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...
| Main Authors: | , , , , , , , , , , , |
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| Format: | Artículo |
| Language: | Inglés |
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BMC
2019
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| Online Access: | https://bmcplantbiol.biomedcentral.com/articles/10.1186/1471-2229-14-29 http://hdl.handle.net/20.500.12123/4290 https://doi.org/10.1186/1471-2229-14-29 |
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| author | Ricardi, Martiniano María González, Rodrigo Matías Silin, Zhong Dominguez, Pia Guadalupe Duffy, Tomas Turjanski, Pablo Guillermo Salgado Salter, Juan David Alleva, Karina Edith Carrari, Fernando Giovannoni, James J. Estevez, Jose Manuel Iusem, Norberto Daniel |
| author_browse | Alleva, Karina Edith Carrari, Fernando Dominguez, Pia Guadalupe Duffy, Tomas Estevez, Jose Manuel Giovannoni, James J. González, Rodrigo Matías Iusem, Norberto Daniel Ricardi, Martiniano María Salgado Salter, Juan David Silin, Zhong Turjanski, Pablo Guillermo |
| author_facet | Ricardi, Martiniano María González, Rodrigo Matías Silin, Zhong Dominguez, Pia Guadalupe Duffy, Tomas Turjanski, Pablo Guillermo Salgado Salter, Juan David Alleva, Karina Edith Carrari, Fernando Giovannoni, James J. Estevez, Jose Manuel Iusem, Norberto Daniel |
| author_sort | Ricardi, Martiniano María |
| collection | INTA Digital |
| 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. |
| format | Artículo |
| id | INTA4290 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2019 |
| publishDateRange | 2019 |
| publishDateSort | 2019 |
| publisher | BMC |
| publisherStr | BMC |
| record_format | dspace |
| spelling | INTA42902019-01-18T11:44:16Z 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 María González, Rodrigo Matías Silin, Zhong Dominguez, Pia Guadalupe Duffy, Tomas Turjanski, Pablo Guillermo Salgado Salter, Juan David Alleva, Karina Edith Carrari, Fernando Giovannoni, James J. Estevez, Jose Manuel Iusem, Norberto Daniel Tomate Genética Genomas Pared Celular Estrés de Sequia Tomatoes Genetics Genomes Cell Walls Drought Stress Drought Resistance Resistencia a la Sequía 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. Instituto de Biotecnología Fil: Ricardi, Martiniano María. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina Fil: González, Rodrigo Matías. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina Fil: Silin, Zhong. Cornell University. Boyce Thompson Institute For Plant Research; Estados Unidos Fil: Dominguez, Pia Guadalupe. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina Fil: Duffy, Tomás. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina Fil: Turjanski, Pablo Guillermo. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Computación; Argentina Fil: Salgado Salter, Juan David. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina Fil: Alleva, Karina Edith. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Biodiversidad y Biología Experimental y Aplicada. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Biodiversidad y Biología Experimental y Aplicada; Argentina Fil: Carrari, Fernando Oscar. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Biotecnología; Argentina Fil: Giovannoni, James J. Cornell University. Department of Plant Biology; Estados Unidos Fil: Estevez, Jose Manuel. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina Fil: Iusem, Norberto Daniel. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Ciudad Universitaria. Instituto de Fisiología, Biología Molecular y Neurociencias. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Instituto de Fisiología, Biología Molecular y Neurociencias; Argentina. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales. Departamento de Fisiología, Biología Molecular y Celular; Argentina 2019-01-18T11:42:26Z 2019-01-18T11:42:26Z 2014-01 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion https://bmcplantbiol.biomedcentral.com/articles/10.1186/1471-2229-14-29 http://hdl.handle.net/20.500.12123/4290 1471-2229 https://doi.org/10.1186/1471-2229-14-29 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf BMC BMC Plant Biology 14 : 29 (2014) |
| spellingShingle | Tomate Genética Genomas Pared Celular Estrés de Sequia Tomatoes Genetics Genomes Cell Walls Drought Stress Drought Resistance Resistencia a la Sequía Ricardi, Martiniano María González, Rodrigo Matías Silin, Zhong Dominguez, Pia Guadalupe Duffy, Tomas Turjanski, Pablo Guillermo Salgado Salter, Juan David Alleva, Karina Edith Carrari, Fernando Giovannoni, James J. 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 |
| 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_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_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_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 |
| topic | Tomate Genética Genomas Pared Celular Estrés de Sequia Tomatoes Genetics Genomes Cell Walls Drought Stress Drought Resistance Resistencia a la Sequía |
| url | https://bmcplantbiol.biomedcentral.com/articles/10.1186/1471-2229-14-29 http://hdl.handle.net/20.500.12123/4290 https://doi.org/10.1186/1471-2229-14-29 |
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