Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor

Background: Identifying the target genes of transcription factors is important for unraveling regulatory networks in all types of organisms. Our interest was precisely to uncover the spectrum of loci regulated by a widespread plant transcription factor involved in physiological adaptation to drought...

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Autores principales:	Ricardi, M.M., González, R.M., Zhong, S., Domínguez, P.G., Duffy, T., Turjanski, P.G., Salgado Salter, J.D., Alleva, K., Carrari, F., Giovannoni, J.J., Estévez, J.M., Iusem, N.D.
Formato:	JOUR
Materias:	Aquaporin ASR1 Cell wall ChIP-seq Tomato Water stress Arabidopsis Lycopersicon esculentum aquaporin transcription factor vegetable protein article cell wall chromatin immunoprecipitation gene expression regulation genetics metabolism tomato Aquaporins Cell Wall Chromatin Immunoprecipitation Gene Expression Regulation, Plant Plant Proteins Transcription Factors
Acceso en línea:	http://hdl.handle.net/20.500.12110/paper_14712229_v14_n1_p_Ricardi
Aporte de:	Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) de Universidad de Buenos Aires

id	todo:paper_14712229_v14_n1_p_Ricardi
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spelling	todo:paper_14712229_v14_n1_p_Ricardi2023-10-03T16:17:50Z Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor Ricardi, M.M. González, R.M. Zhong, S. Domínguez, P.G. Duffy, T. Turjanski, P.G. Salgado Salter, J.D. Alleva, K. Carrari, F. Giovannoni, J.J. Estévez, J.M. Iusem, N.D. Aquaporin ASR1 Cell wall ChIP-seq Tomato Water stress Arabidopsis Lycopersicon esculentum Arabidopsis Lycopersicon esculentum aquaporin transcription factor vegetable protein article cell wall chromatin immunoprecipitation gene expression regulation genetics metabolism tomato Aquaporins Cell Wall Chromatin Immunoprecipitation Gene Expression Regulation, Plant Lycopersicon esculentum Plant Proteins Transcription Factors Background: Identifying the target genes of transcription factors is important for unraveling regulatory networks in all types of organisms. Our interest was precisely to uncover the spectrum of loci regulated by a widespread plant transcription factor involved in physiological adaptation to drought, a type of stress that plants have encountered since the colonization of land habitats 400 MYA. The regulator under study, named ASR1, is exclusive to the plant kingdom (albeit absent in Arabidopsis) and known to alleviate the stress caused by restricted water availability. As its target genes are still unknown despite the original cloning of Asr1 cDNA 20 years ago, we examined the tomato genome for specific loci interacting in vivo with this conspicuous protein. Results: We performed ChIP followed by high throughput DNA sequencing (ChIP-seq) on leaves from stressed tomato plants, using a high-quality anti-ASR1 antibody. In this way, we unraveled a novel repertoire of target genes, some of which are clearly involved in the response to drought stress. Many of the ASR1-enriched genomic loci we found encode enzymes involved in cell wall synthesis and remodeling as well as channels implicated in water and solute flux, such as aquaporins. In addition, we were able to determine a robust consensus ASR1-binding DNA motif.Conclusions: The finding of cell wall synthesis and aquaporin genes as targets of ASR1 is consistent with their suggested role in the physiological adaptation of plants to water loss. The results gain insight into the environmental stress-sensing pathways leading to plant tolerance of drought. © 2014 Ricardi et al.; licensee BioMed Central Ltd. Fil:Ricardi, M.M. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:González, R.M. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Duffy, T. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Turjanski, P.G. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Salgado Salter, J.D. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Carrari, F. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Estévez, J.M. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Iusem, N.D. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_14712229_v14_n1_p_Ricardi
institution	Universidad de Buenos Aires
institution_str	I-28
repository_str	R-134
collection	Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA)
