 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Mar 06, 2024 |
| Title |
COP1 controls light-dependent chromatin remodeling in Arabidopsis [ChIP-Seq] |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Light is an environmental factor that influences various aspects of plant development. Phytochromes (phys) as light sensors regulate myriads of downstream genes in response to changes in environmental factors. VIL1 (VIN3-LIKE 1)/VERNALIZATION 5 (VRN5), a Polycomb Repressive Complex 2 (PRC2) - associated protein, mediates vernalization pathway. VIL1 directly interacts with phyB and regulates photomorphogenesis through the formation of repressive chromatin loops at downstream growth-promoting genes in response to light. CONSTITUTIVELY PHOTOMORPHOGENIC 1 (COP1) is an E3 ligase for a number of substrates in light signaling, acting as a central repressor of photomorphogenesis. Here, we show that VIL1 is a substrate of COP1 and COP1 degrades VIL1 through the ubiquitin/26S proteosome system (UPS) in the dark. Our study illustrates that COP1 controls light-dependent formation of chromatin loop by regulating the stability of VIL1 and limits a repressive histone modification to fine-tune expressions of growth-promoting genes during photomorphogenesis.
We performed Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for histone modifications H3K27me3 in five Arabidopsis genotypes (Col-0, vil1-1, cop1-4, vil1-1cop1-4 and hy5-215).
|
| |
|
| Overall design |
Chromatin immunoprecipitation DNA-sequencing (ChIP-seq) for histone modifications H3K27me3 in five Arabidopsis genotypes (Col-0, vil1-1, cop1-4, vil1-1cop1-4 and hy5-215).
|
| |
|
| Contributor(s) |
Wang W, Kim J, Martinez TS, Huq E, Sung S |
| Citation(s) |
38349881 |
| |
| Submission date |
May 23, 2023 |
| Last update date |
Mar 07, 2024 |
| Contact name |
Wenli Wang |
| E-mail(s) |
wenli7898@gmail.com
|
| Phone |
7376150810
|
| Organization name |
university of Texas at Austin
|
| Department |
Molecular Biosciences
|
| Lab |
Sung lab
|
| Street address |
2506 Speedway NMS 5.268, NMS 5.268
|
| City |
Austin |
| State/province |
Texas |
| ZIP/Postal code |
78712 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL19580 |
Illumina NextSeq 500 (Arabidopsis thaliana) |
|
| Samples (20)
|
| GSM7421457 |
col_3 |
| GSM7421458 |
vil1_input |
| GSM7421459 |
vil1_1 |
| GSM7421460 |
vil1_2 |
| GSM7421461 |
vil1_3 |
| GSM7421462 |
cop1_input |
| GSM7421463 |
cop1_1 |
| GSM7421464 |
cop1_2 |
| GSM7421465 |
cop1_3 |
| GSM7421466 |
v1c1_input |
| GSM7421467 |
v1c1_1 |
| GSM7421468 |
v1c1_2 |
| GSM7421469 |
v1c1_3 |
| GSM7470562 |
Seedlings, short day, ZT0, rep1_input |
| GSM7470563 |
Seedlings, short day, ZT0, rep1, ChIP |
| GSM7470564 |
Seedlings, short day, ZT0, rep2, ChIP |
| GSM7470565 |
Seedlings, short day, ZT0, rep3, ChIP |
|
| This SubSeries is part of SuperSeries: |
| GSE233273 |
COP1 controls light-dependent chromatin remodeling in Arabidopsis |
|
| Relations |
| BioProject |
PRJNA975601 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE233271_RAW.tar |
881.7 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
|
|
|
|
 |
Less...
More...