Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional response of Arabidopsis seedlings to light

ABSTRACT: We report the transcriptomic response of Arabidopsis thaliana seedlings grown in continuous white light, darkness or darkness and 1 hour of red light

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE181167 | GEO | 2022/03/09

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Changs in Histone 3 Lysine 9 Acetylation (H3K9ac) in Arabidopsis seedlings in response to light

Project description:We report the changes in H3K9ac in Arabidopsis thaliana seedlings grown in continuous white light, darkness or darkness and 1 hour of red light

2022-03-09 | GSE181432 | GEO

Arabidopsis thaliana seedlings:early light regulated gene expression in Ler wildtype versus eid3 mutant

Project description:Transcriptional profiling of Arabidopsis thaliana Ler wildtype and eid3 (empfindlicher im dunkelroten Licht 3) mutant seedlings in darkness and 45 min after a red-light pulse.

2012-01-01 | GSE33856 | GEO

Arabidopsis thaliana seedlings:early light regulated gene expression in Ler wildtype versus eid3 mutant

Project description:Transcriptional profiling of Arabidopsis thaliana Ler wildtype and eid3 (empfindlicher im dunkelroten Licht 3) mutant seedlings in darkness and 45 min after a red-light pulse. Arabidopsis thaliana Ler wildtype and eid3 mutant seedlings were grown on 1/2 MS Agar plates covered with filter paper for 4 days in darkness after induction of germination with 2 h red light. Samples were either treated with 2 min red light (30 µmol/m2s) or kept in darkness and harvested after additional 45 min in darkness. 3 biological replicas were used for each of the 4 experimental conditions.

2012-01-01 | E-GEOD-33856 | biostudies-arrayexpress

Transcriptome profiles of different light-signaling mutants

Project description:RNA-seq experiment of WT, hy5, phyab and pifq mutant seedlings grown for 3 days in darkness or continuous white light.

2021-01-01 | GSE164122 | GEO

Expression during deetioaltion under Rc in wt and phy mutant seedlings

Project description:Etiolated seedling response to one hour of continuous red light. Four-day-old dark-grown wild-type RLD and phyA101, phyB1 and phyAphyB mutant seedlings were transferred to Rc (680 nm, 8 mol m-2 s-1) for 1 h or retained in darkness as controls. Three different biological replicates of each treatment were grown separately and extracted, processed, and analyzed independently.RNA was extracted and subjected to expression analysis by using the Affymetrix ATH1 microarray containing approximately 22,000 Arabidopsis genes .

2006-05-15 | GSE3811 | GEO

Expression data from 1h red light versus dark 7-day-old Arabidopsis whole seedlings

2009-04-10 | GSE13383 | GEO

Expression profiles of dark or red-light treated WT and phytochrome mutants

Project description:The mRNA expression profiles of the wild type, phyB and phyAB mutants were analyzed with darkness or 1 hour red light treatment. Results provide insight into the role of red-light and phytochromes in gene expression.

2019-08-21 | GSE118824 | GEO

Transcription profiling of Arabidopsis dark 7-day-old Arabidopsis whole seedlings vs. 1h red light

Project description:Red light can affect a variety of responses in Arabidopsis. We characterize the early gene expression patterns of seedlings exposed to 1 hour of red light using a small sized sample of 5, 7-day-old seedlings and also performed dark controls. Methods that were developed for tissue extraction and labeling for microarrays were tested using these samples Experiment Overall Design: Only 5, 7 day-old dark-grown Arabidopsis seedlings were treated as described and harvested for RNA extraction and hybridization on Affymetrix microarrays. We pooled samples from one Petri plate with MS medium 2% sucrose. Treatment was 1 hour of red light 630 nm (max) and dark controls

2009-04-18 | E-GEOD-13383 | biostudies-arrayexpress

Acute effects of light on alternative splicing in light-grown plants

Project description:We report the results of a genome-wide analysis of AS in Arabidopsis thaliana plants exposed to a 2h light pulse given in the middle of the night, a treatment that simulates the effects of early dawn or late dusk signals. This light affects the plant transcriptome at multiple regulatory layers, and that light regulation of mRNA levels of splicing regulatory factors is likely to mediate light effects on AS contributing to adjust plant physiological processes to the prevailing light environment. Arabidopsis seedlings of the Columbia ecotype were grown under 12 hr light/12 hr dark cycles for 9 days. On the 10th day, half of the plants were exposed to a two-hour pulse of white light given in the middle of the night (ZT18), while the other half were kept in darkness as controls. Both groups of plants were harvested at ZT 20 and light effects on mRNA levels and AS were analyzed through RNA-seq.

2016-08-09 | E-GEOD-68560 | biostudies-arrayexpress

Photomorphogenesis of Arabidopsis seedlings is accompanied by complex alternative splicing alterations

Project description:We analyzed transcriptome-wide gene expression and AS changes in etiolated Arabidopsis seedlings exposed to red, blue, and white light. Our study revealed that different types of light signals trigger rapid AS responses of numerous genes, including splicing factors and other functional groups. Among these candidates was RRC1, which was previously shown to function in PHYB signaling. The light signaling phenotype of an rrc1 mutant could only be complemented with the splicing variant being up-regulated upon light exposure, indicating a self-reinforcing circuit. Finally, we provide evidence that light-regulated AS can occur in a phytochrome-independent manner and is closely intertwined with the plantâ??s energy status. Analysis of alternative splicing patterns of dark-grown Arabidopsis seedlings exposed for 1 or 6 hours to white, blue, or red light, or kept in darkness; all samples in duplicates

2016-10-23 | E-GEOD-70575 | biostudies-arrayexpress

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