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整合的miRNA组、转录组和降解组分析揭示了miRNA-mRNA模块在冬凌草甲素生物合成中的作用。

Integrated miRNAome, transcriptome, and degradome analyses reveal the role of miRNA-mRNA modules in the biosynthesis of oridonin in .

作者信息

Zhu Lili, Zhang Xiaoxiao, Guo Hui, Xu Zihan, Wang Zhimin, Dai Liping

机构信息

Henan University of Chinese Medicine, Collaborative Innovation Center of Research and Development on the Whole Industry Chain of Yu-Yao, Zhengzhou, Henan, China.

Engineering Center for Comprehensive Development and Utilization of Authentic Medicinal Materials in Henan Province, Zhengzhou, China.

出版信息

Front Plant Sci. 2025 Jun 18;16:1566354. doi: 10.3389/fpls.2025.1566354. eCollection 2025.

DOI:10.3389/fpls.2025.1566354
PMID:40606481
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12213554/
Abstract

INTRODUCTION: contains many bioactive diterpenoids, especially oridonin, which are used both as medicines and drinks. However, the structure and content of the diterpenoids in vary greatly in response to different ecological environments. MicroRNAs (miRNAs) play a pivotal role in the biosynthesis of secondary metabolites; but their roles in are obscure. METHODS: This research involved conducting miRNAome, transcriptome, and degradome sequencing analysis of three ecotypes of . Furthermore, the regulation of two candidate miRNA-mRNA modules was validated through a dual-luciferase reporter system. RESULTS: In this study, a total of 1634 miRNAs were identified from 9 miRNAome libraries of three ecotypes, which contained various contents of oridonin, lasiodonin, and rosthorin A. Furthermore, 99 DEMs and 8180 DEGs were obtained across three ecotypes, and the expressions of selected DEMs and DEGs were verified via reverse transcription quantitative PCR (RT-qPCR). A total of 8928 miRNA-mRNAs networks were identified by degradome analysis, and 23 miRNA-mRNA modules were enriched in the terpenoid biosynthesis pathway. Additionally, 92 negatively correlated DEM‒DEG modules were identified through integrated miRNAome, transcriptome, and degradome analyses, ath-miR858b_1ss21GA‒MYB and ath-miR408-3p_L-1R+1‒ modules were likely involved in oridonin biosynthesis in . Furthermore, the negative regulation of ath-miR858b_1ss21GA targeted MYB was validated through a dual-luciferase reporter system. DISCUSSION: This study revealed that Ath-miR858b_1ss21GA could repress MYB transcription, potentially downregulating the specific genes involved in the biosynthesis of oridonin and reducing oridonin accumulation in .

摘要

引言：含有许多生物活性二萜类化合物，尤其是冬凌草甲素，其既用作药物又用作饮品。然而，二萜类化合物在[植物名称]中的结构和含量会因不同的生态环境而有很大差异。微小RNA（miRNA）在次生代谢产物的生物合成中起关键作用；但其在[植物名称]中的作用尚不清楚。 方法：本研究对[植物名称]的三种生态型进行了miRNA组、转录组和降解组测序分析。此外，通过双荧光素酶报告系统验证了两个候选miRNA-mRNA模块的调控作用。 结果：在本研究中，从三种[植物名称]生态型的9个miRNA组文库中总共鉴定出1634个miRNA，这些文库中冬凌草甲素、毛萼乙素和罗索辛A的含量各不相同。此外，在三种[植物名称]生态型中获得了99个差异表达miRNA（DEM）和8180个差异表达基因（DEG），并通过逆转录定量PCR（RT-qPCR）验证了所选DEM和DEG的表达。通过降解组分析共鉴定出8928个miRNA-mRNA网络，并且有23个miRNA-mRNA模块在萜类生物合成途径中富集。此外，通过整合miRNA组、转录组和降解组分析鉴定出92个负相关的DEM-DEG模块，ath-miR858b_1ss21GA-MYB和ath-miR408-3p_L-1R+1-模块可能参与了[植物名称]中冬凌草甲素的生物合成。此外，通过双荧光素酶报告系统验证了ath-miR858b_1ss21GA对MYB的负调控作用。 讨论：本研究表明，Ath-miR858b_1ss21GA可以抑制MYB转录，可能下调参与冬凌草甲素生物合成的特定基因，并减少[植物名称]中冬凌草甲素的积累。

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本文引用的文献

[1]
MYB proteins: Versatile regulators of plant development, stress responses, and secondary metabolite biosynthetic pathways.

Int J Biol Macromol. 2025-2

[2]
Rabdosia rubescens (Hemsl.) H. Hara: A potent anti-tumor herbal remedy - Botany, phytochemistry, and clinical applications and insights.

J Ethnopharmacol. 2025-1-31

[3]
High-quality assembly of the T2T genome for Isodon rubescens f. lushanensis reveals genomic structure variations between 2 typical forms of Isodon rubescens.

Gigascience. 2024-1-2

[4]
The Smi-miR858a- module regulates tanshinone and phenolic acid biosynthesis in .

Hortic Res. 2024-2-23

[5]
Molecular mechanism of miRNA mediated biosynthesis of secondary metabolites in medicinal plants.

Plant Physiol Biochem. 2024-3

[6]
Multi-omics analysis of small RNA, transcriptome, and degradome to identify putative miRNAs linked to MeJA regulated and oridonin biosynthesis in Isodon rubescens.

Int J Biol Macromol. 2024-2

[7]
Identification of miRNA858 long-loop precursors in seed plants.

Plant Cell. 2024-5-1

[8]
Contemporary understanding of transcription factor regulation of terpenoid biosynthesis in plants.

Planta. 2023-11-16

[9]
Identification and functional characterization of three cytochrome P450 genes for the abietane diterpenoid biosynthesis in Isodon lophanthoides.

Planta. 2023-3-29

[10]
Integrative analysis of microRNAs and mRNAs reveals the regulatory networks of triterpenoid saponin metabolism in Soapberry ( Gaertn.).

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