基于小RNA测序的风轮菜microRNA及其靶基因分析

许景垚; 单春苗; 单婷玉; 赵历强; 马克龙; 吴家文

doi:10.11913/PSJ.2095-0837.2022.20216

基于小RNA测序的风轮菜microRNA及其靶基因分析

许景垚^1,2,
单春苗^1,2,
单婷玉^1,2,
赵历强^1,2,
马克龙^3, ,,
吴家文^2,4,5, ,

1. 安徽中医药大学研究生院, 合肥 230012;
2. 安徽中医药大学科研实验中心, 新安医学教育部重点实验室, 合肥 230038;
3. 安徽中医药大学中西医结合临床学院, 合肥 230012;
4. 安徽道地中药材品质提升协同创新中心, 合肥 230012;
5. 安徽省中医药科学院, 合肥 230012

基金项目:

安徽省自然科学基金项目（2008085MH268，2108085MH315）；国家重点研发计划项目（2017YFC1701600）；安徽中医药大学国家项目培养基金项目（2020PY02）；安徽高校自然科学研究项目（KJ2019A0476）。

详细信息

作者简介:
许景垚(1996-),女,硕士研究生,研究方向为中草药分子生物学(E-mail:737126233@qq.com)。

通讯作者:
马克龙,E-mail:makelong210@126.com

吴家文,E-mail:wujiawen@ahtcm.edu.cn

中图分类号: Q943.2
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出版历程
- 收稿日期: 2021-09-12
- 修回日期: 2021-12-29
- 网络出版日期: 2022-10-31
- 发布日期: 2022-04-27

Analysis of microRNAs and their target genes in Clinopodium chinense (Benth.) O. Kuntze using small RNA sequencing

1. Graduate School of Anhui University of Chinese Medicine, Hefei 230012, China;
2. Key Laboratory of Xin'an Medicine, Ministry of Education, Anhui University of Chinese Medicine, Hefei 230038, China;
3. Clinical College of Anhui Integrated Traditional Chinese and Western Medicine, Hefei 230012, China;
4. Synergetic Innovation Center of Anhui Authentic Chinese Medicine Quality Improvement, Hefei 230012;
5. Anhui Academy of Chinese Medicine, Hefei 230012, China

Funds:

This work was supported by grants from the Natural Science Foundation of Anhui Province of China (2008085MH268, 2108085MH315), National Key R&D Program of China (2017YFC1701600), National Project Training Fund of Anhui University of Traditional Chinese Medicine (2020PY02), and Natural Science Research Grant of Higher Education of Anhui Province (KJ2019A0476).

摘要

摘要: 本研究以风轮菜（Clinopodium chinense（Benth.） O.Kuntze）为材料，采用BGISEQ-500测序平台对风轮菜根、茎和叶的小RNA进行转录组测序，并对其黄酮类物质合成途径中参与调控的microRNA （miRNA）及其靶基因进行了分析。结果显示，鉴定出的保守miRNA有86个，属于26个家族，新发现miRNA 8个，筛选出风轮菜黄酮类物质合成途径中调控3个关键酶的候选miRNA （novel_mir3、miR167d-5p、miR396h）。通过对靶基因编码的关键酶4-香豆酸辅酶A连接酶进行序列分析和同源建模，发现其具有高度保守的底物结合区域、催化结构域及两个保守的肽基序。
- 风轮菜 /
- 转录组测序 /
- miRNA /
- 黄酮 /
- 4-香豆素辅酶A连接酶
Abstract: To analyze the flavonoid biosynthesis pathway in Clinopodium chinense (Benth.) O. Kuntze and to explore the role of microRNAs (miRNAs) in target gene regulation, transcriptome sequencing of small RNAs (sRNAs) in the roots, stems, and leaves of C. chinense was carried out using the BGISEQ-500 platform. In total, 86 conserved miRNAs were identified, divided into 26 families, and eight novel miRNAs were predicted. Three candidate miRNAs (novel_mir3, miR167d-5p, and miR396h) and their target genes involved in the flavonoid biosynthesis pathway were screened out. Sequence analysis and homologous modeling of 4-coumarate-CoA ligase, a key enzyme encoded by a target gene, showed that it had two conserved peptide motifs and a highly conserved substrate binding groove and catalytic domain. This research lays a foundation for functional genomics study of C. chinense and understanding the regulation mechanism of flavonoid biosynthesis.
- Clinopodium chinense /
- RNA sequencing /
- miRNA /
- Flavonoids /
- 4-Coumarate-CoA ligase

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