Scientia Horticulturae ( IF 4.3 ) Pub Date : 2022-04-23 , DOI: 10.1016/j.scienta.2022.111152 Satyajit Saurabh , Dinesh Prasad , Antonio Masi , Ambarish S. Vidyarthi
The Pointed gourd (Trichosanthes dioica Roxb.) belonging to the family Cucurbitaceae is a tropical perennial vegetable with an origin in the Indian subcontinent. There is a lack of genetic information for this commercially important cucurbit. A comprehensive transcriptome analysis of the T. dioica Roxb. ovary was carried out in this study. The BLAST-hits analysis of significantly annotated CDS of both samples revealed that pointed gourd is significantly related to cucumber (Cucumis sativus). A total of 10,996 annotated CDS was commonly identified in both samples. Notably, 1,859 CDS were found significantly down-regulated while 1,194 CDS were found up-regulated. 904 CDS of 1DBP and 971 CDS of 2DAF were identified to have SSRs. The auxin-dependent phenomenon in plant physiology, auxin signaling, is primarily regulated by transcription factors, such as ARF and Aux/IAA. The in-silico studies were carried out to identify the transcripts of ARFs and IAAs in T. dioica Roxb. A total of 48 ARF transcripts and 37 Aux/IAA transcripts were identified and named as TdARFs and TdIAAs, respectively. The peptides of TdARFs and TdIAAs are distributed in clusters to show similarity and evolutionary divergence. More than 70% of the peptide sequences derived from CDS of TdARFs and TdIAAs have their signature domains. The sub-cellular localization predicted that TdARF and TdIAA were found mainly in the nucleus. This study will pave the way further for elucidating the precise role of these transcription factors in auxin signaling and subsequent genetic manipulations for crop improvement. Additionally, the data sets gathered from whole transcriptome sequencing and analysis are useful resources for further studies regarding molecular genetics and functional genomics of T. dioica Roxb.
中文翻译:
下一代测序和转录组分析用于鉴定非模式植物尖葫芦 (Trichosanthes dioica Roxb.) 中的 ARF 和 Aux/IAA
葫芦科葫芦科(Trichosanthes dioica Roxb.)是一种热带多年生蔬菜,原产于印度次大陆。这种具有商业价值的葫芦科植物缺乏遗传信息。T. dioica Roxb的全面转录组分析。本研究对卵巢进行了检查。对两个样品的显着注释 CDS 的 BLAST-hits 分析表明,尖瓜与黄瓜 ( Cucumis sativus ) 显着相关。)。在两个样本中通常鉴定出总共 10,996 个带注释的 CDS。值得注意的是,发现 1,859 个 CDS 显着下调,而发现 1,194 个 CDS 上调。1DBP 的 904 个 CDS 和 2DAF 的 971 个 CDS 被确定为具有 SSR。植物生理学中的生长素依赖性现象,即生长素信号传导,主要受转录因子的调节,例如 ARF 和 Aux/IAA。进行了计算机模拟研究以鉴定T. dioica中 ARF 和 IAA 的转录本罗克斯。共鉴定出 48 个 ARF 转录本和 37 个 Aux/IAA 转录本,并分别命名为 TdARFs 和 TdIAAs。TdARFs 和 TdIAA 的肽呈簇状分布,显示出相似性和进化差异。超过 70% 的 TdARF 和 TdIAA 的 CDS 衍生肽序列具有其特征结构域。亚细胞定位预测 TdARF 和 TdIAA 主要存在于细胞核中。这项研究将为进一步阐明这些转录因子在生长素信号传导和随后的作物改良遗传操作中的确切作用铺平道路。此外,从全转录组测序和分析中收集的数据集是进一步研究T. dioica Roxb 的分子遗传学和功能基因组学的有用资源。