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Browse SoyPLEX Experiment Data

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Comparative physiology and transcriptional networks underlying the heat shock response in Populus trichocarpa, Arabidopsis thaliana and Glycine max [Soy]
David J Weston, David Weston, Department of Environmental Sciences Division, Oak Ridge, Tennessee (westondj@ornl.gov)
Experiment design (16 hybridizations)
temperature
•baseline •optimum •20% inhibition •30% inhibition

This experiment has been imported by PLEXdb from NCBI GEO (GSE26198)

Series_summary:
The heat shock response continues to be layered ...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Comparative physiology and transcriptional networks underlying the heat shock response in Populus trichocarpa, Arabidopsis thaliana and Glycine max [Soy]
Accession No: GM39
Microarray: Soybean
Visibility: public
Experiment Type:
Experiment Factor(s):
temperature
•baseline   •optimum   •20% inhibition   •30% inhibition
Quality Control: biological replicates
Treatment summary:
 temperature  # replicates
 baseline  4
 optimum  4
 20% inhibition  4
 30% inhibition  4
Total hybridizations: 16
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE26198)

Series_summary:
The heat shock response continues to be layered with additional complexity as interactions and cross-talk among heat shock proteins, the reactive oxygen network and hormonal signaling are discovered. However, comparative analyses exploring variation in each of these processes among species remains relatively unexplored. In controlled environment experiments, photosynthetic response curves were conducted from 22 °C to 42 °C and indicated that temperature optimum of light saturated photosynthesis was greater for Glycine max relative to Arabidopsis thaliana or Populus trichocarpa. Transcript profiles were taken at defined states along the temperature response curves and inferred pathway analysis revealed species-specific variation in the abiotic stress and the minor carbohydrate raffinose/galactinol pathways. A weighted gene co-expression network approach was used to group individual genes into network modules linking biochemical measures of the antioxidant system to leaf-level photosynthesis among P. trichocarpa, G. max and A. thaliana. Network enabled results revealed an expansion in the G. max HSP17 protein family and divergence in the regulation of the antioxidant and heat shock module relative to P. trichocarpa and A. thaliana. These results indicate that although the heat shock response is highly conserved, there is considerable species-specific variation in its regulation.

Series_overall_design:
fully expanded leaf samples from 4 randomly collected plants per species were harvested at 4 physiological states as determined from prior gas exchange measurements (growth temperature - baseline, photosynthetic optimum, 20% inhibition of optimum and 30% inhibition of optimum).This resulted in 16 separate samples hybridized to independent microarrays totaling 4 – replicates x 4 physiological states).
Publication: 'Comparative physiology and transcriptional networks underlying the heat shock response in Populus trichocarpa, Arabidopsis thaliana and Glycine max.', Weston DJ, Karve AA, Gunter LE, Jawdy SS, Yang X, Allen SM, Wullschleger SD.
Plant Cell Environ 2011 May 6
pubmed: 21554326
Created: 2011-08-11 10:53:31
Last Update: 2011-08-12 12:42:15
Released: 2011-08-12
GEO Accession GSE26198
Submitter: PLEXdb Curator
Name: David J Weston
Institution: David Weston, Department of Environmental Sciences Division, Oak Ridge, Tennessee
Head of Laboratory: David J Weston
email(s):
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