基于QTL的猪支原体肺炎候选基因的筛选与生物学注释

发布时间：2018-05-19 22:16

本文选题：猪支原体肺炎(MPS) + 遗传机制　；参考：《农业生物技术学报》2017年03期

【摘要】：猪支原体肺炎(mycoplasmal pneumonia of swine,MPS)是养猪(Sus scrofa)生产实践中一种常见的慢性呼吸道传染病。该病由于易感染且难治愈,继发感染后容易致死,一直给国内外养猪业造成较大的经济损失。目前,病理诊断、疫苗与抗生素药物研发等方面的研究往往难以达到根除疾病的目的,亟待对猪支原体肺炎相关遗传基础进行鉴定,从分子水平上解释其遗传机制,进而利用遗传规律进行抗病育种。因此,本研究通过基因本体(Gene Ontology,GO)富集分析、KEGG(Kyoto Encyclopedia of Genes and Genomes)通路分析和文本挖掘等生物信息学的手段对猪QTL数据库进行检索,从中筛选并注释候选基因。结果表明,(1)47个相关QTL中所含的3 379个基因与猪支原体肺炎存在相关性,显著性筛选后余36个基因;(2)GO富集分析中与MPS产生关联的基因53个;(3)KEGG通路分析Asthma通路含基因16个;(4)文本挖掘的候选基因TNFα(tumor necrosis factor)、NRAMP1(natural resistance-associated macrophage protein 1)、TCRs(T-cell receptor genes)、CYP1A1(cytochrome P450 family 1 subfamily A member 1)、CYP3A29(cytochrome P450 3A29v4)、SERPING1(serpin family G member 1)共6个。不计重复后最终得到104个优化的候选基因。其中,TNF、POU5F1(POU domain,class 5,transcription factor 1)为重要的候选基因,在猪支原体肺炎感染过程中可能起关键作用。本研究从分子水平对猪支原体肺炎的遗传机制进行了初探,MPS候选基因集的建立将为后续研究及疾病相关基因的鉴定工作提供参考。
[Abstract]:Mycoplasmal pneumonia of Mycoplasma suis (MPSs) is a common chronic respiratory infection in the production practice of Sus scrofa. The disease is easy to infect and difficult to cure, and it is easy to die after secondary infection, which has caused a great economic loss to pig industry at home and abroad. At present, the research on pathological diagnosis, vaccine and antibiotic drug development is often difficult to eradicate the disease. It is urgent to identify the genetic basis of mycoplasma suis pneumonia and explain its genetic mechanism at the molecular level. Then the genetic law was used for disease resistance breeding. Therefore, in this study, the porcine QTL database was searched by means of bioinformatics, such as gene ontology (Gene Ontology GOA) enrichment analysis, KEGG + Kyoto Encyclopedia of Genes and Genomes) pathway analysis and text mining, and candidate genes were screened and annotated. The results showed that 3 379 genes contained in 47 related QTL were associated with Mycoplasma suis pneumonia. Analysis of 53 genes associated with MPS by KEGG pathway after significant screening, six candidate genes, TNF 伪 necrosis factor-nRAMP1 natural resistance-associated macrophage protein 1, receptor cytochrome P450 family 1 subfamily A member 1 (CYP329cytocytochrome P450 family 1 subfamily A member 1) were extracted from the Asthma pathway containing 16 genes and 4 genes. There were six candidate genes, TNF 伪 necrosis factor, NRAMP1 natural resistance-associated macrophage protein 1, cytochrome P450 family 1 subfamily A member 1, CYP329 cytochrome P450 3A29v4, serpin family G member 1. After repetition, 104 optimized candidate genes were obtained. Among them, TNFN POU 5 F 1 factor 1 is an important candidate gene, which may play a key role in the infection of Mycoplasma suis pneumonia. In this study, the genetic mechanism of Mycoplasma suis pneumonia was studied at molecular level. The establishment of candidate gene sets of MPs will provide a reference for further research and identification of disease-related genes.
【作者单位】：上海交通大学农业与生物学院;
【基金】：上海市农委项目“基于浦东白猪的配套系选育”(沪农科推字(2016)第1-1-4号);上海市农委项目“上海市生猪产业技术体系建设”(沪农科产字(2016)第6号) “十二五”农村领域国家科技计划课题“优异地方猪种资源收集和品种保护策略集成”(No.2015BAD03B01-02) 金华两头乌猪科技创新利用项目“金华两头乌猪新品系培育关键技术研究与示范”
【分类号】：S858.28

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