• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利：CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法，用中文像聊天一样搜索，搜遍4000万医学文献。AI智能推荐，让科研检索更轻松。

立即免费搜索

文件翻译

保留排版，准确专业，支持PDF/Word/PPT等文件格式，支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述，25分钟生成高质量综述，智能提取关键信息，辅助科研写作。

立即免费体验

全基因组鉴定和分析 miRNA 及自然反义转录本揭示了 中次生代谢基因调控网络的复杂性。

Genome-Wide Identification and Characterization of miRNAs and Natural Antisense Transcripts Show the Complexity of Gene Regulatory Networks for Secondary Metabolism in .

机构信息

State Key Laboratory for Quality Ensurance and Sustainable Use of Dao-di Herbs, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China.

Engineering Research Center of Chinese Medicine Resource of Ministry of Education, Institute of Medicinal Plant Development, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing 100193, China.

出版信息

Int J Mol Sci. 2024 May 30;25(11):6043. doi: 10.3390/ijms25116043.

DOI:10.3390/ijms25116043
PMID:38892231
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11172604/
Abstract

Bunge is an academically and medicinally important plant species. It belongs to the magnoliids, with an uncertain phylogenetic position, and is one of the few plant species lacking a whole-genome duplication (WGD) event after the angiosperm-wide WGD. has been an important traditional Chinese medicine material. Since it contains aristolochic acids (AAs), chemical compounds with nephrotoxity and carcinogenicity, the utilization of this plant has attracted widespread attention. Great efforts are being made to increase its bioactive compounds and reduce or completely remove toxic compounds. MicroRNAs (miRNAs) and natural antisense transcripts (NATs) are two classes of regulators potentially involved in metabolism regulation. Here, we report the identification and characterization of 223 miRNAs and 363 miRNA targets. The identified miRNAs include 51 known miRNAs belonging to 20 families and 172 novel miRNAs belonging to 107 families. A negative correlation between the expression of miRNAs and their targets was observed. In addition, we identified 441 NATs and 560 NAT-sense transcript (ST) pairs, of which 12 NATs were targets of 13 miRNAs, forming 18 miRNA-NAT-ST modules. Various miRNAs and NATs potentially regulated secondary metabolism through the modes of miRNA-target gene-enzyme genes, NAT-STs, and NAT-miRNA-target gene-enzyme genes, suggesting the complexity of gene regulatory networks in . The results lay a solid foundation for further manipulating the production of its bioactive and toxic compounds.

摘要

云实属是一种具有学术和药用价值的植物。它属于木兰类植物，系统发育位置不确定，是被子植物广泛全基因组加倍（WGD）后少数几种没有发生全基因组加倍（WGD）事件的植物之一。一直是一种重要的传统中药材料。由于其含有马兜铃酸（AA），这是一种具有肾毒性和致癌性的化学化合物，因此对这种植物的利用引起了广泛关注。人们正在努力增加其生物活性化合物的含量并减少或完全去除有毒化合物。microRNAs (miRNAs) 和天然反义转录本 (NATs) 是两类潜在参与代谢调控的调节剂。在这里，我们报告了 223 个 miRNAs 和 363 个 miRNA 靶标的鉴定和特征。鉴定的 miRNAs 包括 51 个已知 miRNA，属于 20 个家族和 172 个新的 miRNA，属于 107 个家族。观察到 miRNA 和它们的靶标之间的表达呈负相关。此外，我们还鉴定了 441 个 NATs 和 560 个 NAT- sense 转录物（ST）对，其中 12 个 NAT 是 13 个 miRNA 的靶标，形成 18 个 miRNA-NAT-ST 模块。各种 miRNAs 和 NATs 通过 miRNA-靶基因-酶基因、NAT-STs 和 NAT-miRNA-靶基因-酶基因的模式潜在地调节次生代谢，这表明在 中的基因调控网络的复杂性。该结果为进一步操纵其生物活性和有毒化合物的产生奠定了坚实的基础。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/c15ba06bb3b4/ijms-25-06043-g013.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/d5d6122fa8aa/ijms-25-06043-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/cf3258cdf83f/ijms-25-06043-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/4da285742ec8/ijms-25-06043-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/727e0ea22a59/ijms-25-06043-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/eb698622fdcd/ijms-25-06043-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/8875e40c20d8/ijms-25-06043-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/c94c5ac62c30/ijms-25-06043-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/3988357100eb/ijms-25-06043-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/9d11a601978d/ijms-25-06043-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/76c788dd018b/ijms-25-06043-g010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/2fee56b244c8/ijms-25-06043-g011.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/d826e61161a4/ijms-25-06043-g012.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/c15ba06bb3b4/ijms-25-06043-g013.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/d5d6122fa8aa/ijms-25-06043-g001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/cf3258cdf83f/ijms-25-06043-g002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/4da285742ec8/ijms-25-06043-g003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/727e0ea22a59/ijms-25-06043-g004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/eb698622fdcd/ijms-25-06043-g005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/8875e40c20d8/ijms-25-06043-g006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/c94c5ac62c30/ijms-25-06043-g007.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/3988357100eb/ijms-25-06043-g008.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/9d11a601978d/ijms-25-06043-g009.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/76c788dd018b/ijms-25-06043-g010.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/2fee56b244c8/ijms-25-06043-g011.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/d826e61161a4/ijms-25-06043-g012.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/0d60/11172604/c15ba06bb3b4/ijms-25-06043-g013.jpg

