长链非编码RNA转录组分析揭示了桑'Yu-711'对干旱胁迫的新lncRNAs。

IF 3.9 2区 生物学 Q1 GENETICS & HEREDITY
Plant Genome Pub Date : 2024-03-01 Epub Date: 2022-10-26 DOI:10.1002/tpg2.20273
Michael Ackah, Xin Jin, Qiaonan Zhang, Frank Kwarteng Amoako, Lei Wang, Thomas Attaribo, Mengdi Zhao, Feng Yuan, Richard Ansah Herman, Changyu Qiu, Qiang Lin, Zhi Yin, Weiguo Zhao
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引用次数: 0

摘要

干旱胁迫是影响植物生长发育的重要环境因素。植物基因组能够产生长的非编码RNA(lncRNA)。为了更好地了解白桑(Morus alba L.)的干旱反应机制,我们进行了一项比较转录组研究,比较了两种处理:干旱胁迫(EG)和充分浇水(CK)植物。共鉴定出674种差异表达的lncRNA(DElncRNA)。此外,还鉴定出782种差异表达信使核糖核酸(DEmRNA)。我们进行了基因本体论(GO)和KEGG富集分析,重点是差异lncRNAs顺式靶基因。DElncRNA的靶基因最显著地参与次级代谢产物的生物合成。构建了涉及DElncRNAs、mRNAs、DEmRNAs和DElncRNA、miRNA-DEmRNA的靶基因的基因调控网络。在DElncRNAs-DEmRNAs网络中,30个参与次级代谢产物生物合成的DEmRNA与46个DElncRNA并置。使用LncTar鉴定了DElncRNA与候选基因之间的相互作用。总之,定量实时聚合酶链式反应(qRT-PCR)验证了9个候选基因和7个靶lncRNA,包括LncTar鉴定的那些。我们预测,在桑树干旱胁迫反应下,DElncRNAs DEmRNAs可能募集微小RNA(miRNA)与基因调控网络相互作用。这些发现将有助于我们理解lncRNA在干旱胁迫下的调节功能,并为桑椹干旱胁迫的相互作用提供新的线索。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
Long noncoding RNA transcriptome analysis reveals novel lncRNAs in Morus alba 'Yu-711' response to drought stress.

Drought stress has been a key environmental factor affecting plant growth and development. The plant genome is capable of producing long noncoding RNAs (lncRNAs). To better understand white mulberry (Morus alba L.) drought response mechanism, we conducted a comparative transcriptome study comparing two treatments: drought-stressed (EG) and well-watered (CK) plants. A total of 674 differentially expressed lncRNAs (DElncRNAs) were identified. In addition, 782 differentially expressed messenger RNAs (DEmRNAs) were identified. We conducted Gene Ontology (GO) and KEGG enrichment analyses focusing on the differential lncRNAs cis-target genes. The target genes of the DElncRNAs were most significantly involved in the biosynthesis of secondary metabolites. Gene regulatory networks of the target genes involving DElncRNAs-mRNAs-DEmRNAs and DElncRNA-miRNA-DEmRNA were constructed. In the DElncRNAs-DEmRNAs network, 30 DEmRNAs involved in the biosynthesis of secondary metabolites are collocated with 46 DElncRNAs. The interaction between DElncRNAs and candidate genes was identified using LncTar. In summary, quantitative real-time polymerase chain reaction (qRT-PCR) validated nine candidate genes and seven target lncRNAs including those identified by LncTar. We predicted that the DElncRNAs-DEmRNAs might recruit microRNAs (miRNAs) to interact with gene regulatory networks under the drought stress response in mulberry. The findings will contribute to our understanding of the regulatory functions of lncRNAs under drought stress and will shed new light on the mulberry-drought stress interactions.

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来源期刊
Plant Genome
Plant Genome PLANT SCIENCES-GENETICS & HEREDITY
CiteScore
6.00
自引率
4.80%
发文量
93
审稿时长
>12 weeks
期刊介绍: The Plant Genome publishes original research investigating all aspects of plant genomics. Technical breakthroughs reporting improvements in the efficiency and speed of acquiring and interpreting plant genomics data are welcome. The editorial board gives preference to novel reports that use innovative genomic applications that advance our understanding of plant biology that may have applications to crop improvement. The journal also publishes invited review articles and perspectives that offer insight and commentary on recent advances in genomics and their potential for agronomic improvement.
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