Genome-wide view and characterization of natural antisense transcripts in Cannabis Sativa L

IF 3.9 2区生物学 Q2 BIOCHEMISTRY & MOLECULAR BIOLOGY

Plant Molecular Biology Pub Date : 2024-04-17 DOI:10.1007/s11103-024-01434-z

Chang Zhang, Mei Jiang, Jingting Liu, Bin Wu, Chang Liu

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Abstract

Natural Antisense Transcripts (NATs) are a kind of complex regulatory RNAs that play crucial roles in gene expression and regulation. However, the NATs in Cannabis Sativa L., a widely economic and medicinal plant rich in cannabinoids remain unknown. In this study, we comprehensively predicted C. sativa NATs genome-wide using strand-specific RNA sequencing (ssRNA-Seq) data, and validated the expression profiles by strand-specific quantitative reverse transcription PCR (ssRT-qPCR). Consequently, a total of 307 NATs were predicted in C. sativa, including 104 cis- and 203 trans- NATs. Functional enrichment analysis demonstrated the potential involvement of the C. sativa NATs in DNA polymerase activity, RNA-DNA hybrid ribonuclease activity, and nucleic acid binding. Finally, 18 cis- and 376 trans- NAT-ST pairs were predicted to produce 621 cis- and 5,679 trans- small interfering RNA (nat-siRNAs), respectively. These nat-siRNAs were potentially involved in the biosynthesis of cannabinoids and cellulose. All these results will shed light on the regulation of NATs and nat-siRNAs in C. sativa.

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大麻（Cannabis Sativa L）天然反义转录本的全基因组视图和特征描述

天然反义转录本（NATs）是一种复杂的调控 RNA，在基因表达和调控中发挥着至关重要的作用。然而，大麻（Cannabis Sativa L.）这种富含大麻素的经济药用植物中的 NATs 仍然不为人知。在本研究中，我们利用链特异性 RNA 测序（ssRNA-Seq）数据在全基因组范围内对大麻 NATs 进行了全面预测，并通过链特异性定量反转录 PCR（ssRT-qPCR）对其表达谱进行了验证。结果，在 C. sativa 中总共预测出 307 种 NATs，包括 104 种顺式 NATs 和 203 种反式 NATs。功能富集分析表明，荠菜 NATs 可能参与 DNA 聚合酶活性、RNA-DNA 杂交核糖核酸酶活性和核酸结合。最后，预测 18 对顺式 NAT-ST 和 376 对反式 NAT-ST 可分别产生 621 条顺式小干扰 RNA 和 5,679 条反式小干扰 RNA（nat-siRNA）。这些 nat-siRNAs 有可能参与大麻素和纤维素的生物合成。所有这些结果将揭示 C. sativa 中 NATs 和 nat-siRNAs 的调控。

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来源期刊

Plant Molecular Biology 生物-生化与分子生物学

自引率

2.00%

发文量

审稿时长

1.4 months

期刊介绍： Plant Molecular Biology is an international journal dedicated to rapid publication of original research articles in all areas of plant biology.The Editorial Board welcomes full-length manuscripts that address important biological problems of broad interest, including research in comparative genomics, functional genomics, proteomics, bioinformatics, computational biology, biochemical and regulatory networks, and biotechnology. Because space in the journal is limited, however, preference is given to publication of results that provide significant new insights into biological problems and that advance the understanding of structure, function, mechanisms, or regulation. Authors must ensure that results are of high quality and that manuscripts are written for a broad plant science audience.