNP, egg production numbers

中图分类号:

S836

毛楠楠, 孙勇胜, 陈辉, 周荣艳, 籍颖. 不同产蛋数岩鸽卵巢转录组的SNP分析[J]. 湖北农业科学, 2024, 63(4): 185-190.

MAO Nan-nan, SUN Yong-sheng, CHEN Hui, ZHOU Rong-yan, JI Ying. SNP analysis of the ovarian transcriptome of Columba livia with different egg production numbers[J]. HUBEI AGRICULTURAL SCIENCES, 2024, 63(4): 185-190.

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不同产蛋数岩鸽卵巢转录组的SNP分析

SNP analysis of the ovarian transcriptome of Columba livia with different egg production numbers

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