相似文献

1
Genome-Wide Identification and Characterization of miRNAs and Natural Antisense Transcripts Show the Complexity of Gene Regulatory Networks for Secondary Metabolism in .全基因组鉴定和分析 miRNA 及自然反义转录本揭示了 中次生代谢基因调控网络的复杂性。
Int J Mol Sci. 2024 May 30;25(11):6043. doi: 10.3390/ijms25116043.
2
Genome-wide identification and functional characterization of natural antisense transcripts in Salvia miltiorrhiza.丹参全基因组鉴定及天然反义转录本的功能特征分析
Sci Rep. 2021 Feb 26;11(1):4769. doi: 10.1038/s41598-021-83520-6.
3
Prediction and identification of natural antisense transcripts and their small RNAs in soybean (Glycine max).预测和鉴定大豆（Glycine max）中的天然反义转录本及其小 RNA。
BMC Genomics. 2013 Apr 24;14:280. doi: 10.1186/1471-2164-14-280.
4
Genome-wide prediction and identification of cis-natural antisense transcripts in Arabidopsis thaliana.拟南芥中顺式天然反义转录本的全基因组预测与鉴定
Genome Biol. 2005;6(4):R30. doi: 10.1186/gb-2005-6-4-r30. Epub 2005 Mar 15.
5
Small RNAs and the regulation of cis-natural antisense transcripts in Arabidopsis.拟南芥中的小RNA与顺式天然反义转录本的调控
BMC Mol Biol. 2008 Jan 14;9:6. doi: 10.1186/1471-2199-9-6.
6
Genome-wide view of natural antisense transcripts in Arabidopsis thaliana.拟南芥中天然反义转录本的全基因组视图。
DNA Res. 2015 Jun;22(3):233-43. doi: 10.1093/dnares/dsv008. Epub 2015 Apr 28.
7
Genome-wide analysis for discovery of rice microRNAs reveals natural antisense microRNAs (nat-miRNAs).全基因组分析发现水稻微小RNA，揭示了天然反义微小RNA（nat-miRNA）。
Proc Natl Acad Sci U S A. 2008 Mar 25;105(12):4951-6. doi: 10.1073/pnas.0708743105. Epub 2008 Mar 19.
8
Chromosome-level genome assembly of Aristolochia contorta provides insights into the biosynthesis of benzylisoquinoline alkaloids and aristolochic acids.马兜铃的染色体水平基因组组装为苄基异喹啉生物碱和马兜铃酸的生物合成提供了见解。
Hortic Res. 2022 Feb 11;9. doi: 10.1093/hr/uhac005.
9
Prediction of trans-antisense transcripts in Arabidopsis thaliana.拟南芥中转反义转录本的预测
Genome Biol. 2006;7(10):R92. doi: 10.1186/gb-2006-7-10-r92. Epub 2006 Oct 13.
10
Integrated detection of natural antisense transcripts using strand-specific RNA sequencing data.使用链特异性 RNA 测序数据进行自然反义转录本的综合检测。
Genome Res. 2013 Oct;23(10):1730-9. doi: 10.1101/gr.149310.112. Epub 2013 Jul 1.

