Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress
To explore the transcriptomic global response to osmotic stress in roots, 18 mRNA-seq libraries were generated from three triploid banana genotypes grown under mild osmotic stress (5% PEG) and control conditions. Illumina sequencing produced 568 million high quality reads, of which 70–84% were mappe...
| Main Authors: | , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Springer
2016
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/72891 |
| _version_ | 1855541901957005312 |
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| author | Zorrilla-Fontanesi, Yasmín Rouard, M. Cenci, A. Kissel, E. Do, H. Dubois, E. Nidelet, S. Roux, N. Swennen, Rony L. Carpentier, Sebastien C. |
| author_browse | Carpentier, Sebastien C. Cenci, A. Do, H. Dubois, E. Kissel, E. Nidelet, S. Rouard, M. Roux, N. Swennen, Rony L. Zorrilla-Fontanesi, Yasmín |
| author_facet | Zorrilla-Fontanesi, Yasmín Rouard, M. Cenci, A. Kissel, E. Do, H. Dubois, E. Nidelet, S. Roux, N. Swennen, Rony L. Carpentier, Sebastien C. |
| author_sort | Zorrilla-Fontanesi, Yasmín |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | To explore the transcriptomic global response to osmotic stress in roots, 18 mRNA-seq libraries were generated from three triploid banana genotypes grown under mild osmotic stress (5% PEG) and control conditions. Illumina sequencing produced 568 million high quality reads, of which 70–84% were mapped to the banana diploid reference genome. Using different uni- and multivariate statistics, 92 genes were commonly identified as differentially expressed in the three genotypes. Using our in house workflow to analyze GO enriched and underlying biochemical pathways, we present the general processes affected by mild osmotic stress in the root and focus subsequently on the most significantly overrepresented classes associated with: respiration, glycolysis and fermentation. We hypothesize that in fast growing and oxygen demanding tissues, mild osmotic stress leads to a lower energy level, which induces a metabolic shift towards (i) a higher oxidative respiration, (ii) alternative respiration and (iii) fermentation. To confirm the mRNA-seq results, a subset of twenty up-regulated transcripts were further analysed by RT-qPCR in an independent experiment at three different time points. The identification and annotation of this set of genes provides a valuable resource to understand the importance of energy sensing during mild osmotic stress. |
| format | Journal Article |
| id | CGSpace72891 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2016 |
| publishDateRange | 2016 |
| publishDateSort | 2016 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace728912025-11-12T05:49:21Z Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress Zorrilla-Fontanesi, Yasmín Rouard, M. Cenci, A. Kissel, E. Do, H. Dubois, E. Nidelet, S. Roux, N. Swennen, Rony L. Carpentier, Sebastien C. osmotic stress bananas drought stress drought tolerance To explore the transcriptomic global response to osmotic stress in roots, 18 mRNA-seq libraries were generated from three triploid banana genotypes grown under mild osmotic stress (5% PEG) and control conditions. Illumina sequencing produced 568 million high quality reads, of which 70–84% were mapped to the banana diploid reference genome. Using different uni- and multivariate statistics, 92 genes were commonly identified as differentially expressed in the three genotypes. Using our in house workflow to analyze GO enriched and underlying biochemical pathways, we present the general processes affected by mild osmotic stress in the root and focus subsequently on the most significantly overrepresented classes associated with: respiration, glycolysis and fermentation. We hypothesize that in fast growing and oxygen demanding tissues, mild osmotic stress leads to a lower energy level, which induces a metabolic shift towards (i) a higher oxidative respiration, (ii) alternative respiration and (iii) fermentation. To confirm the mRNA-seq results, a subset of twenty up-regulated transcripts were further analysed by RT-qPCR in an independent experiment at three different time points. The identification and annotation of this set of genes provides a valuable resource to understand the importance of energy sensing during mild osmotic stress. 2016-03-03 2016-04-13T11:21:36Z 2016-04-13T11:21:36Z Journal Article https://hdl.handle.net/10568/72891 en Open Access application/pdf Springer Zorrilla-Fontanesi, Y., Rouard, M., Cenci, A., Kissel, E., Do, H., Dubois, E., Nidelet, S., Roux, N., Swennen, R. & Carpentier, S.C. (2016). Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress. Scientific Reports, 6, 1-14 |
| spellingShingle | osmotic stress bananas drought stress drought tolerance Zorrilla-Fontanesi, Yasmín Rouard, M. Cenci, A. Kissel, E. Do, H. Dubois, E. Nidelet, S. Roux, N. Swennen, Rony L. Carpentier, Sebastien C. Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress |
| title | Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress |
| title_full | Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress |
| title_fullStr | Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress |
| title_full_unstemmed | Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress |
| title_short | Differential root transcriptomics in a polyploid non-model crop: the importance of respiration during osmotic stress |
| title_sort | differential root transcriptomics in a polyploid non model crop the importance of respiration during osmotic stress |
| topic | osmotic stress bananas drought stress drought tolerance |
| url | https://hdl.handle.net/10568/72891 |
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