Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

13 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcription profiling of Arabidopsis distal leaves directly exposed to and shaded from high light levels

ABSTRACT: Effect of high light on directly exposed and shaded, distal Arabidopsis leaf tissue

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Kate Howell

PROVIDER: E-ATMX-19 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Systemic and intracellular responses to photooxidative stress in Arabidopsis.

Rossel Jan Bart JB Wilson Pip B PB Hussain Dawar D Woo Nick S NS Gordon Matthew J MJ Mewett Osman P OP Howell Katharine A KA Whelan Jim J Kazan Kemal K Pogson Barry J BJ

The Plant cell 20071221 12

As the sun tracks daily through the sky from east to west, different parts of the canopy are exposed to high light (HL). The extent of and mechanisms by which a systemic acquired acclimation (SAA) response might preacclimate shaded leaves that will be subsequently exposed to full sunlight is largely undefined. We investigated the role of an Arabidopsis thaliana zinc finger transcription factor, ZAT10, in SAA. ZAT10 overexpression resulted in enhanced tolerance to photoinhibitory light and exogen ...[more]

PMID: 18156220

Similar Datasets

Transcription profiling wild type and Zat10 overexpressing Arabidopsis plants

Project description:The effect of overexpression of Zat10 in Arabidopsis leaf tissue

2008-02-05 | E-ATMX-20 | biostudies-arrayexpress

Transcription profiling of Arabidopsis wild type and SAL1 mutant plants grown under normal conditions

Project description:Null mutations in the SAL1 protein, a bi-functional protein with inositol polyphosphate-1-phosphotase activity and nucleosidase activity, result in mutants with altered leaf morphology, delayed growth and tolerance to drought stress. This experiment examines the gene expression of two SAL1 mutants, alx8 in the Col-0 background and fry1-1 in the C24 background, under normal growth conditions. In brief, RNA was extracted from the leaves of three plants of each mutant and their respective ecotypes two hours after lights on. Plants were grown under normal conditions for 5 weeks before harvesting. Each array represent a single biological replicate.

2009-02-27 | E-MEXP-1495 | biostudies-arrayexpress

Transcription profiling of SALK_084897 or SAIL_303_D08 Arabidopsis plants grown under normal conditions or with moderate light and drough treatment applied

Project description:4 week old Arabidopsis plants, of ecotype Columbia, SALK_084897 or SAIL_303_D08 were either grown under normal conditions or grown under normal conditions for before having a moderate light and drought treatment applied. Light and drought treatment was applied by withholding water for 5 days prior to transfer to 300 uE m-2 s-1 light conditions. Samples were collected after 3 days of treatment or for the same age plants grown under normal conditions.

2008-04-30 | E-ATMX-32 | biostudies-arrayexpress

Arabidopsis light and temperature response

Project description:High-density kinetic analysis of the metabolomic and transcriptomic response of Arabidopsis to temperature and light

2011-08-09 | E-MTAB-375 | biostudies-arrayexpress

systemic signal

Project description:Effects of local stress treatments (heat, high light or wounding) on transcripts in systemic tissues in Arabidopsis

2013-09-08 | E-MEXP-3754 | biostudies-arrayexpress

Arabidopsis cold regulated transcriptome, translatome and CSP1 RNA regulon

Project description:Transcriptome, translatome, and CSP1 RNA regulon analysis of 25-d-o Arabidopsis rosettes exposed to 12h low temperature (4C) treatment. 38 samples, 3 genotypes (35S:HF-RPL18, 35S:AtCSP1-FH#11, and atcsp1-1), 2 conditions (non-stress and cold), 3 RNA pools (total, polysomal, and CSP1 associated mRNAs), 2-3 biological replicates

2013-03-31 | E-GEOD-38030 | biostudies-arrayexpress

High-throughput SuperSAGE for transcript profiling in berry tissues of Vitis vinifera L. under different light regimes

Project description:SuperSAGE is a method of digital gene expression profiling that allows isolation of 26bp tag fragments from expressed transcripts. Because its tag size is larger than that of conventional SAGE, SuperSAGE allowed a secure tag-to-gene annotation using BLAST search against grape genome databases.Transcript profiles in nine samples of grape berry tissues under different light conditions were obtained by SuperSAGE analysis and used for screening the genes which have co-ordinated transcript profiles with the change in the flavonoid composition in the samples analyzed. Candidate genes related to flavonoid biosynthesis and regulation were identified. Nine different grape samples, i.e., flowers, grape berries of Cabernet Sauvignon at 2, 7, 9 weeks after flowering (WAF), berry skins at 17 days after flowering (DAF) shaded after flowering, and berry skins at 17DAF shaded from flowering to 14DAF and then light exposed, were analyzed.

