Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

41 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

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

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Luis Morales

PROVIDER: E-MTAB-1093 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Multiple roles for UV RESISTANCE LOCUS8 in regulating gene expression and metabolite accumulation in Arabidopsis under solar ultraviolet radiation.

Morales Luis O LO Brosché Mikael M Vainonen Julia J Jenkins Gareth I GI Wargent Jason J JJ Sipari Nina N Strid Åke Å Lindfors Anders V AV Tegelberg Riitta R Aphalo Pedro J PJ

Plant physiology 20121218 2

Photomorphogenic responses triggered by low fluence rates of ultraviolet B radiation (UV-B; 280-315 nm) are mediated by the UV-B photoreceptor UV RESISTANCE LOCUS8 (UVR8). Beyond our understanding of the molecular mechanisms of UV-B perception by UVR8, there is still limited information on how the UVR8 pathway functions under natural sunlight. Here, wild-type Arabidopsis (Arabidopsis thaliana) and the uvr8-2 mutant were used in an experiment outdoors where UV-A (315-400 nm) and UV-B irradiances ...[more]

PMID: 23250626

Similar Datasets

Arabidopsis dnd1

Project description:Transcript profiling of dnd1 mutant grown in control condition.

2013-01-17 | E-MEXP-3768 | 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 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 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. 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 23 day old Arabidopsis plants, wild type Col-0 and mutant rcd1

Project description:23 day old Arabidopsis plants, wildtype Col-0 and mutant rcd1, were compared to determine which genes are over- or under expressed in the mutant. Six biological repeats were pooled in pairs of two for labellings. All labellings/hybridizations were done with a dye swap technical repeat (e.g. in total six labellings were used). The Turku Arabidopsis 8K arrays were used for hybridizations. For the hybridizations the samples were split in two halves with each half hybridized to Turku Arabidopsis 8K slide 1 and Turku Arabidopsis 8K slide 2 (e.g. in total 12 hybridizations were performed).

2003-12-31 | E-MEXP-77 | 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. 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). The experiment was performed three times yielding three biological replications (=48 samples in total). 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.

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

Transcription profiling of ethylene-dependent responses to short day exposure in birch apices

Project description:We have used transgenic ethylene-insensitive birches (Betula pendula), which express the Arabidopsis ethylene receptor gene ETR1 carrying the dominant mutation etr1-1, to investigate the role of ethylene in short day (SD) -induced responses in the shoot apical meristem in birch. Wild-type birch (clone V5834) and two ethylene-insensitive lines in this background (BPetr1-1-35 and BPetr1-1-86; see Plant Physiol 132: 185-195) were exposed to SD. After 12, 16 and 20 days under SD, apices of branches of three trees were pooled before RNA extraction from each sample. To study the ethylene-dependent SD-transcriptome in birch apices, the RNA extracts of lines BPetr1-1-35 and BPetr1-1-86 were separately compared with the reference, wild-type V5834, at the three time points (12SD, 16SD, 20SD) resulting in altogether six microarray hybridizations.

2005-11-23 | E-MEXP-491 | biostudies-arrayexpress

Transcription profiling of Gerbera petals of developmental stages 2, 4, 6, 7, 8, and 9 vs a reference sample to identify transcriptional changes in petal development

Project description:Gerbera petals of inflorescence developmental stages 2, 4, 6, 7, 8, and 9 were compared against a reference sample that included same amount of mRNA from stages 1-11. Alltogether six comparisons were done each including two biological replicates with 3 technical replicates resulting alltogether 36 hybridizations. At least one of each biological replicate was dyeswap hybridization. This experiment was done in order to profile transcriptional changes that occur in petals from stage where they still divide until senescence of the cells. Developmental stages have been characterized by Helariutta et al. (1995).

2006-09-01 | E-MEXP-578 | 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