Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis

Abstract Tobacco (Nicotiana tabacum) is considered as the model plant for alkaloid research, of which nicotine accounts for 90%. Many nicotine biosynthetic genes have been identified and were known to be regulated by jasmonate-responsive transcription factors. As an important regulator in plant phys...

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Autores principales:	Jingjing Jin, Yalong Xu, Peng Lu, Qiansi Chen, Pingping Liu, Jinbang Wang, Jianfeng Zhang, Zefeng Li, Aiguo Yang, Fengxia Li, Peijian Cao
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/ab1988939db64037ac798c1854fa43bf
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spelling	oai:doaj.org-article:ab1988939db64037ac798c1854fa43bf2021-12-02T15:32:59ZDegradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis10.1038/s41598-020-68691-y2045-2322https://doaj.org/article/ab1988939db64037ac798c1854fa43bf2020-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-68691-yhttps://doaj.org/toc/2045-2322Abstract Tobacco (Nicotiana tabacum) is considered as the model plant for alkaloid research, of which nicotine accounts for 90%. Many nicotine biosynthetic genes have been identified and were known to be regulated by jasmonate-responsive transcription factors. As an important regulator in plant physiological processes, whether small RNAs are involved in nicotine biosynthesis is largely unknown. Here, we combine transcriptome, small RNAs and degradome analysis of two native tobacco germplasms YJ1 and ZY100 to investigate small RNA’s function. YJ1 leaves accumulate twofold higher nicotine than ZY100. Transcriptome analysis revealed 3,865 genes which were differently expressed in leaf and root of two germplasms, including some known nicotine and jasmonate pathway genes. By small RNA sequencing, 193 miRNAs were identified to be differentially expressed between YJ1 and ZY100. Using in silico and degradome sequencing approaches, six nicotine biosynthetic genes and seven jasmonate pathway genes were predicted to be targeted by 77 miRNA loci. Three pairs among them were validated by transient expression in vivo. Combined analysis of degradome and transcriptome datasets revealed 51 novel miRNA-mRNA interactions that may regulate nicotine biosynthesis. The comprehensive analysis of our study may provide new insights into the regulatory network of nicotine biosynthesis.Jingjing JinYalong XuPeng LuQiansi ChenPingping LiuJinbang WangJianfeng ZhangZefeng LiAiguo YangFengxia LiPeijian CaoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-11 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Jingjing Jin Yalong Xu Peng Lu Qiansi Chen Pingping Liu Jinbang Wang Jianfeng Zhang Zefeng Li Aiguo Yang Fengxia Li Peijian Cao Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis
description	Abstract Tobacco (Nicotiana tabacum) is considered as the model plant for alkaloid research, of which nicotine accounts for 90%. Many nicotine biosynthetic genes have been identified and were known to be regulated by jasmonate-responsive transcription factors. As an important regulator in plant physiological processes, whether small RNAs are involved in nicotine biosynthesis is largely unknown. Here, we combine transcriptome, small RNAs and degradome analysis of two native tobacco germplasms YJ1 and ZY100 to investigate small RNA’s function. YJ1 leaves accumulate twofold higher nicotine than ZY100. Transcriptome analysis revealed 3,865 genes which were differently expressed in leaf and root of two germplasms, including some known nicotine and jasmonate pathway genes. By small RNA sequencing, 193 miRNAs were identified to be differentially expressed between YJ1 and ZY100. Using in silico and degradome sequencing approaches, six nicotine biosynthetic genes and seven jasmonate pathway genes were predicted to be targeted by 77 miRNA loci. Three pairs among them were validated by transient expression in vivo. Combined analysis of degradome and transcriptome datasets revealed 51 novel miRNA-mRNA interactions that may regulate nicotine biosynthesis. The comprehensive analysis of our study may provide new insights into the regulatory network of nicotine biosynthesis.
format	article
author	Jingjing Jin Yalong Xu Peng Lu Qiansi Chen Pingping Liu Jinbang Wang Jianfeng Zhang Zefeng Li Aiguo Yang Fengxia Li Peijian Cao
author_facet	Jingjing Jin Yalong Xu Peng Lu Qiansi Chen Pingping Liu Jinbang Wang Jianfeng Zhang Zefeng Li Aiguo Yang Fengxia Li Peijian Cao
author_sort	Jingjing Jin
title	Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis
title_short	Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis
title_full	Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis
title_fullStr	Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis
title_full_unstemmed	Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis
title_sort	degradome, small rnas and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers mirna’s function in nicotine biosynthesis
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/ab1988939db64037ac798c1854fa43bf
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Degradome, small RNAs and transcriptome sequencing of a high-nicotine cultivated tobacco uncovers miRNA’s function in nicotine biosynthesis

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