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Series GSE17159 Query DataSets for GSE17159
Status Public on Nov 01, 2009
Title Gene expression in pif1pif3pif4pif5 mutant under dark or red light conditions
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary Light initiates the seedling deetiolation transition by promoting major changes in gene expression mainly regulated by phytochrome (phy) photoreceptors. During the initial dark-to-light transition, phy photoactivation induces rapid changes in gene expression that eventually lead to the photomorphogenic development. Recent reports indicate that this process is achieved by phy-induced degradation of Phy-Interacting bHLH transcription Factors (PIFs) PIF1, PIF3 PIF4 and PIF5, which are partly redundant constitutive repressors of photomorphogenesis that accumulate in darkness. In order to test whether light/phy-regulated gene expression occurs through these PIFs, we have performed whole-genome expression analysis in the pif1pif3pif4pif5 quadruple mutant (pifq).
 
Overall design Wild-type and pifq mutant seeds were plated on GM medium without sucrose at room temperature. During this procedure the seeds were routinely exposed to white light (WL) for a total of 1.5 hours after imbibition. Seeds were then stratified for 5 days at 4ºC in darkness, induced to germinate with a 5-min red pulse (Rp) (46 μmol/m2/s) and then incubated in the dark for 3h at 21°C before exposure to a terminal 5-min far red pulse (FRp) (58 μmol/m2/s) to suppress pseudo-dark effects. Seeds were then placed in either dark (D) or constant red light (Rc) (6.7 μmol/ m2/s) at 21°C for 45h (2d-old seedlings). Alternatively, 2d-old dark-grown seedlings were treated with 1h of red light (R1) (7.5 μmol/m2/s). Seed samples were harvested after stratification (5d stratified seeds).
 
Contributor(s) Leivar P, Tepperman JM, Quail PH
Citation(s) 19920208
Submission date Jul 16, 2009
Last update date Aug 15, 2018
Contact name james m tepperman
E-mail(s) [email protected]
Phone 510-559-5935
Organization name Plant Gene Expression Center/UC Berkeley
Department Plant and Microbial Biology
Lab QUAIL
Street address 800 Buchanan St.
City Albany
State/province CA
ZIP/Postal code 94710
Country USA
 
Platforms (1)
GPL198 [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array
Samples (30)
GSM428912 2d dark-grown pif1pif3pif4pif5 (pifq) mutant/replicate 1
GSM428913 2d dark-grown pif1pif3pif4pif5 (pifq) mutant/replicate 2
GSM428914 2d dark-grown pif1pif3pif4pif5 (pifq) mutant/replicate 3
Relations
Affiliated with GSE69995
BioProject PRJNA119655

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE17159_RAW.tar 63.9 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file
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