Transcriptome-wide identification of microRNAs and functional insights inferred from microRNA—target pairs in <i>Physalis angulata</i> L

<i>Physalis angulata</i> L., a member of the family Solanaceae, is widely used as the folk medicine in various countries. Continuous research efforts are devoted to the discovery of the effective medicinal ingredients from <i>Physalis angulata</i>. However, due to the limited resources of genome and transcriptome sequencing data, only a few studies have been performed at the gene regulatory level. In this study, the transcriptomes of five organs (roots, stems, leaves, flowers and fruits) of <i>Physalis angulata</i> were reported. Based on the transcriptome assembly containing 196,117 unique transcripts, a total of 17,556 SSRs (simple sequence repeats) were identified, which could be useful RNA-based barcoding for discrimination of the plants closely relative to <i>Physalis angulata</i>. Additionally, 24 transcripts were discovered to be the potential microRNA (miRNA) precursors which encode a total of 31 distinct mature miRNAs. Some of these precursors showed organ-specific expression patterns. Target prediction revealed 116 miRNA–target pairs, involving 31 miRNAs and 83 target transcripts in <i>Physalis angulata</i>. Taken together, our results could serve as the data resource for in-depth studies on the molecular regulatory mechanisms related to the production of medicinal ingredients in <i>Physalis angulata</i>.

苦蘵（*Physalis angulata* L.）隶属于茄科（Solanaceae），在多个国家均被广泛用作民间药用植物。学界持续致力于从中挖掘有效药用成分。然而，由于基因组与转录组测序数据资源有限，目前针对其基因调控层面的研究尚为数不多。本研究报道了苦蘵5种器官（根、茎、叶、花、果实）的转录组数据。基于包含196117条非冗余转录本的转录组组装结果，共鉴定出17556个简单序列重复（simple sequence repeats, SSR）位点，这些位点可作为基于RNA的条形码，用于鉴别与苦蘵近缘的植物。此外，本研究还发现24条转录本为潜在的微小RNA（microRNA, miRNA）前体，共编码31种不同的成熟miRNA；其中部分前体呈现器官特异性表达模式。靶基因预测结果显示，共得到116个miRNA-靶基因调控对，涉及31个miRNA与83条苦蘵的靶转录本。综上，本研究所得数据资源可为深入解析苦蘵药用成分合成相关的分子调控机制提供重要支撑。

搜集汇总

背景与挑战

背景概述

该数据集提供了Physalis angulata L五个器官的转录组数据，包含196,117个独特转录本，识别了17,556个SSRs和31个成熟miRNAs及其靶标对。这些数据填补了该植物基因调控研究的空白，为探索其药用成分生产的分子机制提供了关键资源。