A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism

Abstract Plant metabolism is more complex relative to individual microbes. In single‐celled microbes, transcriptional regulation by single transcription factors (TFs) is sufficient to shift primary metabolism. Corresponding genome‐level transcriptional regulatory maps of metabolism reveal the underl...

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Autores principales:	Michelle Tang, Baohua Li, Xue Zhou, Tayah Bolt, Jia Jie Li, Neiman Cruz, Allison Gaudinier, Richard Ngo, Caitlin Clark‐Wiest, Daniel J Kliebenstein, Siobhan M Brady
Formato:	article
Lenguaje:	EN
Publicado:	Wiley 2021
Materias:	CCPs central carbon promoters GSL glucosinolate TF transcription factor Y1H yeast one‐hybrid Biology (General) QH301-705.5 Medicine (General) R5-920
Acceso en línea:	https://doaj.org/article/962340fd55334b9da50d9b05a1caff5c
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spelling	oai:doaj.org-article:962340fd55334b9da50d9b05a1caff5c2021-11-29T08:21:37ZA genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism1744-429210.15252/msb.202110625https://doaj.org/article/962340fd55334b9da50d9b05a1caff5c2021-11-01T00:00:00Zhttps://doi.org/10.15252/msb.202110625https://doaj.org/toc/1744-4292Abstract Plant metabolism is more complex relative to individual microbes. In single‐celled microbes, transcriptional regulation by single transcription factors (TFs) is sufficient to shift primary metabolism. Corresponding genome‐level transcriptional regulatory maps of metabolism reveal the underlying design principles responsible for these shifts as a model in which master regulators largely coordinate specific metabolic pathways. Plant primary and specialized metabolism occur within innumerable cell types, and their reactions shift depending on internal and external cues. Given the importance of plants and their metabolites in providing humanity with food, fiber, and medicine, we set out to develop a genome‐scale transcriptional regulatory map of Arabidopsis metabolic genes. A comprehensive set of protein–DNA interactions between Arabidopsis thaliana TFs and gene promoters in primary and specialized metabolic pathways were mapped. To demonstrate the utility of this resource, we identified and functionally validated regulators of the tricarboxylic acid (TCA) cycle. The resulting network suggests that plant metabolic design principles are distinct from those of microbes. Instead, metabolism appears to be transcriptionally coordinated via developmental‐ and stress‐conditional processes that can coordinate across primary and specialized metabolism. These data represent the most comprehensive resource of interactions between TFs and metabolic genes in plants.Michelle TangBaohua LiXue ZhouTayah BoltJia Jie LiNeiman CruzAllison GaudinierRichard NgoCaitlin Clark‐WiestDaniel J KliebensteinSiobhan M BradyWileyarticleCCPs central carbon promotersGSL glucosinolateTF transcription factorY1H yeast one‐hybridBiology (General)QH301-705.5Medicine (General)R5-920ENMolecular Systems Biology, Vol 17, Iss 11, Pp n/a-n/a (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	CCPs central carbon promoters GSL glucosinolate TF transcription factor Y1H yeast one‐hybrid Biology (General) QH301-705.5 Medicine (General) R5-920
spellingShingle	CCPs central carbon promoters GSL glucosinolate TF transcription factor Y1H yeast one‐hybrid Biology (General) QH301-705.5 Medicine (General) R5-920 Michelle Tang Baohua Li Xue Zhou Tayah Bolt Jia Jie Li Neiman Cruz Allison Gaudinier Richard Ngo Caitlin Clark‐Wiest Daniel J Kliebenstein Siobhan M Brady A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism
description	Abstract Plant metabolism is more complex relative to individual microbes. In single‐celled microbes, transcriptional regulation by single transcription factors (TFs) is sufficient to shift primary metabolism. Corresponding genome‐level transcriptional regulatory maps of metabolism reveal the underlying design principles responsible for these shifts as a model in which master regulators largely coordinate specific metabolic pathways. Plant primary and specialized metabolism occur within innumerable cell types, and their reactions shift depending on internal and external cues. Given the importance of plants and their metabolites in providing humanity with food, fiber, and medicine, we set out to develop a genome‐scale transcriptional regulatory map of Arabidopsis metabolic genes. A comprehensive set of protein–DNA interactions between Arabidopsis thaliana TFs and gene promoters in primary and specialized metabolic pathways were mapped. To demonstrate the utility of this resource, we identified and functionally validated regulators of the tricarboxylic acid (TCA) cycle. The resulting network suggests that plant metabolic design principles are distinct from those of microbes. Instead, metabolism appears to be transcriptionally coordinated via developmental‐ and stress‐conditional processes that can coordinate across primary and specialized metabolism. These data represent the most comprehensive resource of interactions between TFs and metabolic genes in plants.
format	article
author	Michelle Tang Baohua Li Xue Zhou Tayah Bolt Jia Jie Li Neiman Cruz Allison Gaudinier Richard Ngo Caitlin Clark‐Wiest Daniel J Kliebenstein Siobhan M Brady
author_facet	Michelle Tang Baohua Li Xue Zhou Tayah Bolt Jia Jie Li Neiman Cruz Allison Gaudinier Richard Ngo Caitlin Clark‐Wiest Daniel J Kliebenstein Siobhan M Brady
author_sort	Michelle Tang
title	A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism
title_short	A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism
title_full	A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism
title_fullStr	A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism
title_full_unstemmed	A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism
title_sort	genome‐scale tf–dna interaction network of transcriptional regulation of arabidopsis primary and specialized metabolism
publisher	Wiley
publishDate	2021
url	https://doaj.org/article/962340fd55334b9da50d9b05a1caff5c
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A genome‐scale TF–DNA interaction network of transcriptional regulation of Arabidopsis primary and specialized metabolism

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