Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in Eucalyptus grandis Hill

Cellulose, an essential structural component in the plant cell wall and a renewable biomass resource, plays a significant role in nature. Eucalyptus’s excellent timber tree species (including Eucalyptus grandis Hill) provide many raw materials for the paper and...

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Autores principales:	Ni Zhan, Zhen Wang, Yaojian Xie, Xiuhua Shang, Guo Liu, Zhihua Wu
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	cellulose <i>Eucalyptus grandis</i> non-coding RNA regulatory network Plant ecology QK900-989
Acceso en línea:	https://doaj.org/article/9d15365786ce40ffa9977ab3fc35f9ee
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spelling	oai:doaj.org-article:9d15365786ce40ffa9977ab3fc35f9ee2021-11-25T17:38:52ZExpression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill10.3390/f121115651999-4907https://doaj.org/article/9d15365786ce40ffa9977ab3fc35f9ee2021-11-01T00:00:00Zhttps://www.mdpi.com/1999-4907/12/11/1565https://doaj.org/toc/1999-4907Cellulose, an essential structural component in the plant cell wall and a renewable biomass resource, plays a significant role in nature. <i>Eucalyptus’s</i> excellent timber tree species (including <i>Eucalyptus grandis</i> Hill) provide many raw materials for the paper and wood industries. The synthesis of cellulose is a very complex process involving multiple genes and regulated by various biological networks. However, research on regulating associated genes and non-coding RNAs during cellulose synthesis in <i>E. grandis</i> remains lacking. In this study, the wood anatomical characteristics and chemical indexes of <i>E. grandis</i> were analyzed by taking three different parts (diameter at breast height (DBH), middle and upper part of the trunk) from the main stem of <i>E. grandis</i> as raw materials. The role of non-coding RNAs (Long non-coding RNA, lncRNA; Micro RNA, miRNA; Circle RNA, circRNA) on regulating candidate genes was presented, and the network map of ceRNA (Competing endogenous RNA) regulation during wood cellulose biosynthesis of <i>E. grandis</i> was constructed. The transcriptome sequencing of nine samples obtained from the trunk of the immature xylem in <i>E. grandis</i> at DBH, middle and upper parts had a 95.81 G clean reading, 57,480 transcripts, 7365 lncRNAs, and 5180 circRNAs. Each sample had 172–306 known miRNAs and 1644–3508 new miRNAs. A total of 190 DE-lncRNAs (Differentially expressed long non-coding RNAs), 174 DE-miRNAs (Differentially expressed micro RNAs), and 270 DE-circRNAs (Differentially expressed circle RNAs) were obtained by comparing transcript expression levels. Four lncRNAs and nine miRNAs were screened out, and the ceRNA regulatory network was constructed. <i>LncRNA1</i> and <i>lncRNA4</i> regulated the genes responsible for cellulose synthesis in <i>E. grandis</i>, which were overexpressed in 84K (<i>Populus Alba</i> × <i>Populus glandulosa</i>) poplar. The cellulose and lignin content in <i>lncRNA4-oe</i> were significantly higher than wild type 84K poplar and <i>lncRNA1-oe</i>. The average plant height, middle and basal part of the stem diameter in <i>lncRNA4-oe</i> were significantly higher than the wild type. However, there was no significant difference between the growth of <i>lncRNA1-oe</i> and the wild type. Further studies are warranted to explore the molecular regulatory mechanism of cellulose biosynthesis in <i>Eucalyptus</i> species.Ni ZhanZhen WangYaojian XieXiuhua ShangGuo LiuZhihua WuMDPI AGarticlecellulose<i>Eucalyptus grandis</i>non-coding RNAregulatory networkPlant ecologyQK900-989ENForests, Vol 12, Iss 1565, p 1565 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	cellulose <i>Eucalyptus grandis</i> non-coding RNA regulatory network Plant ecology QK900-989
spellingShingle	cellulose <i>Eucalyptus grandis</i> non-coding RNA regulatory network Plant ecology QK900-989 Ni Zhan Zhen Wang Yaojian Xie Xiuhua Shang Guo Liu Zhihua Wu Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill
description	Cellulose, an essential structural component in the plant cell wall and a renewable biomass resource, plays a significant role in nature. <i>Eucalyptus’s</i> excellent timber tree species (including <i>Eucalyptus grandis</i> Hill) provide many raw materials for the paper and wood industries. The synthesis of cellulose is a very complex process involving multiple genes and regulated by various biological networks. However, research on regulating associated genes and non-coding RNAs during cellulose synthesis in <i>E. grandis</i> remains lacking. In this study, the wood anatomical characteristics and chemical indexes of <i>E. grandis</i> were analyzed by taking three different parts (diameter at breast height (DBH), middle and upper part of the trunk) from the main stem of <i>E. grandis</i> as raw materials. The role of non-coding RNAs (Long non-coding RNA, lncRNA; Micro RNA, miRNA; Circle RNA, circRNA) on regulating candidate genes was presented, and the network map of ceRNA (Competing endogenous RNA) regulation during wood cellulose biosynthesis of <i>E. grandis</i> was constructed. The transcriptome sequencing of nine samples obtained from the trunk of the immature xylem in <i>E. grandis</i> at DBH, middle and upper parts had a 95.81 G clean reading, 57,480 transcripts, 7365 lncRNAs, and 5180 circRNAs. Each sample had 172–306 known miRNAs and 1644–3508 new miRNAs. A total of 190 DE-lncRNAs (Differentially expressed long non-coding RNAs), 174 DE-miRNAs (Differentially expressed micro RNAs), and 270 DE-circRNAs (Differentially expressed circle RNAs) were obtained by comparing transcript expression levels. Four lncRNAs and nine miRNAs were screened out, and the ceRNA regulatory network was constructed. <i>LncRNA1</i> and <i>lncRNA4</i> regulated the genes responsible for cellulose synthesis in <i>E. grandis</i>, which were overexpressed in 84K (<i>Populus Alba</i> × <i>Populus glandulosa</i>) poplar. The cellulose and lignin content in <i>lncRNA4-oe</i> were significantly higher than wild type 84K poplar and <i>lncRNA1-oe</i>. The average plant height, middle and basal part of the stem diameter in <i>lncRNA4-oe</i> were significantly higher than the wild type. However, there was no significant difference between the growth of <i>lncRNA1-oe</i> and the wild type. Further studies are warranted to explore the molecular regulatory mechanism of cellulose biosynthesis in <i>Eucalyptus</i> species.
format	article
author	Ni Zhan Zhen Wang Yaojian Xie Xiuhua Shang Guo Liu Zhihua Wu
author_facet	Ni Zhan Zhen Wang Yaojian Xie Xiuhua Shang Guo Liu Zhihua Wu
author_sort	Ni Zhan
title	Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill
title_short	Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill
title_full	Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill
title_fullStr	Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill
title_full_unstemmed	Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill
title_sort	expression patterns and regulation of non-coding rnas during synthesis of cellulose in <i>eucalyptus grandis</i> hill
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/9d15365786ce40ffa9977ab3fc35f9ee
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_version_	1718412119597121536

Expression Patterns and Regulation of Non-Coding RNAs during Synthesis of Cellulose in <i>Eucalyptus grandis</i> Hill

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