Department of Chemistry, Faculty of Arts and Science, Bolu Abant Izzet Baysal University, 14030, Bolu, Turkey.
Department of Biology, Faculty of Arts and Science, Bolu Abant Izzet Baysal University, 14030, Bolu, Turkey.
Mol Biol Rep. 2021 Jan;48(1):127-137. doi: 10.1007/s11033-020-05982-7. Epub 2021 Jan 5.
There is an increasing demand for elucidating the biosynthetic pathway of medicinal plants, which are capable of producing several metabolites with great potentials for industrial drug production. Digitalis species are important medicinal plants for the production of cardenolide compounds. Advancement on culture techniques is strictly related to our understanding of the genomic background of species. There are a limited number of genomic studies on Digitalis species. The goal of this study is to contribute to the genomic data of Digitalis ferruginea subsp. schischkinii by presenting transcriptome annotation. Digitalis ferruginea subsp. schischkinii has a limited distribution in Turkey and Transcaucasia, and has a high level of lanatoside C, an important cardenolide. In the study, we sequenced the cDNA library prepared from RNA pools of D. ferruginea subsp. schischkinii tissues treated with various stress conditions. Comprehensive bioinformatics approaches were used for de novo assembly and functional annotation of D. ferruginea subsp. schischkinii transcriptome sequence data along with TF families predictions and phylogenetic analysis. In the study, 58,369 unigenes were predicted and unigenes were annotated by analyzing the sequence data in the non-redundant (NR) protein database, the non-redundant nucleotide (NT) database, Gene Orthology (GO), EuKaryotic Orthologous Groups (KOG), Kyoto Encyclopedia of Genes and Genomes (KEGG), SwissProt, and InterPro databases. This study is the first transcriptome data for D. ferruginea subsp. schischkinii.
人们对阐明药用植物生物合成途径的需求日益增长，这些植物能够产生多种具有巨大工业药物生产潜力的代谢物。洋地黄属植物是生产强心苷类化合物的重要药用植物。培养技术的进步与我们对物种基因组背景的理解密切相关。目前，对洋地黄属植物的基因组研究数量有限。本研究的目的是通过提供转录组注释为洋地黄铁线莲亚种。schischkinii 的基因组数据做出贡献。洋地黄铁线莲亚种。schischkinii 在土耳其和外高加索地区的分布有限，并且具有高水平的毛地黄糖苷 C，这是一种重要的强心苷。在研究中，我们对用各种胁迫条件处理的 D.ferruginea subsp。schischkinii 组织的 RNA 池制备的 cDNA 文库进行了测序。我们使用综合的生物信息学方法对 D.ferruginea subsp。schischkinii 转录组序列数据进行从头组装和功能注释，同时预测 TF 家族并进行系统发育分析。在研究中，预测了 58369 个单基因，并通过分析非冗余 (NR) 蛋白质数据库、非冗余核苷酸 (NT) 数据库、基因同源 (GO)、真核同源群 (KOG)、京都基因和基因组百科全书 (KEGG)、SwissProt 和 InterPro 数据库中的序列数据对其进行注释。本研究是首次对 D.ferruginea subsp。schischkinii 的转录组数据。