引用本文的文献

1
Genome-Wide Identification and Functional Analysis of the Norcoclaurine Synthase Gene Family in .某植物中去甲乌药碱合酶基因家族的全基因组鉴定与功能分析
Int J Mol Sci. 2025 May 1;26(9):4314. doi: 10.3390/ijms26094314.

本文引用的文献

1
Genome-Wide Identification and Functional Analysis of MicroRNAs Reveal the Negative Regulatory Role of Smi-miR159a in Phenolic Acid Biosynthesis.全基因组鉴定和功能分析揭示了 Smi-miR159a 在酚酸生物合成中的负调控作用。
Int J Mol Sci. 2024 May 9;25(10):5148. doi: 10.3390/ijms25105148.
2
The Smi-miR858a- module regulates tanshinone and phenolic acid biosynthesis in .Smi-miR858a模块调控丹参中丹参酮和酚酸的生物合成。
Hortic Res. 2024 Feb 23;11(4):uhae047. doi: 10.1093/hr/uhae047. eCollection 2024 Apr.
3
A long non-coding RNA functions as a competitive endogenous RNA to modulate TaNAC018 by acting as a decoy for tae-miR6206.
一个长的非编码 RNA 作为竞争性内源性 RNA 通过充当 tae-miR6206 的诱饵来调节 TaNAC018。
Plant Mol Biol. 2024 Apr 10;114(3):36. doi: 10.1007/s11103-024-01448-7.
4
Characterization of two CYP80 enzymes provides insights into aporphine alkaloid skeleton formation in Aristolochia contorta.两种CYP80酶的表征为马兜铃中阿朴啡生物碱骨架的形成提供了见解。
Plant J. 2024 Jun;118(5):1439-1454. doi: 10.1111/tpj.16686. Epub 2024 Feb 20.
5
Multi-omics analysis of small RNA, transcriptome, and degradome to identify putative miRNAs linked to MeJA regulated and oridonin biosynthesis in Isodon rubescens.基于 small RNA、转录组和降解组的多组学分析鉴定与 MeJA 调控和冬凌草甲素生物合成相关的假定 miRNA。
Int J Biol Macromol. 2024 Feb;258(Pt 2):129123. doi: 10.1016/j.ijbiomac.2023.129123. Epub 2023 Dec 30.
6
Multilayered regulation of secondary metabolism in medicinal plants.药用植物次生代谢的多层调控
Mol Hortic. 2023 Jun 6;3(1):11. doi: 10.1186/s43897-023-00059-y.
7
Characteristics of methylome and the regulatory mechanism of DNA methylation in tanshinone biosynthesis.丹参酮生物合成中甲基化组的特征及DNA甲基化的调控机制
Hortic Res. 2023 May 31;10(7):uhad114. doi: 10.1093/hr/uhad114. eCollection 2023 Jul.
8
Chromosome-level genome assembly of with orange roots uncovers the role of Sm2OGD3 in catalyzing 15,16-dehydrogenation of tanshinones.橙色根的[物种名称未给出]的染色体水平基因组组装揭示了Sm2OGD3在催化丹参酮15,16-脱氢反应中的作用。
Hortic Res. 2023 Apr 13;10(6):uhad069. doi: 10.1093/hr/uhad069. eCollection 2023 Jun.
9
Antisense Transcription in Plants: A Systematic Review and an Update on cis-NATs of Sugarcane.植物中的反义转录：系统综述及甘蔗顺式-NATs 的更新。
Int J Mol Sci. 2022 Oct 1;23(19):11603. doi: 10.3390/ijms231911603.
10
Comparative Transcriptome and Proteome Analysis Provides New Insights Into the Mechanism of Protein Synthesis in Kenaf ( L.) Leaves.比较转录组和蛋白质组分析为红麻叶片蛋白质合成机制提供新见解。
Front Plant Sci. 2022 Jun 21;13:879874. doi: 10.3389/fpls.2022.879874. eCollection 2022.