Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis
Background. Considering that sunflower production is expanding to arid regions, tolerance to abiotic stresses as drought, low temperatures and salinity arises as one of the main constrains nowadays. Differential organ-specific sunflower ESTs (expressed sequence tags) were previously generated by a s...
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| Autores principales: | , , , , , |
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| Formato: | Artículo publishedVersion |
| Lenguaje: | Inglés |
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2008
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| Acceso en línea: | http://hdl.handle.net/20.500.12110/paper_14712229_v8_n_p_Fernandez |
| Aporte de: |
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paperaa:paper_14712229_v8_n_p_Fernandez |
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dspace |
| institution |
Universidad de Buenos Aires |
| institution_str |
I-28 |
| repository_str |
R-134 |
| collection |
Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) |
| language |
Inglés |
| orig_language_str_mv |
eng |
| topic |
Helianthus sodium chloride vegetable protein active transport adaptation article cold DNA microarray down regulation drug effect gene gene expression profiling gene expression regulation genetic transcription genetics metabolism photosynthesis physiology sunflower upregulation Adaptation, Physiological Biological Transport, Active Cold Down-Regulation Gene Expression Profiling Gene Expression Regulation, Plant Genes, Plant Helianthus Oligonucleotide Array Sequence Analysis Photosynthesis Plant Proteins Sodium Chloride Transcription, Genetic Up-Regulation |
| spellingShingle |
Helianthus sodium chloride vegetable protein active transport adaptation article cold DNA microarray down regulation drug effect gene gene expression profiling gene expression regulation genetic transcription genetics metabolism photosynthesis physiology sunflower upregulation Adaptation, Physiological Biological Transport, Active Cold Down-Regulation Gene Expression Profiling Gene Expression Regulation, Plant Genes, Plant Helianthus Oligonucleotide Array Sequence Analysis Photosynthesis Plant Proteins Sodium Chloride Transcription, Genetic Up-Regulation Fernandez, P. Di Rienzo, J. Fernandez, L. Hopp, H.E. Paniego, N. Heinz, R.A. Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis |
| topic_facet |
Helianthus sodium chloride vegetable protein active transport adaptation article cold DNA microarray down regulation drug effect gene gene expression profiling gene expression regulation genetic transcription genetics metabolism photosynthesis physiology sunflower upregulation Adaptation, Physiological Biological Transport, Active Cold Down-Regulation Gene Expression Profiling Gene Expression Regulation, Plant Genes, Plant Helianthus Oligonucleotide Array Sequence Analysis Photosynthesis Plant Proteins Sodium Chloride Transcription, Genetic Up-Regulation |
| description |
Background. Considering that sunflower production is expanding to arid regions, tolerance to abiotic stresses as drought, low temperatures and salinity arises as one of the main constrains nowadays. Differential organ-specific sunflower ESTs (expressed sequence tags) were previously generated by a subtractive hybridization method that included a considerable number of putative abiotic stress associated sequences. The objective of this work is to analyze concerted gene expression profiles of organ-specific ESTs by fluorescence microarray assay, in response to high sodium chloride concentration and chilling treatments with the aim to identify and follow up candidate genes for early responses to abiotic stress in sunflower. Results. Abiotic-related expressed genes were the target of this characterization through a gene expression analysis using an organ-specific cDNA fluorescence microarray approach in response to high salinity and low temperatures. The experiment included three independent replicates from leaf samples. We analyzed 317 unigenes previously isolated from differential organ-specific cDNA libraries from leaf, stem and flower at R1 and R4 developmental stage. A statistical analysis based on mean comparison by ANOVA and ordination by Principal Component Analysis allowed the detection of 80 candidate genes for either salinity and/or chilling stresses. Out of them, 50 genes were up or down regulated under both stresses, supporting common regulatory mechanisms and general responses to chilling and salinity. Interestingly 15 and 12 sequences were up regulated or down regulated specifically in one stress but not in the other, respectively. These genes are potentially involved in different regulatory mechanisms including transcription/translation/protein degradation/protein folding/ROS production or ROS-scavenging. Differential gene expression patterns were confirmed by qRT-PCR for 12.5% of the microarray candidate sequences. Conclusion. Eighty genes isolated from organ-specific cDNA libraries were identified as candidate genes for sunflower early response to low temperatures and salinity. Microarray profiling of chilling and NaCl-treated sunflower leaves revealed dynamic changes in transcript abundance, including transcription factors, defense/stress related proteins, and effectors of homeostasis, all of which highlight the complexity of both stress responses. This study not only allowed the identification of common transcriptional changes to both stress conditions but also lead to the detection of stress-specific genes not previously reported in sunflower. This is the first organ-specific cDNA fluorescence microarray study addressing a simultaneous evaluation of concerted transcriptional changes in response to chilling and salinity stress in cultivated sunflower. |
