Paul Sujay, Reyes-Pérez Paula, Angulo-Bejarano Paola Isabel, Srivastava Aashish, Ramalingam Sathishkumar, Sharma Ashutosh
Tecnologico de Monterrey, School of Engineering and Sciences, Campus Queretaro, Av. Epigmenio Gonzalez, No. 500 Fracc. San Pablo, 76130 Queretaro, CP Mexico.
Section of Bioinformatics, Clinical Laboratory, Haukeland University Hospital, 5021 Bergen, Norway.
3 Biotech. 2021 Jun;11(6):277. doi: 10.1007/s13205-021-02839-z. Epub 2021 May 19.
Neem () is a very popular traditional medicinal plant used since ancient times to treat numerous ailments. MicroRNAs (miRNAs) are highly conserved, non-coding, short RNA molecules that play important regulatory roles in plant development and metabolism. In this study, deploying a high stringent genome-wide computational-based approach and following a set of strict filtering norms a total of 44 potential conserved neem miRNAs belonging to 21 families and their corresponding 48 potential target transcripts were identified. Important targets include Squamosa promoter binding protein-like proteins, NAC, Scarecrow proteins, Auxin response factor, and F-box proteins. A biological network has also been developed to understand the miRNA-mediated gene regulation using the minimum free energy (MFE) values of the miRNA-target interaction. Moreover, six selected miRNAs were reported to be involved in secondary metabolism in other plant species () were validated by qPCR and their tissue-specific differential expression pattern was observed in leaves and stem. Except for all the other miRNAs were found overexpressed in the stem as compared to leaves. To the best of our knowledge, this is the first report of neem miRNAs and we believe the finding of the present study will be useful for the functional genomic study of medicinal plants.
The online version contains supplementary material available at 10.1007/s13205-021-02839-z.
印楝是一种非常受欢迎的传统药用植物，自古以来就被用于治疗多种疾病。微小RNA（miRNA）是高度保守的非编码短RNA分子，在植物发育和代谢中发挥重要的调控作用。在本研究中，采用一种高度严格的基于全基因组计算的方法，并遵循一套严格的筛选标准，共鉴定出属于21个家族的44个潜在保守印楝miRNA及其相应的48个潜在靶转录本。重要的靶标包括类似鳞状启动子结合蛋白的蛋白质、NAC、稻草人蛋白、生长素反应因子和F-box蛋白。还构建了一个生物网络，利用miRNA-靶标相互作用的最小自由能（MFE）值来理解miRNA介导的基因调控。此外，据报道，在其他植物物种中参与次生代谢的6个选定miRNA通过qPCR得到验证，并在叶和茎中观察到它们的组织特异性差异表达模式。除了[具体情况未提及]，与叶相比，所有其他miRNA在茎中均过表达。据我们所知，这是关于印楝miRNA的首次报道，我们相信本研究的发现将有助于药用植物的功能基因组学研究。
在线版本包含可在10.1007/s13205-021-02839-z获取的补充材料。
