Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

61 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression data from Arabidopsis seedlings heat-stressed in light environment

ABSTRACT: Plants transcriptome react to environment temperture changes profoundly. In Arabidopsis seedlings, genes response to temperature fluctuations to adopt the ever-changing ambient envrionment. We used microarrays to detail the global programme of gene expression underlying heat stress response progress in Arabidopsis. Ten-day-old Arabidopsis seedlings were selected for RNA extraction and hybridization on Affymetrix microarrays. We sought to explore the heat stress response in transcriptome, thus we treat the plants with heat stress. While in order to identify the interaction between light and temperature signaling pathways in plant , we treat Arabidopsis with heat stress under both light and dark conditions. To that end, our plant tissues are grouped as: HS-LIGHT, HS-DARK,CONTROL-LIGHT,CONTROL-DARK.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Junyi Song

PROVIDER: E-GEOD-58616 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Expression data from Arabidopsis seedlings heat-stressed in dark environment

Project description:Plants transcriptome react to environment temperature changes profoundly. In Arabidopsis seedlings, genes respond to temperature fluctuations to adopt the ever-changing ambient environment. We used microarrays to detail the global programme of gene expression underlying heat stress response progress in Arabidopsis. Ten-day-old Arabidopsis seedlings were selected for RNA extraction and hybridization on Affymetrix microarrays. We sought to explore the heat stress response in transcriptome, thus we treat the plants with heat stress. While in order to identify the interaction between light and temperature signaling pathways in plant , we treat Arabidopsis with heat stress under both light and dark conditions. To that end, our plant tissues are grouped as: HS-LIGHT, HS-DARK,CONTROL-LIGHT,CONTROL-DARK.

2014-06-19 | E-GEOD-58620 | biostudies-arrayexpress

Brassinosteroid-mediated gene expression changes in Arabidipsis during heat stress

Project description:Global analysis of brassinosteroid (BR)-mediated gene expression under abiotic stress identifies BR associated mechanisms of stress tolerance, and new stress-related genes We used the Arabidopsis Affymetrix ATH1 array to analyze gene expression in a synthetic BR, 24-epibrassinolide (EBR)-treated and untreated Arabidopsis seedlings before, during and after heat stress (HS) treatment. Microarray expression profiles were generated from EBR-treated (E; 1 ÂµM EBR for 21 days) and untreated (C; 0.01% ethanol for 21 days) Arabidopsis seedlings under no-stress (0 h), HS (1 h and 3 h) at 43Â°C conditions. Additionally, a recovery for 6 h (6 hR) at 22Â°C after exposure to 3h HS at 43Â°C was also included

2014-10-09 | E-GEOD-62163 | biostudies-arrayexpress

Expression data from Arabidopsis under hydrogen peroxide and light treatment

Project description:Green plants are more robust to hydrogen peroxide (H2O2) stress and contain high endogeneous H2O2 levels which is generated during photorespiration and photosynthesis. Therefore, exgeneous H2O2 application mostly impose oxidative stress. To reduce endogenous H2O2 background, we adopted a strategy which is to grow Arabidopsis seedlings in the dark to eliminate light-induced H2O2 production, thus to reduce the endogenous H2O2 level. Exogenous H2O2 was then applied to induce transcriptome changes. Global gene expression is studied and compared between samples collected under 7d dark, 7d H2O2 treatment under dark and 7d light conditions. We cultured seedlings in the dark to reduce endogenous H2O2. Three conditions were used for transcriptome profiling: dark grown (dark); dark grown with exogenous H2O2 treatment (H2O2); and light grown (light). Three types of conditions were used for Arabidopsis seedling culture: dark, dark with 5 mM H2O2 treatment and light. Each condition was performed with two biological replicates. The seedlings were harvested at 7 days old.

2012-09-05 | E-GEOD-40574 | biostudies-arrayexpress

Expression data from Arabidopsis under hydrogen peroxide and light treatment

2012-09-05 | GSE40574 | GEO

Transcription profiling of Arabidopdis seedlings - heat, anoxia, and combined heat-anoxia treatments

Project description:Anoxia induces several heat shock proteins and a heat pre-treatment can acclimatize Arabidopsis seedlings to a subsequent anoxic treatment. In this work we analyzed the response of Arabidopsis seedlings to anoxia, heat and a combined heat+anoxia stress. A significant overlapping between the anoxic and heat shock responses has been observed by whole-genome microarray analysis. Experiment Overall Design: We treated Arabidopsis seedling, 4-days old, dark germinated with: Experiment Overall Design: -Control (23Â°C, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: -Heat-treated (38Â°C for 90 minutes, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: -Anoxia-treated (23Â°C, under anoxia for 6h, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: -combined heat+Anoxia-treatment (23Â°C, treated at 38Â°C for 90 min and thereafter under anoxia for 6h, dark, liquid Murashige-Skoog medium containing 30mM sucrose). Experiment Overall Design: Two biological replicates for each condition.

