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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2014
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| Acceso en línea: | https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_14712229_v14_n1_p_Ricardi http://hdl.handle.net/20.500.12110/paper_14712229_v14_n1_p_Ricardi |
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paper:paper_14712229_v14_n1_p_Ricardi2023-06-08T16:17:17Z 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, Martiniano Maria Gonzalez, Rodrigo Matias Duffy, Tomás Turjanski, Pablo Guillermo Salgado Salter, Juan David Carrari, Fernando O. Estevez, Jose Manuel Iusem, Norberto Daniel 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. 2014 https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_14712229_v14_n1_p_Ricardi 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, Martiniano Maria Gonzalez, Rodrigo Matias Duffy, Tomás Turjanski, Pablo Guillermo Salgado Salter, Juan David Carrari, Fernando O. Estevez, Jose Manuel Iusem, Norberto Daniel 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. |
| author |
Ricardi, Martiniano Maria Gonzalez, Rodrigo Matias Duffy, Tomás Turjanski, Pablo Guillermo Salgado Salter, Juan David Carrari, Fernando O. Estevez, Jose Manuel Iusem, Norberto Daniel |
| author_facet |
Ricardi, Martiniano Maria Gonzalez, Rodrigo Matias Duffy, Tomás Turjanski, Pablo Guillermo Salgado Salter, Juan David Carrari, Fernando O. Estevez, Jose Manuel Iusem, Norberto Daniel |
| author_sort |
Ricardi, Martiniano Maria |
| 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 |
| publishDate |
2014 |
| url |
https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_14712229_v14_n1_p_Ricardi http://hdl.handle.net/20.500.12110/paper_14712229_v14_n1_p_Ricardi |
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