基于 RNA 序列筛选和初步分析鹌鹑胚胎中羽毛颜色的差异表达基因

IF 0.7 4区 农林科学 Q3 AGRICULTURE, DAIRY & ANIMAL SCIENCE South African Journal of Animal Science Pub Date : 2024-02-15 DOI:10.4314/sajas.v53i3.06
Y. Q. Hu, X. H. Zhang, Y. Z. Pang, Y. Qi, Q. K. Wang, Y. W. Zhao, Z. W. Yuan, T. Wang, L. Huo, S. Ren
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引用次数: 0

摘要

本研究的目的是利用RNA-Sequencing(RNA-Seq)技术筛选差异表达基因(DEGs),并分析褐羽鹌鹑和白羽鹌鹑胚胎皮肤组织的转录组数据。使用 Illumina HiSeqTM 2000 测序平台对鹌鹑胚胎皮肤组织的转录组进行了测序。共发现 2 512 个 DEGs。其中,白羽鹌鹑胚胎皮肤组织中有 550 个 DEGs 上调,1 562 个 DEGs 下调。在基因本体(Gene Ontology,GO)数据库中富集并注释了 50 个 DEGs。在京都基因组百科全书(KEGG)数据库的每个条目中注释的DEGs总数为341个,富集在230个通路中,其中紧密连接通路和神经活性配体-受体相互作用的富集最为显著。为了验证 RNA-Seq 结果的准确性和可靠性,使用实时定量反转录聚合酶链反应对候选基因进行了分析。结果表明:白羽鹌鹑中ASIP和DDC的相对表达量增加。同源染色体 D1 (HOXD1)、酪蛋白酶 D (CTSD)、角蛋白 2 (KRT2)、甲基-CpG 结合域蛋白 2 (MBD2) 和褪黑激素受体 1 (MT1) 的相对表达量减少。这项研究结果为分析白羽鹌鹑和褐羽鹌鹑的羽毛颜色调控机制提供了有用的数据。
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Screening and preliminary analysis of differentially expressed genes in quail embryos for feather colour based on RNA-Sequencing
The purpose of this study was to use RNA-Sequencing (RNA-Seq) to screen differentially expressed genes (DEGs) and analyse transcriptomic data from embryonic skin tissues of maroon-feather and white-feather quails. The transcriptome of embryonic skin tissues from quails was sequenced using the Illumina HiSeqTM 2000 sequencing platform. A total of 2 512 DEGs were found. Of these, 550 DEGs were up-regulated and 1 562 DEGs were down-regulated in the skin tissues of white-feather quail embryos. Five hundred and ninety-seven DEGs were enriched and annotated into 50 entries in Gene Ontology (GO) database. The total number of DEGs annotated in each entry in the Kyoto Encyclopedia of Genes and Genomes (KEGG) database was 341, enriched in 230 pathways, of which the tight junction pathway and neuroactive ligand-receptor interaction were the most significantly enriched. Candidate genes were analysed using real-time quantitative reverse transcription polymerase chain reaction (to verify the accuracy and reliability of the RNA-Seq results. The relative expression of agouti signalling protein (ASIP) and DOPA decarboxylase (DDC) in white-feather quails were increased. Relative expression of homeobox D1 (HOXD1), cathepsin D (CTSD), keratin 2 (KRT2), methyl-CpG binding domain protein 2 (MBD2), and melatonin receptor 1 (MT1) were decreased. The results of this study provide useful data on the analysis of the feather colour regulatory mechanism in white- and maroon-feather quails.
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来源期刊
South African Journal of Animal Science
South African Journal of Animal Science 农林科学-奶制品与动物科学
CiteScore
1.50
自引率
0.00%
发文量
39
审稿时长
>36 weeks
期刊介绍: The South African Journal of Animal Science is an open access, peer-reviewed journal for publication of original scientific articles and reviews in the field of animal science. The journal publishes reports of research dealing with production of farmed animal species (cattle, sheep, goats, pigs, horses, poultry and ostriches), as well as pertinent aspects of research on aquatic and wildlife species. Disciplines covered nutrition, genetics, physiology, and production systems. Systematic research on animal products, behaviour, and welfare are also invited. Rigorous testing of well-specified hypotheses is expected.
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