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Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton

Brown cotton fiber (BCF) is a unique raw material of naturally colored cotton (NCC). But characteristics of the regulatory gene network and metabolic components related to the proanthocyanidins biosynthesis pathway at various stages of its fiber development remain unclear. Here, the dynamic changes...

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Autores principales: Wang, Zhenzhen, Zhang, Xiaomeng, He, Shoupu, Rehman, Abdul, Jia, Yinhua, Li, Hongge, Pan, Zhaoe, Geng, Xiaoli, Gao, Qiong, Wang, Liru, Peng, Zhen, Du, Xiongming
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8882990/
https://www.ncbi.nlm.nih.gov/pubmed/35237281
http://dx.doi.org/10.3389/fpls.2021.822198
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author Wang, Zhenzhen
Zhang, Xiaomeng
He, Shoupu
Rehman, Abdul
Jia, Yinhua
Li, Hongge
Pan, Zhaoe
Geng, Xiaoli
Gao, Qiong
Wang, Liru
Peng, Zhen
Du, Xiongming
author_facet Wang, Zhenzhen
Zhang, Xiaomeng
He, Shoupu
Rehman, Abdul
Jia, Yinhua
Li, Hongge
Pan, Zhaoe
Geng, Xiaoli
Gao, Qiong
Wang, Liru
Peng, Zhen
Du, Xiongming
author_sort Wang, Zhenzhen
collection PubMed
description Brown cotton fiber (BCF) is a unique raw material of naturally colored cotton (NCC). But characteristics of the regulatory gene network and metabolic components related to the proanthocyanidins biosynthesis pathway at various stages of its fiber development remain unclear. Here, the dynamic changes in proanthocyanidins biosynthesis components and transcripts in the BCF variety “Zong 1-61” and its white near-isogenic lines (NILs) “RT” were characterized at five fiber developmental stages (0, 5, 10, 15, and 20 days post-anthesis; DPA). Enrichment analysis of differentially expressed genes (DEGs), comparison of metabolome differences, and pathway enrichment analysis of a weighted gene correlation network analysis together revealed the dominant gene expression of flavonoid biosynthesis (FB), phenylpropanoid metabolisms, and some carbohydrate metabolisms at 15 or 20 DPA than white cotton. Eventually, 63 genes were identified from five modules putatively related to FB. Three R2R3-MYB and two bHLH transcription factors were predicted as the core genes. Further, GhANS, GhANR1, and GhUFGT2 were preliminarily regulated by GhMYB46, GhMYB6, and GhMYB3, respectively, according to yeast one-hybrid assays in vitro. Our findings provide an important transcriptional regulatory network of proanthocyanidins biosynthesis pathway and dynamic flavonoid metabolism profiles.
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spelling pubmed-88829902022-03-01 Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton Wang, Zhenzhen Zhang, Xiaomeng He, Shoupu Rehman, Abdul Jia, Yinhua Li, Hongge Pan, Zhaoe Geng, Xiaoli Gao, Qiong Wang, Liru Peng, Zhen Du, Xiongming Front Plant Sci Plant Science Brown cotton fiber (BCF) is a unique raw material of naturally colored cotton (NCC). But characteristics of the regulatory gene network and metabolic components related to the proanthocyanidins biosynthesis pathway at various stages of its fiber development remain unclear. Here, the dynamic changes in proanthocyanidins biosynthesis components and transcripts in the BCF variety “Zong 1-61” and its white near-isogenic lines (NILs) “RT” were characterized at five fiber developmental stages (0, 5, 10, 15, and 20 days post-anthesis; DPA). Enrichment analysis of differentially expressed genes (DEGs), comparison of metabolome differences, and pathway enrichment analysis of a weighted gene correlation network analysis together revealed the dominant gene expression of flavonoid biosynthesis (FB), phenylpropanoid metabolisms, and some carbohydrate metabolisms at 15 or 20 DPA than white cotton. Eventually, 63 genes were identified from five modules putatively related to FB. Three R2R3-MYB and two bHLH transcription factors were predicted as the core genes. Further, GhANS, GhANR1, and GhUFGT2 were preliminarily regulated by GhMYB46, GhMYB6, and GhMYB3, respectively, according to yeast one-hybrid assays in vitro. Our findings provide an important transcriptional regulatory network of proanthocyanidins biosynthesis pathway and dynamic flavonoid metabolism profiles. Frontiers Media S.A. 2022-02-14 /pmc/articles/PMC8882990/ /pubmed/35237281 http://dx.doi.org/10.3389/fpls.2021.822198 Text en Copyright © 2022 Wang, Zhang, He, Rehman, Jia, Li, Pan, Geng, Gao, Wang, Peng and Du. 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
Wang, Zhenzhen
Zhang, Xiaomeng
He, Shoupu
Rehman, Abdul
Jia, Yinhua
Li, Hongge
Pan, Zhaoe
Geng, Xiaoli
Gao, Qiong
Wang, Liru
Peng, Zhen
Du, Xiongming
Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton
title Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton
title_full Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton
title_fullStr Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton
title_full_unstemmed Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton
title_short Transcriptome Co-expression Network and Metabolome Analysis Identifies Key Genes and Regulators of Proanthocyanidins Biosynthesis in Brown Cotton
title_sort transcriptome co-expression network and metabolome analysis identifies key genes and regulators of proanthocyanidins biosynthesis in brown cotton
topic Plant Science
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8882990/
https://www.ncbi.nlm.nih.gov/pubmed/35237281
http://dx.doi.org/10.3389/fpls.2021.822198
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