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Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata

Cunninghamia lanceolata is an essential timber species that provide 20%–30% raw materials for China’s timber industry. Although a few transcriptomes have been published in C. lanceolata, full-length mRNA transcripts and regulatory mechanisms behind the cellulose and lignin biosynthesis have not been...

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Autores principales: Hu, Xian-Ge, Zhuang, Hebi, Lin, Erpei, Borah, Priyanka, Du, Mingqiu, Gao, Shiya, Wang, Tongli, Tong, Zaikang, Huang, Huahong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9194830/
https://www.ncbi.nlm.nih.gov/pubmed/35712576
http://dx.doi.org/10.3389/fpls.2022.883720
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author Hu, Xian-Ge
Zhuang, Hebi
Lin, Erpei
Borah, Priyanka
Du, Mingqiu
Gao, Shiya
Wang, Tongli
Tong, Zaikang
Huang, Huahong
author_facet Hu, Xian-Ge
Zhuang, Hebi
Lin, Erpei
Borah, Priyanka
Du, Mingqiu
Gao, Shiya
Wang, Tongli
Tong, Zaikang
Huang, Huahong
author_sort Hu, Xian-Ge
collection PubMed
description Cunninghamia lanceolata is an essential timber species that provide 20%–30% raw materials for China’s timber industry. Although a few transcriptomes have been published in C. lanceolata, full-length mRNA transcripts and regulatory mechanisms behind the cellulose and lignin biosynthesis have not been thoroughly investigated. Here, PacBio Iso-seq and RNA-seq analyses were adapted to identify the full-length and differentially expressed transcripts along a developmental gradient from apex to base of C. lanceolata shoots. A total of 48,846 high-quality full-length transcripts were obtained, of which 88.0% are completed transcriptome based on benchmarking universal single-copy orthologs (BUSCO) assessment. Along stem developmental gradient, 18,714 differentially expressed genes (DEGs) were detected. Further, 28 and 125 DEGs were identified as enzyme-coding genes of cellulose and lignin biosynthesis, respectively. Moreover, 57 transcription factors (TFs), including MYB and NAC, were identified to be involved in the regulatory network of cellulose and lignin biosynthesis through weighted gene co-expression network analysis (WGCNA). These TFs are composed of a comparable regulatory network of secondary cell wall formation in angiosperms, revealing a similar mechanism may exist in gymnosperms. Further, through qRT-PCR, we also investigated eight specific TFs involved in compression wood formation. Our findings provide a comprehensive and valuable source for molecular genetics breeding of C. lanceolata and will be beneficial for molecular-assisted selection.
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spelling pubmed-91948302022-06-15 Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata Hu, Xian-Ge Zhuang, Hebi Lin, Erpei Borah, Priyanka Du, Mingqiu Gao, Shiya Wang, Tongli Tong, Zaikang Huang, Huahong Front Plant Sci Plant Science Cunninghamia lanceolata is an essential timber species that provide 20%–30% raw materials for China’s timber industry. Although a few transcriptomes have been published in C. lanceolata, full-length mRNA transcripts and regulatory mechanisms behind the cellulose and lignin biosynthesis have not been thoroughly investigated. Here, PacBio Iso-seq and RNA-seq analyses were adapted to identify the full-length and differentially expressed transcripts along a developmental gradient from apex to base of C. lanceolata shoots. A total of 48,846 high-quality full-length transcripts were obtained, of which 88.0% are completed transcriptome based on benchmarking universal single-copy orthologs (BUSCO) assessment. Along stem developmental gradient, 18,714 differentially expressed genes (DEGs) were detected. Further, 28 and 125 DEGs were identified as enzyme-coding genes of cellulose and lignin biosynthesis, respectively. Moreover, 57 transcription factors (TFs), including MYB and NAC, were identified to be involved in the regulatory network of cellulose and lignin biosynthesis through weighted gene co-expression network analysis (WGCNA). These TFs are composed of a comparable regulatory network of secondary cell wall formation in angiosperms, revealing a similar mechanism may exist in gymnosperms. Further, through qRT-PCR, we also investigated eight specific TFs involved in compression wood formation. Our findings provide a comprehensive and valuable source for molecular genetics breeding of C. lanceolata and will be beneficial for molecular-assisted selection. Frontiers Media S.A. 2022-05-31 /pmc/articles/PMC9194830/ /pubmed/35712576 http://dx.doi.org/10.3389/fpls.2022.883720 Text en Copyright © 2022 Hu, Zhuang, Lin, Borah, Du, Gao, Wang, Tong and Huang. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Plant Science
Hu, Xian-Ge
Zhuang, Hebi
Lin, Erpei
Borah, Priyanka
Du, Mingqiu
Gao, Shiya
Wang, Tongli
Tong, Zaikang
Huang, Huahong
Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata
title Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata
title_full Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata
title_fullStr Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata
title_full_unstemmed Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata
title_short Full-Length Transcriptome Sequencing and Comparative Transcriptomic Analyses Provide Comprehensive Insight Into Molecular Mechanisms of Cellulose and Lignin Biosynthesis in Cunninghamia lanceolata
title_sort full-length transcriptome sequencing and comparative transcriptomic analyses provide comprehensive insight into molecular mechanisms of cellulose and lignin biosynthesis in cunninghamia lanceolata
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9194830/
https://www.ncbi.nlm.nih.gov/pubmed/35712576
http://dx.doi.org/10.3389/fpls.2022.883720
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