Regulatory role of non-coding RNA in ginseng rusty root symptom tissue

Abstract Ginseng rusty root symptom (GRS) is one of the primary diseases of ginseng. It leads to a severe decline in the quality of ginseng and significantly affects the ginseng industry. The regulatory mechanism of non-coding RNA (ncRNA) remains unclear in the course of disease. This study explored...

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Autores principales:	Xingbo Bian, Pengcheng Yu, Ling Dong, Yan Zhao, He Yang, Yongzhong Han, Lianxue Zhang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/f77c9da492e14efab8bf970c697b01c6
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spelling	oai:doaj.org-article:f77c9da492e14efab8bf970c697b01c62021-12-02T17:39:20ZRegulatory role of non-coding RNA in ginseng rusty root symptom tissue10.1038/s41598-021-88709-32045-2322https://doaj.org/article/f77c9da492e14efab8bf970c697b01c62021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-88709-3https://doaj.org/toc/2045-2322Abstract Ginseng rusty root symptom (GRS) is one of the primary diseases of ginseng. It leads to a severe decline in the quality of ginseng and significantly affects the ginseng industry. The regulatory mechanism of non-coding RNA (ncRNA) remains unclear in the course of disease. This study explored the long ncRNAs (lncRNAs), circular RNAs (circRNAs), and microRNAs (miRNAs) in GRS tissues and healthy ginseng (HG) tissues and performed functional enrichment analysis of the screened differentially expressed ncRNAs. Considering the predictive and regulatory effects of ncRNAs on mRNAs, we integrated ncRNA and mRNA data to analyze and construct relevant regulatory networks. A total of 17,645 lncRNAs, 245 circRNAs, and 299 miRNAs were obtained from HG and GRS samples, and the obtained ncRNAs were characterized, including the classification of lncRNAs, length and distribution of circRNA, and the length and family affiliations of miRNAs. In the analysis of differentially expressed ncRNA target genes, we found that lncRNAs may be involved in the homeostatic process of ginseng tissues and that lncRNAs, circRNAs, and miRNAs are involved in fatty acid-related regulation, suggesting that alterations in fatty acid-related pathways may play a key role in GRS. Besides, differentially expressed ncRNAs play an essential role in regulating transcriptional translation processes, primary metabolism such as starch and sucrose, and secondary metabolism such as alkaloids in ginseng tissues. Finally, we integrated the correlations between ncRNAs and mRNAs, constructed corresponding interaction networks, and identified ncRNAs that may play critical roles in GRS. These results provide a basis for revealing GRS's molecular mechanism and enrich our understanding of ncRNAs in ginseng.Xingbo BianPengcheng YuLing DongYan ZhaoHe YangYongzhong HanLianxue ZhangNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-23 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Xingbo Bian Pengcheng Yu Ling Dong Yan Zhao He Yang Yongzhong Han Lianxue Zhang Regulatory role of non-coding RNA in ginseng rusty root symptom tissue
description	Abstract Ginseng rusty root symptom (GRS) is one of the primary diseases of ginseng. It leads to a severe decline in the quality of ginseng and significantly affects the ginseng industry. The regulatory mechanism of non-coding RNA (ncRNA) remains unclear in the course of disease. This study explored the long ncRNAs (lncRNAs), circular RNAs (circRNAs), and microRNAs (miRNAs) in GRS tissues and healthy ginseng (HG) tissues and performed functional enrichment analysis of the screened differentially expressed ncRNAs. Considering the predictive and regulatory effects of ncRNAs on mRNAs, we integrated ncRNA and mRNA data to analyze and construct relevant regulatory networks. A total of 17,645 lncRNAs, 245 circRNAs, and 299 miRNAs were obtained from HG and GRS samples, and the obtained ncRNAs were characterized, including the classification of lncRNAs, length and distribution of circRNA, and the length and family affiliations of miRNAs. In the analysis of differentially expressed ncRNA target genes, we found that lncRNAs may be involved in the homeostatic process of ginseng tissues and that lncRNAs, circRNAs, and miRNAs are involved in fatty acid-related regulation, suggesting that alterations in fatty acid-related pathways may play a key role in GRS. Besides, differentially expressed ncRNAs play an essential role in regulating transcriptional translation processes, primary metabolism such as starch and sucrose, and secondary metabolism such as alkaloids in ginseng tissues. Finally, we integrated the correlations between ncRNAs and mRNAs, constructed corresponding interaction networks, and identified ncRNAs that may play critical roles in GRS. These results provide a basis for revealing GRS's molecular mechanism and enrich our understanding of ncRNAs in ginseng.
format	article
author	Xingbo Bian Pengcheng Yu Ling Dong Yan Zhao He Yang Yongzhong Han Lianxue Zhang
author_facet	Xingbo Bian Pengcheng Yu Ling Dong Yan Zhao He Yang Yongzhong Han Lianxue Zhang
author_sort	Xingbo Bian
title	Regulatory role of non-coding RNA in ginseng rusty root symptom tissue
title_short	Regulatory role of non-coding RNA in ginseng rusty root symptom tissue
title_full	Regulatory role of non-coding RNA in ginseng rusty root symptom tissue
title_fullStr	Regulatory role of non-coding RNA in ginseng rusty root symptom tissue
title_full_unstemmed	Regulatory role of non-coding RNA in ginseng rusty root symptom tissue
title_sort	regulatory role of non-coding rna in ginseng rusty root symptom tissue
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/f77c9da492e14efab8bf970c697b01c6
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_version_	1718379859424575488

Regulatory role of non-coding RNA in ginseng rusty root symptom tissue

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