title: A Transcriptional and Metabolic Framework for Secondary Wall Formation in Arabidopsis.
abstract: Plant cell walls are essential for plant growth and development. The cell walls are traditionally divided into primary walls, which surround growing cells, and secondary walls, which provide structural support to certain cell types and promote their functions. While much information is available about the enzymes and components that contribute to the production of these two types of walls, much less is known about the transition from primary to secondary wall synthesis. To address this question, we made use of a transcription factor system in Arabidopsis (Arabidopsis thaliana) in which an overexpressed master secondary wall-inducing transcription factor, VASCULAR-RELATED NAC DOMAIN PROTEIN7, can be redirected into the nucleus by the addition of dexamethasone. We established the time frame during which primary wall synthesis changed into secondary wall production in dexamethasone-treated seedlings and measured transcript and metabolite abundance at eight time points after induction. Using cluster- and network-based analyses, we integrated the data sets to explore coordination between transcripts, metabolites, and the combination of the two across the time points. We provide the raw data as well as a range of network-based analyses. These data reveal links between hormone signaling and metabolic processes during the formation of secondary walls and provide a framework toward a deeper understanding of how primary walls transition into secondary walls.
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Zheng
authors: 0000-0002-2004-8349
authors: Z
authors: Li
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Nooshin
authors: 0000-0001-5548-4338
authors: N
authors: Omranian
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Lutz
authors: 0000-0002-6946-567X
authors: L
authors: Neumetzler
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Ting
authors: 0000-0002-6845-600X
authors: T
authors: Wang
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Thomas
authors: T
authors: Herter
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Bjoern
authors: B
authors: Usadel
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Taku
authors: T
authors: Demura
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Patrick
authors: 0000-0002-4636-1827
authors: P
authors: Giavalisco
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.).
authors: Zoran
authors: 0000-0003-2671-6763
authors: Z
authors: Nikoloski
authors: School of BioSciences (Z.L., S.P.) and Australian Research Council Centre of Excellence in Plant Cell Walls (S.P.), University of Melbourne, Parkville, Victoria 3010, Australia;Max-Planck-Institute of Molecular Plant Physiology, 14476 Potsdam, Germany (Z.L., N.O., L.N., T.W., T.H., P.G., Z.N., S.P.);Institute for Botany and Molecular Genetics, BioEconomy Science Center, RWTH Aachen University, 52056 Aachen, Germany (B.U.); andGraduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0192, Japan (T.D.) staffan.persson@unimelb.edu.au.
authors: Staffan
authors: 0000-0002-6377-5132
authors: S
authors: Persson
mesh_terms: D017360:Arabidopsis / Q000235:genetics* / Q000378:metabolism; D029681:Arabidopsis Proteins / Q000235:genetics* / Q000378:metabolism; D002467:Cell Nucleus / Q000187:drug effects / Q000378:metabolism; D002473:Cell Wall / Q000235:genetics* / Q000378:metabolism; D002853:Chromatography, Liquid; D003907:Dexamethasone / Q000494:pharmacology; D020869:Gene Expression Profiling / Q000379:methods; D018506:Gene Expression Regulation, Plant; D063990:Gene Ontology; D053858:Metabolic Networks and Pathways / Q000235:genetics*; D055432:Metabolomics / Q000379:methods; D010788:Photosynthesis / Q000235:genetics; D021381:Protein Transport / Q000187:drug effects / Q000235:genetics; D020133:Reverse Transcriptase Polymerase Chain Reaction; D036226:Seedlings / Q000235:genetics / Q000378:metabolism; D053719:Tandem Mass Spectrometry; D014157:Transcription Factors / Q000235:genetics* / Q000378:metabolism
chemical_list: D029681:Arabidopsis Proteins; D014157:Transcription Factors; C583237:VND7 protein, Arabidopsis; D003907:Dexamethasone