Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius

Abstract Miscanthus is a promising lignocellulosic bioenergy crop for bioethanol production. To identify candidate genes and regulation networks involved in secondary cell wall (SCW) development in Miscanthus, we performed de novo transcriptome analysis of a developing internode. According to the hi...

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Autores principales:	Ruibo Hu, Yan Xu, Changjiang Yu, Kang He, Qi Tang, Chunlin Jia, Guo He, Xiaoyu Wang, Yingzhen Kong, Gongke Zhou
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/52aa9b46f4414de79263122b34d71f33
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spelling	oai:doaj.org-article:52aa9b46f4414de79263122b34d71f332021-12-02T15:05:32ZTranscriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius10.1038/s41598-017-08690-82045-2322https://doaj.org/article/52aa9b46f4414de79263122b34d71f332017-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-08690-8https://doaj.org/toc/2045-2322Abstract Miscanthus is a promising lignocellulosic bioenergy crop for bioethanol production. To identify candidate genes and regulation networks involved in secondary cell wall (SCW) development in Miscanthus, we performed de novo transcriptome analysis of a developing internode. According to the histological and in-situ histochemical analysis, an elongating internode of M. lutarioriparius can be divided into three distinct segments, the upper internode (UI), middle internode (MI) and basal internode (BI), each representing a different stage of SCW development. The transcriptome analysis generated approximately 300 million clean reads, which were de novo assembled into 79,705 unigenes. Nearly 65% of unigenes was annotated in seven public databases. Comparative profiling among the UI, MI and BI revealed four distinct clusters. Moreover, detailed expression profiling was analyzed for gene families and transcription factors (TFs) involved in SCW biosynthesis, assembly and modification. Based on the co-expression patterns, putative regulatory networks between TFs and SCW-associated genes were constructed. The work provided the first transcriptome analysis of SCW development in M. lutarioriparius. The results obtained provide novel insights into the biosynthesis and regulation of SCW in Miscanthus. In addition, the genes identified represent good candidates for further functional studies to unravel their roles in SCW biosynthesis and modification.Ruibo HuYan XuChangjiang YuKang HeQi TangChunlin JiaGuo HeXiaoyu WangYingzhen KongGongke ZhouNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-16 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ruibo Hu Yan Xu Changjiang Yu Kang He Qi Tang Chunlin Jia Guo He Xiaoyu Wang Yingzhen Kong Gongke Zhou Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius
description	Abstract Miscanthus is a promising lignocellulosic bioenergy crop for bioethanol production. To identify candidate genes and regulation networks involved in secondary cell wall (SCW) development in Miscanthus, we performed de novo transcriptome analysis of a developing internode. According to the histological and in-situ histochemical analysis, an elongating internode of M. lutarioriparius can be divided into three distinct segments, the upper internode (UI), middle internode (MI) and basal internode (BI), each representing a different stage of SCW development. The transcriptome analysis generated approximately 300 million clean reads, which were de novo assembled into 79,705 unigenes. Nearly 65% of unigenes was annotated in seven public databases. Comparative profiling among the UI, MI and BI revealed four distinct clusters. Moreover, detailed expression profiling was analyzed for gene families and transcription factors (TFs) involved in SCW biosynthesis, assembly and modification. Based on the co-expression patterns, putative regulatory networks between TFs and SCW-associated genes were constructed. The work provided the first transcriptome analysis of SCW development in M. lutarioriparius. The results obtained provide novel insights into the biosynthesis and regulation of SCW in Miscanthus. In addition, the genes identified represent good candidates for further functional studies to unravel their roles in SCW biosynthesis and modification.
format	article
author	Ruibo Hu Yan Xu Changjiang Yu Kang He Qi Tang Chunlin Jia Guo He Xiaoyu Wang Yingzhen Kong Gongke Zhou
author_facet	Ruibo Hu Yan Xu Changjiang Yu Kang He Qi Tang Chunlin Jia Guo He Xiaoyu Wang Yingzhen Kong Gongke Zhou
author_sort	Ruibo Hu
title	Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius
title_short	Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius
title_full	Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius
title_fullStr	Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius
title_full_unstemmed	Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius
title_sort	transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of miscanthus lutarioriparius
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/52aa9b46f4414de79263122b34d71f33
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Transcriptome analysis of genes involved in secondary cell wall biosynthesis in developing internodes of Miscanthus lutarioriparius

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