Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

44 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Arabidopsis dnd1

ABSTRACT: Transcript profiling of dnd1 mutant grown in control condition.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Mikael Brosche

PROVIDER: E-MEXP-3768 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Salicylic acid signaling inhibits apoplastic reactive oxygen species signaling.

Xu Enjun E Brosché Mikael M

BMC plant biology 20140604

<h4>Background</h4>Reactive oxygen species (ROS) are used by plants as signaling molecules during stress and development. Given the amount of possible challenges a plant face from their environment, plants need to activate and prioritize between potentially conflicting defense signaling pathways. Until recently, most studies on signal interactions have focused on phytohormone interaction, such as the antagonistic relationship between salicylic acid (SA)-jasmonic acid and cytokinin-auxin.<h4>Resu ...[more]

PMID: 24898702

Similar Datasets

Transcription profiling of Arabidopsis wild type and rcd1-1, rcd1-3, rcd1-4 and sro1-1 mutants

Project description:Control (Col-0) and mutants (rcd1-1, rcd1-3, rcd1-4 and sro1-1) were grown for 22 days under control conditions. Whole rosettas were harvested and analyzed for changes in gene expression between Col-0 and the mutants.

2008-12-12 | E-MEXP-1949 | biostudies-arrayexpress

Transcription profiling of Populus euphratica leaves and roots in response to salinity

Project description:Rooted plantlets of Populus euphratica were transferred to aerated hydroculture with Long Ashton nutrient solution, grown for 3.5 months at 22°C, 150 µmol m-2 s-1 photosynthetically active radiation with a photoperiod of 16h light. After reaching an average height of 0.83 m, the media was supplemented with 150 mM NaCl (Salt-treated) or maintained under control conditions (control). During the experimental phase, light was continuously supplied to avoid interference of light/dark transitions. <br>Roots and leaves of six plants were harvested separately after 3h, 6h, 12h, and 24h of salt exposure and of controls at the corresponding time points (= 48 plants per experiment). The material of each harvest of 6 plants was pooled, yielding one leaf and one root sample of controls and one leaf and one root sample of salt-treated plants, respectively (=16 samples per experiment).<br>The experiment was performed three times yielding three biological replications (=48 samples in total).<br>After extraction of RNA and cDNA synthesis, each extract was labelled with Cy3 and Cy5, respectively (yielding 96 labelled extracts). Extracts from e.g. 3h-salt-treated leaf exp. 1 (cy3) was hybridized with 3h-control leaf exp.1 (cy5) with microarrays (UHPB-P.euphratica-10K-5; A-MEXP-93)containing unique 7,662 ESTs of P. euphratica from stress-induced cDNA libraries (Brosche et al., Genome Biology 2005, 6:R101). Dye swap was perfomed, thus usually yielding 6 arrays per timepoint and plant tissue (3 biological, 3 technical replicates). In some cases hydridizations were not successfull. Therefore, for roots harvested at timepoints 12h and 24 h only 4 arrays per timepoint were used. For roots harvested after 3h an additional mixed sample of all 3 biological replicates was performed. One leaf array at 6 h was not sucessfull. Therefore, residual labelled extract from salt treated plants of exp1 was hydridized with controls at 6h from exp.2. <br>

2009-08-05 | E-MEXP-2095 | biostudies-arrayexpress

Transcription profiling of Arabidposis Col-0 plants sprayed with sodium nitroprusside (SNP)

Project description:22 day old Arabidopsis Col-0 plants were sprayed with 0.5 mM sodium nitroprusside (SNP), corresponding controls were sprayed with water, and leaves harvested 3 hours after spraying and frozen in liquid nitrogen.

2007-09-28 | E-MEXP-1268 | biostudies-arrayexpress

Transcription profiling of P.euphratica leaf RNA samples from trees growing from four different areas in the desert valley Ein Avdat with contrasting growth conditions (drought)

Project description:We are studying the tree P. euphratica growing in its natural habitat in the Negev desert in Israel. We have used leaf RNA samples from trees growing from four different areas in the desert valley Ein Avdat with contrasting growth conditions, with the primary factor being how much water the trees have access to. Area A trees grow close to a stream. Area B trees are further away from the stream. Area C trees are growing on a slope with no water. Parking place trees grow at a parking place (1km from Area A, B and C) where there is a water irrigation system, and these trees are regularly watered once a week. The control sample in each hybridization is always RNA isolated from a pool of 5 trees from the parking place. The hybridizations are comparing the following: Area A -- parking place Area B -- parking place Area C -- parking place Each hybridization is done with a dye swap and three different biological repeats for a total of 18 hybridizations.

