基于转录组测序的青天葵差异表达基因分析

发布时间：2018-05-16 03:06

本文选题：青天葵 + 转录组　；参考：《中药新药与临床药理》2017年05期

【摘要】：目的在青天葵球茎和叶片两个组织的转录组测序数据的基础上,进行差异表达基因(differential expressed gene,DEG)的筛选和分析。方法采用Reads Per Kb per reads(RPKM)方法计算青天葵转录组测序获得的单基因(unigene)在球茎和叶片中表达量,根据球茎和叶片之间RPKM的log2倍数绝对值大于1且错误发现率小于0.01筛选DEG,将DEG归类至Nr、GO、KEGG等公共数据库获取其功能释义;并基于功能注释,挖掘参与青天葵激素合成和信号传导过程的DEG。结果筛选出符合条件的DEG共62 605条,包括了31 488条表达上调DEG和31 117条表达下调DEG。分别有51 652条和14 215条DEG在GO和KEGG数据库中获得注释,涵盖GO数据库的42个功能亚类和KEGG数据库的280条代谢途径。在挖掘到的16个与青天葵激素合成和信号传导过程的DEG中,7个为上调表达基因,9个为下调表达基因。结论通过转录组测序数据较全面地提供了青天葵球茎和叶片基因的差异表达情况,为青天葵的功能基因的克隆和功能分析等提供研究基础和理论依据。
[Abstract]:Objective to screen and analyze the differentially expressed gene on the basis of the transcriptome sequencing data of the corms and leaves of Agaricum davidii. Methods Reads Per Kb per RPKM method was used to calculate the expression of single gene Onunigenein in bulbs and leaves. According to the absolute value of log2 multiple of RPKM between bulb and leaf is greater than 1 and the error detection rate is less than 0. 01, the DEG is classified into public databases such as NrrngogokEGG to obtain its function interpretation, and based on the function annotation, Dig out the DEG involved in hormone synthesis and signal transduction. Results 62,605 DEG were screened, including 31,488 up-regulated DEG and 31,117 down-regulated DEG. 51,652 and 14,215 DEG were annotated in go and KEGG databases, covering 42 functional subclasses in go database and 280 metabolic pathways in KEGG database. Of the 16 extracted DEG associated with hormone synthesis and signal transduction, 7 were up-regulated and 9 down-regulated. Conclusion the differentially expressed genes in the corms and leaves of Agaricus davidii were fully provided by the transcriptional sequencing data, which provided the basis and theoretical basis for cloning and functional analysis of functional genes.
【作者单位】：广东医科大学;广州中医药大学中药资源科学与工程研究中心岭南中药资源教育部重点实验室国家中成药工程技术研究中心南药研发实验室;
【基金】：广东省自然科学基金博士启动项目(2015A030310519)
【分类号】：Q943.2;S567.239

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