2014-06-03 | E-GEOD-55473 | biostudies-arrayexpress

Transcription profiling of Arabidopsis dor mutant and wild type plants in response to drought stress.

Project description:ATH1 GeneChip was used for gene expression analysis of wild-type plants and dor mutant under drought treatment (both the wild-type and dor plants were grown under normal watering conditions for 24 days and then stressed by completely depriving of irrigation for 10 days). Two biological repeat experiments were conducted and the raw data was analyzed applying Affymetrix GCOS software. Experiment Overall Design: ATH1 GeneChip was used for gene expression analysis of wild-type plants and dor mutant under drought treatment (both the wild-type and dor plants were grown under normal watering conditions for 24 days and then stressed by completely depriving of irrigation for 10 days).

2008-10-26 | E-GEOD-10643 | biostudies-arrayexpress

Global Functional Targets of the Histone Methyltransferase SDG8 Uncover a Role for Histone Modification in Energy Metabolism

Project description:Histone methylation modulates gene expression in response to external and internal cues. We uncovered a non-redundant role for the Arabidopsis histone methyltransferase, SDG8, which provides a unique opportunity to study the global function of a specific histone methyltransferase within in a multicellular organism. We previously used a promoter responsive to light and carbon in a positive genetic screen to identify an Arabidopsis carbon and light insensitive mutant cli186. In this study, we characterize the mutant cli186 as a complete deletion of a histone methyltransferase gene SDG8 (now renamed sdg8-5). To assess the global role of SDG8, we compared the global histone methylation patterns and the transcriptome of sdg8-5 to wild type (WT) in the context of a transient carbon and light treatment. We showed that the complete deletion of SDG8 in sdg8-5 is associated with a dramatic reduction of H3K36me3 towards the 3’ of the gene body, which correlates with significant reduction in gene expression. We uncovered 1,084 “high confidence” functional targets of SDG8 – affected in both H3K36me3 marks and gene expression – that are associated with specific biological processes including defense, photosynthesis, nutrient metabolism and energy metabolism. Importantly, 71% of these functional targets are responsive to carbon and/or light. Our model suggests that SDG8 functions to mark specific sets of genes with H3K36me3 in the gene body for active transcription, to tune genes involved in primary metabolism that are responsive to the energy level in the environment. Wild type Arabidopisis and sdg8-5 plants were grown in hydroponics system for three weeks, then starved for carbonhydrate and light for 24 h. They were then treated with carbon and/or light or remained untreated as controls.Three biological replicates were collected, resulting in 24 samples (2 genotypes X 2 carbonhydrate treatmens X 2 light treatments X3 biological replicates).

2015-03-01 | E-GEOD-62435 | biostudies-arrayexpress

Impact of light and thioredoxins on the landscape of the plant thiol-disulfide proteome

Project description:Thiol-based redox regulation is a crucial post-translational mechanism to acclimate plants to changing light availability. Here, we conduct a biotin-switch-based redox proteomics study to systematically investigate dynamics of the thiol-redox network in response to temporal changes in light availability and across genotypes lacking parts of the NTRC/thioredoxin (Trx) systems in the chloroplast. Temporal dynamics revealed light leading to marked decreases in the oxidation states of 75 chloroplast proteins mainly involved in photosynthesis during the first 10 min, followed by their partial re-oxidation after 2-6 hours into the photoperiod. This involved f, m and x-type Trx proteins showing similar light-induced reduction-oxidation dynamics, while NTRC, 2-Cys-Prx and Trx y2 showed an opposing pattern, being more oxidized in the light, compared to the dark. In Arabidopsis trxf1f2, trxm1m2 or ntrc mutants, most protein candidates showed increased oxidation states, compared to the wild type, suggesting their light-dependent dynamics to be related to the NTRC/Trx network. In this context, deficiencies in f- and m-type Trxs were found to have different impacts on the thiol-redox proteome depending on the light environment, being higher in constant and fluctuating light, respectively, while NTRC deficiency having a strong influence in all light conditions. Results indicate the plant redox proteome to be subject to dynamic changes in reductive and oxidative pathways to cooperatively fine-tune photosynthetic and metabolic processes in the light. This involves f-type Trxs and NTRC to play a role in constant light conditions, while both m-type Trxs and NTRC being important to balance changes in protein redox-pattern during dynamic alterations in fluctuating light intensities.

2024-01-29 | PXD043914 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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