Tabatabaeipour Seyede Nasim, Shiran Behrouz, Ravash Rudabeh, Niazi Ali, Ebrahimie Esmaeil
Department of Plant Breeding and Biotechnology, Faculty of Agriculture, Shahrekord University, Shahrekord, Iran.
Institute of Biotechnology, Shahrekord University, P.O. Box 115, Shahrekord, Iran.
Heliyon. 2024 Feb 26;10(5):e27132. doi: 10.1016/j.heliyon.2024.e27132. eCollection 2024 Mar 15.
In , vital plant hormones, namely methyl jasmonate (MeJA) and ethylene, serve as abiotic triggers, playing a crucial role in stimulating the production of specific secondary compounds with anticancer properties. Understanding how plants react to various stresses, stimuli, and the pathways involved in biosynthesis holds significant promise. The application of stressors like ethylene and MeJA induces the plant's defense mechanisms, leading to increased secondary metabolite production. To delve into the essential transcriptomic processes linked to hormonal responses, this study employed an integrated approach combining RNA-Seq data meta-analysis and system biology methodologies. Furthermore, the validity of the meta-analysis findings was confirmed using RT-qPCR. Within the meta-analysis, 903 genes exhibited differential expression (DEGs) when comparing normal conditions to those of the treatment. Subsequent analysis, encompassing gene ontology, KEGG, TF, and motifs, revealed that these DEGs were actively engaged in multiple biological processes, particularly in responding to various stresses and stimuli. Additionally, these genes were notably enriched in diverse biosynthetic pathways, including those related to TIAs, housing valuable medicinal compounds found in this plant. Furthermore, by conducting co-expression network analysis, we identified hub genes within modules associated with stress response and the production of TIAs. Most genes linked to the biosynthesis pathway of TIAs clustered within three specific modules. Noteworthy hub genes, including Helicase ATP-binding domain, , and genes within the blue, turquoise, and green module networks, are presumed to play a role in the TIAs pathway. These identified candidate genes hold potential for forthcoming genetic and metabolic engineering initiatives aimed at augmenting the production of secondary metabolites and medicinal compounds within
在植物中，重要的植物激素，即茉莉酸甲酯（MeJA）和乙烯，作为非生物触发因素，在刺激具有抗癌特性的特定次生化合物的产生中发挥着关键作用。了解植物如何对各种胁迫、刺激以及生物合成所涉及的途径做出反应具有重大前景。乙烯和MeJA等胁迫因素的应用会诱导植物的防御机制，导致次生代谢产物产量增加。为了深入研究与激素反应相关的基本转录组过程，本研究采用了一种综合方法，将RNA-Seq数据荟萃分析和系统生物学方法相结合。此外，使用RT-qPCR证实了荟萃分析结果的有效性。在荟萃分析中，将正常条件与处理条件进行比较时，有903个基因表现出差异表达（DEGs）。随后包括基因本体论、KEGG、转录因子和基序的分析表明，这些DEGs积极参与多种生物过程，特别是对各种胁迫和刺激的反应。此外，这些基因在包括与萜类吲哚生物碱（TIAs）相关的多种生物合成途径中显著富集，该植物中含有有价值的药用化合物。此外，通过进行共表达网络分析，我们在与胁迫反应和TIAs产生相关的模块中鉴定出了枢纽基因。与TIAs生物合成途径相关的大多数基因聚集在三个特定模块中。值得注意的枢纽基因，包括解旋酶ATP结合结构域以及蓝色、绿松石色和绿色模块网络中的基因，被认为在TIAs途径中发挥作用。这些鉴定出的候选基因对于即将开展的旨在提高次生代谢产物和药用化合物产量的遗传和代谢工程计划具有潜力。
