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2025年8月15日 星期五
  2016, Vol. 24 Issue (8): 1138-1146    
  研究论文与报告 本期目录 | 过刊浏览 | 高级检索 |
利用拟南芥种群间转录组和表皮毛密度差异信息筛选表皮毛相关功能基因
薛思鸣1,成丹1,解洪杰1,何宝叶1,强胜2
1. 南京农业大学生命科学学院
2. 南京农业大学植物科学系
Screening Trichome-related Functional Genes Using Difference of Transcriptome and Trichome Density Among Arabidopsis thaliana Populations
1, 1, 1, 1,
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摘要 如何利用基因组、转录组以及代谢组学等海量信息确定基因功能,并阐述其调控机制是生命科学研究领域的核心内容之一。本研究利用种群间数量性状遗传变异与相应基因表达量差异之间的关联性,尝试一种功能基因筛选的快速方法,首先利用已经发表的拟南芥(Arabidopsis thaliana)生物信息数据,运用线性相关模型,根据拟南芥种群遗传变异导致的叶片表皮毛数量性状差异和对应种群基因表达量差异的相关性,筛选与表皮毛性状功能相关的基因,从33 554个基因中共筛选到1 747个相关基因,其中负相关基因195个,正相关基因1 552个。对筛选基因集合进行基因本体(Gene Ontology, GO)富集分析,结果表明,筛选到的基因主要富集于植物防御、先天免疫、胁迫反应、茉莉酸刺激应答、机械损伤反应和芥子油苷代谢等生物功能,特别筛选到和表皮毛发育及其防御代谢物分泌有关的基因,如诱导叶片表皮毛分化起始的MYB结构域蛋白基因MYB23,对叶片表皮毛发育具有重要影响的缺陷表皮毛因子1 (distorted trichomes 1, DIS1),参与吲哚芥子油苷合成的细胞色素P450家族蛋白基因(cytochrome P450 family 81 subfamily F polypeptide 2, CYP81F2)和MYB51。将本研究筛选基因功能富集结果与前人对表皮毛的功能研究成果做对比,证明了本研究中所用方法的可行性。因此,在与数量性状有关目的基因筛选的研究中,此方法可以作为参考,对于其他物种的数量性状研究也具有借鉴意义。
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薛思鸣
成丹
解洪杰
何宝叶
强胜
关键词 转录组数量性状相关分析表皮毛功能基因    
Abstract:How to confirm the functions of the genes and their regulation mechanisms by the massive information such as genome, transcriptome and the metebolomics is one of the core tasks in the field of life science. In present study, to make use the biological information data published in databases of Arabidopsis thaliana, the trichome related functional genes were screened based on the correlation between the difference of leaf trichome density variations and expression level differences of relevant genes among 31 Arabidopsis populations, which was established by linear correlation analysis model. All 1 747 genes were screened as their gene expression level was related to leaf trichome density from totally 33 554 genes. The number of negatively related genes were 195, and positively related genes were 1 552. The positively correlated genes were performed for function enrichment analysis. The results showed that the cluster terms mainly concentrated in the 4 aspects, including stress response, cellular component organization, biological regulation and metabolic processes. There were the most hierarchical clustering terms in the stress responses respect, including immune response and innate immune response, stress response, defense response, wound response, response to biological stimuli, fungal defense reaction, bacterial response, chemical stimulation of the response, organic material response, jasmonic acid response to stimuli, in response to carbohydrate stimulation and chitin response cluster terms. There were metabolism of glucosinolates, indole derivatives synthesis and metabolism, indole glucosinolates metabolism, protein phosphorylation and phosphate metabolism cluster terms about the metabolic process. There were cell wall modification and cell wall depolymerization cluster terms about the cellular component organization, and there were signal transduction, stress response regulation and defense response regulation cluster terms about biological regulation. In particular, there were genes directly related to the development of trichome and genes directly related to the secretion of the defense metabolites of trichome in the screened genes. Such as MYB23, a transcription factor which could induce the initiation of leaf trichome, DIS1 (distorted trichomes 1) which had an important influence on the development of trichome, and CYP81F2 (cytochrome P450 family 81 subfamily F polypeptide 2) and MYB51 which were both involved in the synthesis of indole glucosinolates. And the expression level of the 4 genes mentioned above all had a significant positive correlation with the density of the leaf trichome. Comparison of the function enrichment results of screened genes in the present research with the previous functions studies on leaf trichome proved practicability of the present method. Therefore, this method may provide a reference to screen target functional genes related to quantitative traits not only in A. thaliana but also in other species.
Key wordsTranscriptome    Quantitative trait    Correlation analyses    Trichome    Functional gene
收稿日期: 2016-02-25      出版日期: 2016-07-01
基金资助:国家自然科学基金
通讯作者: 强胜     E-mail: wrl@njau.edu.cn
引用本文:   
薛思鸣 成丹 解洪杰 何宝叶 强胜. 利用拟南芥种群间转录组和表皮毛密度差异信息筛选表皮毛相关功能基因[J]. , 2016, 24(8): 1138-1146.
链接本文:  
http://journal05.magtech.org.cn/Jwk_ny/CN/     或     http://journal05.magtech.org.cn/Jwk_ny/CN/Y2016/V24/I8/1138
 
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