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Series GSE117797 Query DataSets for GSE117797
Status Public on Sep 05, 2018
Title ELONGATED HYPOCOTYL 5 mediates blue light signalling to the Arabidopsis circadian clock
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Circadian clocks are gene networks producing 24-h oscillations at the level of clock gene expression that is synchronized to environmental cycles via light signals. The ELONGATED HYPOCOTYL 5 (HY5) transcription factor is a signalling hub acting downstream of several photoreceptors and is a key regulator of photomorphogenesis. Here we describe a mechanism by which light quality could modulate the pace of the circadian clock through controlling abundance of HY5. We show that hy5 mutants display remarkably shorter period rhythms in blue but not in red light or darkness and blue light is more efficient than red to induce accumulation of HY5 at transcriptional and post-transcriptional levels. We demonstrate that the pattern and level of HY5 accumulation modulates its binding to specific promoter elements of majority of clock genes, but only a few of these show altered transcription in the hy5 mutant. Mathematical modelling suggests that the direct effect of HY5 on the apparently non-responsive clock genes could be masked by feed-back from the clock gene network. We conclude that the information on the ratio of blue and red components of the white light spectrum is decoded and relayed to the circadian oscillator, at least partially, by HY5.
Overall design Study was carried out on two treatment groups (blue light vs red light) containing 3-3 biological replicates each. As a common reference point, a single pooled mock sample was used. Total number of samples is seven.
Contributor(s) Hajdu A, Dobos O, Domijan M, Bálint B, Nagy I, Nagy F, Kozma-Bognár L
Citation(s) 30256479
Submission date Jul 27, 2018
Last update date Dec 11, 2018
Contact name Balazs Balint
Phone 0036304276152
Organization name Seqomics Ltd
Street address Vallalkozok street
City 7
State/province Csongrad
ZIP/Postal code 6782
Country Hungary
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (7)
GSM3309414 S13_Mock
GSM3309415 S1_BlueLight_rep1
GSM3309416 S2_BlueLight_rep2
BioProject PRJNA483201
SRA SRP155528

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Supplementary file Size Download File type/resource
GSE117797_RAW.tar 1.3 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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