Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis

Poplar is an important bioenergy tree species. lncRNAs play important roles in various biological regulatory processes, and their expression pattern is more tissue-specific than mRNAs. In this study, P. deltoides “Danhong” (Pd) and P. simonii “Tongliao1” (Ps) with different growth rates and wood qua...

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Autores principales:	Lei Zhang, Xiaolan Ge, Jiujun Du, Xingqi Cheng, Xiaopeng Peng, Jianjun Hu
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	lncRNA–mRNA poplar phenylalanine biosynthesis xylem hormone Genetics QH426-470
Acceso en línea:	https://doaj.org/article/fc7c3882673a4f6397de05e60318cca7
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spelling	oai:doaj.org-article:fc7c3882673a4f6397de05e60318cca72021-11-15T12:01:29ZGenome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis1664-802110.3389/fgene.2021.762678https://doaj.org/article/fc7c3882673a4f6397de05e60318cca72021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fgene.2021.762678/fullhttps://doaj.org/toc/1664-8021Poplar is an important bioenergy tree species. lncRNAs play important roles in various biological regulatory processes, and their expression pattern is more tissue-specific than mRNAs. In this study, P. deltoides “Danhong” (Pd) and P. simonii “Tongliao1” (Ps) with different growth rates and wood quality were used as experimental materials, and the transcriptomes of their shoot apical meristem, xylem, and phloem were sequenced. Furthermore, high-throughput RNA sequencing analysis revealed that the expression patterns of genes and lncRNAs are different between the two genotypes. 6,355 lncRNAs were identified. Based on target prediction, lncRNAs and target genes were involved in ADP binding, oxidoreductase activity, phenylpropanoid biosynthesis, and cyanoamino acid metabolism. The DElncRNAs in two poplars were co-expressed with transcription factors and structural genes of lignin and flavonoid pathways. In addition, we found the potential target lncRNAs of miRNA. This result provides basic evidence for a better understanding of the regulatory role of lncRNAs in regulating phenylalanine molecular pathways and wood formation.Lei ZhangXiaolan GeJiujun DuXingqi ChengXiaopeng PengJianjun HuJianjun HuFrontiers Media S.A.articlelncRNA–mRNApoplarphenylalanine biosynthesisxylemhormoneGeneticsQH426-470ENFrontiers in Genetics, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	lncRNA–mRNA poplar phenylalanine biosynthesis xylem hormone Genetics QH426-470
spellingShingle	lncRNA–mRNA poplar phenylalanine biosynthesis xylem hormone Genetics QH426-470 Lei Zhang Xiaolan Ge Jiujun Du Xingqi Cheng Xiaopeng Peng Jianjun Hu Jianjun Hu Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis
description	Poplar is an important bioenergy tree species. lncRNAs play important roles in various biological regulatory processes, and their expression pattern is more tissue-specific than mRNAs. In this study, P. deltoides “Danhong” (Pd) and P. simonii “Tongliao1” (Ps) with different growth rates and wood quality were used as experimental materials, and the transcriptomes of their shoot apical meristem, xylem, and phloem were sequenced. Furthermore, high-throughput RNA sequencing analysis revealed that the expression patterns of genes and lncRNAs are different between the two genotypes. 6,355 lncRNAs were identified. Based on target prediction, lncRNAs and target genes were involved in ADP binding, oxidoreductase activity, phenylpropanoid biosynthesis, and cyanoamino acid metabolism. The DElncRNAs in two poplars were co-expressed with transcription factors and structural genes of lignin and flavonoid pathways. In addition, we found the potential target lncRNAs of miRNA. This result provides basic evidence for a better understanding of the regulatory role of lncRNAs in regulating phenylalanine molecular pathways and wood formation.
format	article
author	Lei Zhang Xiaolan Ge Jiujun Du Xingqi Cheng Xiaopeng Peng Jianjun Hu Jianjun Hu
author_facet	Lei Zhang Xiaolan Ge Jiujun Du Xingqi Cheng Xiaopeng Peng Jianjun Hu Jianjun Hu
author_sort	Lei Zhang
title	Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis
title_short	Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis
title_full	Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis
title_fullStr	Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis
title_full_unstemmed	Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis
title_sort	genome-wide identification of long non-coding rnas and their potential functions in poplar growth and phenylalanine biosynthesis
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/fc7c3882673a4f6397de05e60318cca7
work_keys_str_mv	AT leizhang genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis AT xiaolange genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis AT jiujundu genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis AT xingqicheng genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis AT xiaopengpeng genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis AT jianjunhu genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis AT jianjunhu genomewideidentificationoflongnoncodingrnasandtheirpotentialfunctionsinpoplargrowthandphenylalaninebiosynthesis
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Genome-Wide Identification of Long Non-Coding RNAs and Their Potential Functions in Poplar Growth and Phenylalanine Biosynthesis

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