topic	Aquaporin ASR1 Cell wall ChIP-seq Tomato Water stress Arabidopsis Lycopersicon esculentum Arabidopsis Lycopersicon esculentum aquaporin transcription factor vegetable protein article cell wall chromatin immunoprecipitation gene expression regulation genetics metabolism tomato Aquaporins Cell Wall Chromatin Immunoprecipitation Gene Expression Regulation, Plant Lycopersicon esculentum Plant Proteins Transcription Factors
spellingShingle	Aquaporin ASR1 Cell wall ChIP-seq Tomato Water stress Arabidopsis Lycopersicon esculentum Arabidopsis Lycopersicon esculentum aquaporin transcription factor vegetable protein article cell wall chromatin immunoprecipitation gene expression regulation genetics metabolism tomato Aquaporins Cell Wall Chromatin Immunoprecipitation Gene Expression Regulation, Plant Lycopersicon esculentum Plant Proteins Transcription Factors Ricardi, M.M. González, R.M. Zhong, S. Domínguez, P.G. Duffy, T. Turjanski, P.G. Salgado Salter, J.D. Alleva, K. Carrari, F. Giovannoni, J.J. Estévez, J.M. Iusem, N.D. Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
topic_facet	Aquaporin ASR1 Cell wall ChIP-seq Tomato Water stress Arabidopsis Lycopersicon esculentum Arabidopsis Lycopersicon esculentum aquaporin transcription factor vegetable protein article cell wall chromatin immunoprecipitation gene expression regulation genetics metabolism tomato Aquaporins Cell Wall Chromatin Immunoprecipitation Gene Expression Regulation, Plant Lycopersicon esculentum Plant Proteins Transcription Factors
description	Background: Identifying the target genes of transcription factors is important for unraveling regulatory networks in all types of organisms. Our interest was precisely to uncover the spectrum of loci regulated by a widespread plant transcription factor involved in physiological adaptation to drought, a type of stress that plants have encountered since the colonization of land habitats 400 MYA. The regulator under study, named ASR1, is exclusive to the plant kingdom (albeit absent in Arabidopsis) and known to alleviate the stress caused by restricted water availability. As its target genes are still unknown despite the original cloning of Asr1 cDNA 20 years ago, we examined the tomato genome for specific loci interacting in vivo with this conspicuous protein. Results: We performed ChIP followed by high throughput DNA sequencing (ChIP-seq) on leaves from stressed tomato plants, using a high-quality anti-ASR1 antibody. In this way, we unraveled a novel repertoire of target genes, some of which are clearly involved in the response to drought stress. Many of the ASR1-enriched genomic loci we found encode enzymes involved in cell wall synthesis and remodeling as well as channels implicated in water and solute flux, such as aquaporins. In addition, we were able to determine a robust consensus ASR1-binding DNA motif.Conclusions: The finding of cell wall synthesis and aquaporin genes as targets of ASR1 is consistent with their suggested role in the physiological adaptation of plants to water loss. The results gain insight into the environmental stress-sensing pathways leading to plant tolerance of drought. © 2014 Ricardi et al.; licensee BioMed Central Ltd.
format	JOUR
author	Ricardi, M.M. González, R.M. Zhong, S. Domínguez, P.G. Duffy, T. Turjanski, P.G. Salgado Salter, J.D. Alleva, K. Carrari, F. Giovannoni, J.J. Estévez, J.M. Iusem, N.D.
author_facet	Ricardi, M.M. González, R.M. Zhong, S. Domínguez, P.G. Duffy, T. Turjanski, P.G. Salgado Salter, J.D. Alleva, K. Carrari, F. Giovannoni, J.J. Estévez, J.M. Iusem, N.D.
author_sort	Ricardi, M.M.
title	Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
title_short	Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
title_full	Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
title_fullStr	Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
title_full_unstemmed	Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor
title_sort	genome-wide data (chip-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato asr1, a drought stress-responsive transcription factor
url	http://hdl.handle.net/20.500.12110/paper_14712229_v14_n1_p_Ricardi
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Genome-wide data (ChIP-seq) enabled identification of cell wall-related and aquaporin genes as targets of tomato ASR1, a drought stress-responsive transcription factor

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