2009-06-08 | E-GEOD-16222 | biostudies-arrayexpress

COP9 signalosome (csn) mutant analysis

Project description:Transcript profiling analysis of csn3-1, csn4-1 and csn5 (csn5a-2 csn5b) light grown and dark grown mutant seedlings compared to light grown and dark grown wild type using Arabidopsis ATH1 GeneChip array Keywords: mutant analysis, growth condition analysis

2008-04-24 | GSE9728 | GEO

Heat shock response in Arabidopsis Hsa32 knockout mutant

Project description:Plants and animals share similar mechanisms in the heat-shock (HS) response, such as synthesis of the conserved HS proteins (Hsps). However, because plants are confined to a growing environment, in general they require unique features to cope with heat stress. We have analyzed the function of a novel Hsp, heat-stress-associated 32-kD protein (Hsa32), which is highly conserved in land plants but absent in most other organisms. The gene responds to HS at the transcriptional level in moss, Arabidopsis, and rice. Like other Hsps, Hsa32 protein accumulates greatly in Arabidopsis seedlings after HS treatment. Disruption of Hsa32 by T-DNA insertion does not affect growth and development under normal conditions. However, the acquired thermotolerance in the knockout line was compromised following a long recovery period (> 24 h) after an acclimation HS treatment, when a severe HS challenge killed the mutant but not the wild-type plants, but no significant difference was observed if they were challenged within a short recovery period. Microarray analysis of the knockout mutant indicates that only the expression of Hsa32 was significantly altered in HS response. Taken together, our results suggest that Hsa32 is not required for the induction but maintenance of acquired thermotolerance. This report provides direct evidence that a plant-specific Hsp plays an important role in thermotolerance. Keywords: heat shock response

2006-03-20 | GSE4062 | GEO

Proximity labeling proteomics of ATG8

Project description:TurboID-mediated proximity labeling proteomics of ATG8 in Arabidopsis upon heat stress. The TurboID-YFP-ATG8a (TI-Y8a) and TurboID-YFP (TI-YFP) transgenic seedlings were harvested after 3 hrs of recovery from HS treatment for proximity proteomic analysis. The biotinylated proteins purified from HS-treated TI-Y8a plants were compared with proteins from HS-treated TI-YFP plants (TI-Y8a HS vs. TI-YFP HS) and those from HS-untreated TI-Y8a plants (TI-Y8a HS vs. TI-Y8a CK), respectively.

2023-01-23 | PXD039608 |

Project description:Expression data from Arabidopsis seedlings heat-stressed in light and dark environment

| PRJNA253031 | ENA

Coordinate transcriptional activation of salicylic acid and trehalose synthesis, oxidative/ER stress and innate immunity pathways by inducible artificial microRNA silencing of the SNF4 activator subunit of Arabidopsis SnRK1

Project description:Arabidopsis SnRK1 is structurally and functionally related to the yeast Snf1 and mammalian AMP-activated kinases, which are activated in response to carbon/glucose limitation and stress conditions causing an imbalance of energy homeostasis increasing the AMP/ATP ratio. Mutations of the SNF4 activating subunit of trimeric Arabidopsis SnRK1 complexes are not transmitted through the male meiosis. Silencing of SNF4 by a β-estradiol-inducible artificial microRNA (amiR-SNF4) constructs was used to examine how inhibition of SnRK1 affects transcriptional regulation of different cellular pathways in dark and light grown seedlings. This study shows that amiR-SNF4 silencing of SnRK1 leads to coordinate transcriptional activation of salicylic acid and trehalose synthesis, oxidative/endoplasmic reticulum stress and pathogen defense responses by inducing simultaneous changes in numerous other essential hormonal and metabolic pathways in Arabidopsis. We used Affymetrix ATH1-121501 Genome Array to compare global transcript levels in wild type and β-estradiol-induced amiR-SNF4 mutant seedlings 5 days after germination in the dark or light.

2016-05-01 | GSE72674 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data