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Series GSE68193 Query DataSets for GSE68193
Status Public on Dec 31, 2015
Title Cryptochromes interact directly with PIFs to control plant growth in limiting blue light
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Sun-loving plants have the ability to detect and avoid shading through sensing of both blue and red light wavelengths. Higher plant cryptochromes (CRYs) control how plants modulate growth in response to changes in blue light. For growth under a canopy, where blue light is diminished, CRY1 and CRY2 perceive this change and respond by directly contacting two bHLH transcription factors, PIF4 and PIF5. These factors are also known to be controlled by phytochromes, the red/far-red photoreceptors; however, transcriptome analyses indicate that the gene regulatory programs induced by the different light wavelengths are distinct. Our results indicate that CRYs signal by modulating PIF activity genome-wide, and that these factors integrate binding of different plant photoreceptors to facilitate growth changes under different light conditions.
Overall design We performed whole-genome chromatin immunoprecipitation with sequencing (ChIP-Seq) analysis on 5 day old Flash-CRY2, PIF4-Flash and PIF5-Flash treated in low blue-light for 16h.
Contributor(s) Chory J, Ecker JR, Pedmale UV, Huang S, Zander M
Citation(s) 26724867
Submission date Apr 23, 2015
Last update date May 15, 2019
Contact name Joseph R Ecker
Phone 8584534100
Organization name HHMI-Salk-Institute
Department Genomic Analysis Laboratory
Lab Ecker lab
Street address 10010 North Torrey Pines Road
City La Jolla
State/province CA
ZIP/Postal code 92037
Country USA
Platforms (1)
GPL17639 Illumina HiSeq 2500 (Arabidopsis thaliana)
Samples (13)
GSM1665423 ChIPSeq-CRY2_FLAG_Rep1
GSM1665424 ChIPSeq-CRY2_FLAG_Rep2
GSM1665425 ChIPSeq-CRY2_IgG_Rep1
BioProject PRJNA282026
SRA SRP057594

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Supplementary file Size Download File type/resource
GSE68193_C2_FLAG_set2_optimal_narrowPeak.bed.gz 123.6 Kb (ftp)(http) BED
GSE68193_P4_FLAG_set2_optimal_narrowPeak.bed.gz 193.2 Kb (ftp)(http) BED
GSE68193_P5_FLAG_set2_optimal_narrowPeak.bed.gz 73.2 Kb (ftp)(http) BED
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