| format |
Artículo Artículo publishedVersion |
| author |
Fernandez, P. Di Rienzo, J. Fernandez, L. Hopp, H.E. Paniego, N. Heinz, R.A. |
| author_facet |
Fernandez, P. Di Rienzo, J. Fernandez, L. Hopp, H.E. Paniego, N. Heinz, R.A. |
| author_sort |
Fernandez, P. |
| title |
Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis |
| title_short |
Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis |
| title_full |
Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis |
| title_fullStr |
Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis |
| title_full_unstemmed |
Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis |
| title_sort |
transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cdna microarray analysis |
| publishDate |
2008 |
| url |
http://hdl.handle.net/20.500.12110/paper_14712229_v8_n_p_Fernandez |
| work_keys_str_mv |
AT fernandezp transcriptomicidentificationofcandidategenesinvolvedinsunflowerresponsestochillingandsaltstressesbasedoncdnamicroarrayanalysis AT dirienzoj transcriptomicidentificationofcandidategenesinvolvedinsunflowerresponsestochillingandsaltstressesbasedoncdnamicroarrayanalysis AT fernandezl transcriptomicidentificationofcandidategenesinvolvedinsunflowerresponsestochillingandsaltstressesbasedoncdnamicroarrayanalysis AT hopphe transcriptomicidentificationofcandidategenesinvolvedinsunflowerresponsestochillingandsaltstressesbasedoncdnamicroarrayanalysis AT paniegon transcriptomicidentificationofcandidategenesinvolvedinsunflowerresponsestochillingandsaltstressesbasedoncdnamicroarrayanalysis AT heinzra transcriptomicidentificationofcandidategenesinvolvedinsunflowerresponsestochillingandsaltstressesbasedoncdnamicroarrayanalysis |
| _version_ |
1769810194708037632 |
| spelling |
paperaa:paper_14712229_v8_n_p_Fernandez2023-06-12T16:50:27Z Transcriptomic identification of candidate genes involved in sunflower responses to chilling and salt stresses based on cDNA microarray analysis BMC Plant Biol. 2008;8 Fernandez, P. Di Rienzo, J. Fernandez, L. Hopp, H.E. Paniego, N. Heinz, R.A. Helianthus sodium chloride vegetable protein active transport adaptation article cold DNA microarray down regulation drug effect gene gene expression profiling gene expression regulation genetic transcription genetics metabolism photosynthesis physiology sunflower upregulation Adaptation, Physiological Biological Transport, Active Cold Down-Regulation Gene Expression Profiling Gene Expression Regulation, Plant Genes, Plant Helianthus Oligonucleotide Array Sequence Analysis Photosynthesis Plant Proteins Sodium Chloride Transcription, Genetic Up-Regulation Background. Considering that sunflower production is expanding to arid regions, tolerance to abiotic stresses as drought, low temperatures and salinity arises as one of the main constrains nowadays. Differential organ-specific sunflower ESTs (expressed sequence tags) were previously generated by a subtractive hybridization method that included a considerable number of putative abiotic stress associated sequences. The objective of this work is to analyze concerted gene expression profiles of organ-specific ESTs by fluorescence microarray assay, in response to high sodium chloride concentration and chilling treatments with the aim to identify and follow up candidate genes for early responses to abiotic stress in sunflower. Results. Abiotic-related expressed genes were the target of this characterization through a gene expression analysis using an organ-specific cDNA fluorescence microarray approach in response to high salinity and low temperatures. The experiment included three independent replicates from leaf samples. We analyzed 317 unigenes previously isolated from differential organ-specific cDNA libraries from leaf, stem and flower at R1 and R4 developmental stage. A statistical analysis based on mean comparison by ANOVA and ordination by Principal Component Analysis allowed the detection of 80 candidate genes for either salinity and/or chilling stresses. Out of them, 50 genes were up or down regulated under both stresses, supporting common regulatory mechanisms and general responses to chilling and salinity. Interestingly 15 and 12 sequences were up regulated or down regulated specifically in one stress but not in the other, respectively. These genes are potentially involved in different regulatory mechanisms including transcription/translation/protein degradation/protein folding/ROS production or ROS-scavenging. Differential gene expression patterns were confirmed by qRT-PCR for 12.5% of the microarray candidate sequences. Conclusion. Eighty genes isolated from organ-specific cDNA libraries were identified as candidate genes for sunflower early response to low temperatures and salinity. Microarray profiling of chilling and NaCl-treated sunflower leaves revealed dynamic changes in transcript abundance, including transcription factors, defense/stress related proteins, and effectors of homeostasis, all of which highlight the complexity of both stress responses. This study not only allowed the identification of common transcriptional changes to both stress conditions but also lead to the detection of stress-specific genes not previously reported in sunflower. This is the first organ-specific cDNA fluorescence microarray study addressing a simultaneous evaluation of concerted transcriptional changes in response to chilling and salinity stress in cultivated sunflower. Fil:Fernandez, P. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Hopp, H.E. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Heinz, R.A. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. 2008 info:eu-repo/semantics/article info:ar-repo/semantics/artículo info:eu-repo/semantics/publishedVersion application/pdf eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_14712229_v8_n_p_Fernandez |