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Multidimensional patterns of metabolic response in abiotic stress-induced growth of Arabidopsis thaliana
Year:
2016
Source of publication :
Plant Molecular Biology
Authors :
Freilich, Shiri
;
.
Volume :
92
Co-Authors:
Yadav, B.S., Department of Molecular Biology and Ecology of Plants, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel
Lahav, T., Newe-Ya’ar Research Center, Institute of Plant Sciences, Agricultural Research Organization, PO Box 1021, Ramat Yishay, Israel
Reuveni, E., Newe-Ya’ar Research Center, Institute of Plant Sciences, Agricultural Research Organization, PO Box 1021, Ramat Yishay, Israel
Chamovitz, D.A., Department of Molecular Biology and Ecology of Plants, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel
Freilich, S., Newe-Ya’ar Research Center, Institute of Plant Sciences, Agricultural Research Organization, PO Box 1021, Ramat Yishay, Israel
Facilitators :
From page:
689
To page:
699
(
Total pages:
11
)
Abstract:
Key message: Contextualization of specific transcriptional responses of Arabidopsis within the stress–tissue–time perspective provides a simplified representation of the cellular transcriptional response pathways to abiotic stress, while reducing the dimensions in gene-oriented response description. Abstract: Crops resistant to abiotic stresses are a long-term goal of many research programs, thus understanding the progression of stress responses is of great interest. We reanalyzed the AtGenExpress transcription dataset to go beyond gene-level characterization, and to contextualize the discrete information into (1) a process-level signature of stress-specific, time-specific, and tissue-specific responses and (2) identify patterns of response progression across a time axis. To gain a functional perspective, ∼1000 pathways associated with the differentially-expressed genes were characterized across all experiments. We find that the global response of pathways to stress is multi-dimensional and does not obviously cluster according to stress, time or tissue. The early response to abiotic stress typically involves induction of genes involved in transcription, hormone synthesis and signaling modules; a later response typically involves metabolism of amino acids and secondary metabolites. By linking specific primary and secondary response pathways, we outline possible stress-associated routes of response progression. The contextualization of specific processes within stress–tissue–time perspective provides a simplified representation of cellular response while reducing the dimensions in gene-oriented response description. Such simplified representation allows finding stress-specific markers based on process-combinations pointing whether a stress-specific response was invoked as well as provide a reference point for the conductance of comparative inter-plant study of stress response, bypassing the need in detailed orthologous mapping. © 2016, Springer Science+Business Media Dordrecht.
Note:
Related Files :
abiotic stress
Arabidopsis thaliana
Expression data
Metabolic Response
Pathway analysis
Show More
Related Content
More details
DOI :
10.1007/s11103-016-0539-7
Article number:
Affiliations:
Database:
Scopus
Publication Type:
article
;
.
Language:
English
Editors' remarks:
ID:
29760
Last updated date:
02/03/2022 17:27
Creation date:
17/04/2018 00:49
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Scientific Publication
Multidimensional patterns of metabolic response in abiotic stress-induced growth of Arabidopsis thaliana
92
Yadav, B.S., Department of Molecular Biology and Ecology of Plants, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel
Lahav, T., Newe-Ya’ar Research Center, Institute of Plant Sciences, Agricultural Research Organization, PO Box 1021, Ramat Yishay, Israel
Reuveni, E., Newe-Ya’ar Research Center, Institute of Plant Sciences, Agricultural Research Organization, PO Box 1021, Ramat Yishay, Israel
Chamovitz, D.A., Department of Molecular Biology and Ecology of Plants, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel
Freilich, S., Newe-Ya’ar Research Center, Institute of Plant Sciences, Agricultural Research Organization, PO Box 1021, Ramat Yishay, Israel
Multidimensional patterns of metabolic response in abiotic stress-induced growth of Arabidopsis thaliana
Key message: Contextualization of specific transcriptional responses of Arabidopsis within the stress–tissue–time perspective provides a simplified representation of the cellular transcriptional response pathways to abiotic stress, while reducing the dimensions in gene-oriented response description. Abstract: Crops resistant to abiotic stresses are a long-term goal of many research programs, thus understanding the progression of stress responses is of great interest. We reanalyzed the AtGenExpress transcription dataset to go beyond gene-level characterization, and to contextualize the discrete information into (1) a process-level signature of stress-specific, time-specific, and tissue-specific responses and (2) identify patterns of response progression across a time axis. To gain a functional perspective, ∼1000 pathways associated with the differentially-expressed genes were characterized across all experiments. We find that the global response of pathways to stress is multi-dimensional and does not obviously cluster according to stress, time or tissue. The early response to abiotic stress typically involves induction of genes involved in transcription, hormone synthesis and signaling modules; a later response typically involves metabolism of amino acids and secondary metabolites. By linking specific primary and secondary response pathways, we outline possible stress-associated routes of response progression. The contextualization of specific processes within stress–tissue–time perspective provides a simplified representation of cellular response while reducing the dimensions in gene-oriented response description. Such simplified representation allows finding stress-specific markers based on process-combinations pointing whether a stress-specific response was invoked as well as provide a reference point for the conductance of comparative inter-plant study of stress response, bypassing the need in detailed orthologous mapping. © 2016, Springer Science+Business Media Dordrecht.
Scientific Publication
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