Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China.
Jiangsu Province Key Laboratory of Soil and Water Conservation and Ecological Restoration, Nanjing Forestry University, Nanjing 210037, China.
Int J Mol Sci. 2020 Jan 29;21(3):861. doi: 10.3390/ijms21030861.
is widely used in traditional Chinese medicine, which contains many kinds of active ingredients. In recent years, many transcriptomes have been sequenced. Hence, weighted gene co-expression network analysis (WGCNA) was used with the gene expression profiles of active ingredients to identify the modules and genes that may associate with particular species and tissues. Three kinds of Dendrobium species and three tissues were sampled for RNA-seq to generate a high-quality, full-length transcriptome database. Based on significant changes in gene expression, we constructed co-expression networks and revealed 19 gene modules. Among them, four modules with properties correlating to active ingredients regulation and biosynthesis, and several hub genes were selected for further functional investigation. This is the first time the WGCNA method has been used to analyze transcriptome data. Further excavation of the gene module information will help us to further study the role and significance of key genes, key signaling pathways, and regulatory mechanisms between genes on the occurrence and development of medicinal components of .
在中药中被广泛应用，其中含有多种活性成分。近年来，许多转录组已经被测序。因此，使用加权基因共表达网络分析（WGCNA）结合活性成分的基因表达谱来识别可能与特定物种和组织相关的模块和基因。本研究从三种铁皮石斛和三种组织中取样进行 RNA-seq，以生成高质量、全长转录组数据库。基于基因表达的显著变化，构建了共表达网络，并揭示了 19 个基因模块。其中，选择了四个与活性成分调控和生物合成相关的模块和几个枢纽基因进行进一步的功能研究。这是首次使用 WGCNA 方法分析转录组数据。进一步挖掘基因模块信息将有助于我们进一步研究关键基因、关键信号通路以及基因间调控机制在药用成分发生和发展中的作用和意义。
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