Genomics,Multiomics

Dataset Information

0

Transcription profiling by array of Arabidopsis after growth at different temperatures


ABSTRACT: 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. 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).

REANALYSIS of: E-GEOD-26197

OTHER RELATED OMICS DATASETS IN: PRJNA142347PRJNA142343PRJNA135029E-GEOD-26199PRJNA142345

ORGANISM(S): Arabidopsis thaliana  

PROVIDER: E-GEOD-26197 | ExpressionAtlas | 2014-07-03

REPOSITORIES: ExpressionAtlas

Dataset's files

Source:
Action DRS
E-GEOD-26197-analysis-methods.tsv Tabular
E-GEOD-26197-atlasExperimentSummary.Rdata Rdata
E-GEOD-26197-configuration.xml Xml
E-GEOD-26197-percentile-ranks.tsv Tabular
E-GEOD-26197.condensed-sdrf.tsv Tabular
Items per page:
1 - 5 of 98
altmetric image

Publications

Comparative physiology and transcriptional networks underlying the heat shock response in Populus trichocarpa, Arabidopsis thaliana and Glycine max.

Weston David J DJ   Karve Abhijit A AA   Gunter Lee E LE   Jawdy Sara S SS   Yang Xiaohan X   Allen Sara M SM   Wullschleger Stan D SD  

Plant, cell & environment 20110629 9


The heat shock response continues to be layered with additional complexity as interactions and crosstalk among heat shock proteins (HSPs), the reactive oxygen network and hormonal signalling are discovered. However, comparative analyses exploring variation in each of these processes among species remain relatively unexplored. In controlled environment experiments, photosynthetic response curves were conducted from 22 to 42 °C and indicated that temperature optimum of light-saturated photosynthes  ...[more]

Similar Datasets

2011-04-01 | E-GEOD-26195 | ArrayExpress
2011-04-01 | E-GEOD-26198 | ArrayExpress
2011-04-01 | E-GEOD-26197 | ArrayExpress
2011-04-01 | GSE26197 | GEO
2011-04-01 | GSE26197 | GEO
2011-04-01 | E-GEOD-26199 | ArrayExpress
2019-01-01 | S-EPMC6563006 | BioStudies
2008-01-01 | S-EPMC2673885 | BioStudies
2016-01-01 | S-EPMC4721091 | BioStudies
2019-01-01 | S-EPMC6900525 | BioStudies