2004-11-30 | E-MEXP-182 | biostudies-arrayexpress

Transcription profiling by array of Arabidopsis thaliana Ler and uvr8-2 genotypes exposed to solar ultraviolet radiation

Project description:The experiment was performed to search for genes regulated by the UV RESISTANT LOCUS (UVR8) under solar ultraviolet radiation (UV).

2013-01-15 | E-MTAB-1093 | biostudies-arrayexpress

Transcription profiling of wild type and rcd3-1 mutant Arabidospsi plants

Project description:Three week old Arabidopsis thaliana wildtype (Col-0) was compared with the rcd3-1 mutant.

2008-01-09 | E-MEXP-1388 | biostudies-arrayexpress

Transcription profiling of drought treated P.euphratica

Project description:Plantlets of P. euphratica (clone B2) were obtained by in vitro culture. After ex vitro acclimation, they were transferred and acclimated to greenhouse conditions and transplanted into 7.5L-pot filled with peat-sand mix (50/50 V/V) and were pruned (following some leaf shedding due to transplantation shock). In the greenhouse, climate conditions depended on outside weather but temperature was regulated in order to remain between 15 and 30°C. A moderate, increasing drought stress was applied and controlled for 6 weeks. Soil volumetric water content was measured one to two times a day depending on the intensity of the stress (TDR and weighting). Plantlets were progressively brought to 5 stress levels [soil volumetric water content]: 10% (harvest 1, 11 days from start of experiment), 7.5% (harvest 2, 16 days from start of experiment), 5% (harvest 3, 22 days from start of experiment), 4% (harvest 4, 26-32 days from start of experiment) and back to fully available water (harvest 5, 10 days after fully watering of the trees; 36 days from start of experiment). Leaves and roots (including control and stressed trees) were harvested for each stress level. At harvest 1-3, samples from five trees were harvested. At harvest 4, samples from two trees were harvested at each of day 26, 29 and 32. At harvest 5, samples were harvested from two control trees and four re-watered trees. <br><br> For the array experiment: leaf or root samples were pooled before RNA isolation to give three repeats by dividing the five samples 2+2+1. For harvest 4; samples were pooled from each of the two trees sampled at day 26, 29 and 32 to give three biological repeats. In harvest 5 samples were pooled 2+2 to give two biological repeats. Each array experiment was done with a dye swap to give 28 hybridizations for the leaf and 28 hybridizations for the root experiment.

2005-03-01 | E-MEXP-276 | biostudies-arrayexpress

Transcription profiling of honey bees for identification of changes in transcript abundance relating to Colony Collapse Disorder

Project description:Remaining adult bees in colonies suffering from CCD at apiaries in Florida, California and Pennsylvania were collected during the winter of 2006-2007. The health of CCD colonies was scored at the time of collection as either ï¾severeï¾ or ï¾mildï¾ depending on the apparent strength of the colony. ï¾Historicalï¾ bees, collected prior to the appearance of CCD and hence ostensibly healthy, were collected in 2004 and 2005 from colonies set up on new equipment and not receiving any miticide treatments from apiaries of The Pennsylvania State University near State College, PA. A combination looped, common-reference microarray design was used to compare historical and CCD samples with each other; a blend of RNA isolated from healthy colonies (collected near Urbana, IL in July 2007) served as reference. The microarray experiment compared the guts of bees from mildly and severely afflicted colonies collected in apiaries experiencing CCD on the East Coast (Florida and Pennsylvania) and West Coast (California) with a common reference.

2009-08-15 | E-MEXP-2292 | biostudies-arrayexpress

A bulk segregant gene expression analysis of a peach population reveals components of the underlying mechanism of the fruit cold response

Project description:Transcript profiling analysis of fruits from a segregating PopDG population, which were grouped/selected according to extreme cold susceptibility and subjected to different times of cold storage

2013-07-01 | E-MEXP-3902 | biostudies-arrayexpress

T1E vs T1E Indole

Project description:Transcriptional profile of Pseudomonas putida DOT-T1E grown in the presence of indole (300 uM) compared with the same cells grown in absence of indole.

2013-03-20 | E-MEXP-3819 | biostudies-arrayexpress

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