|
| Status |
Public on Jun 04, 2018 |
| Title |
The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes [evolutionary study] |
| Organisms |
Drosophila ananassae; Drosophila erecta; Drosophila melanogaster; Drosophila mojavensis; Drosophila persimilis; Drosophila pseudoobscura; Drosophila sechellia; Drosophila simulans; Drosophila virilis; Drosophila yakuba; Drosophila willistoni |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Transcriptional enhancers function as docking platforms for combinations of transcription factors to control gene expression. How enhancer sequences determine nucleosome occupancy, transcription factor recruitment, and transcriptional activation in vivo remains unclear. Using ATAC-seq across a panel of Drosophila inbred strains we found that SNPs affecting Grainyhead binding sites causally determine the accessibility of epithelial enhancers. We show that deletion or ectopic expression of Grh causes loss or gain of DNA accessibility, respectively. However, while Grh binding is necessary for enhancer accessibility, it is insufficient to activate enhancers. Finally, we show that human Grh homologs, GRHL1/2/3, function similarly. We conclude that Grh binding is necessary and sufficient for the opening of epithelial enhancers, but not for their activation. Our data support the model that complex spatiotemporal expression patterns are controlled by regulatory hierarchies in which pioneer factors, such as Grh, establish tissue-specific accessible chromatin landscapes upon which other factors can act.
|
| |
|
| Overall design |
ATAC-seq on 11 Drosophila Species to identify co-motifs in conserved Grainyhead enhancers.
|
| |
|
| Contributor(s) |
Jacobs J, Aerts S |
| Citation(s) |
29867222 |
| Submission date |
Aug 09, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Jelle Jacobs |
| E-mail(s) |
jelle.jacobs9255@gmail.com
|
| Organization name |
Institute of molecular Pathology
|
| Department |
VBC
|
| Lab |
Stark lab
|
| Street address |
Campus-Vienna-Biocenter 1
|
| City |
Vienna |
| ZIP/Postal code |
1030 |
| Country |
Austria |
| |
|
| Platforms (12)
|
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
| GPL13306 |
Illumina HiSeq 2000 (Drosophila simulans) |
| GPL13307 |
Illumina HiSeq 2000 (Drosophila yakuba) |
| GPL13309 |
Illumina HiSeq 2000 (Drosophila ananassae) |
| GPL13310 |
Illumina HiSeq 2000 (Drosophila pseudoobscura) |
| GPL13311 |
Illumina HiSeq 2000 (Drosophila mojavensis) |
| GPL13313 |
Illumina HiSeq 2000 (Drosophila virilis) |
| GPL14359 |
Illumina HiSeq 2000 (Drosophila willistoni) |
| GPL23883 |
Illumina NextSeq 500 (Drosophila erecta) |
| GPL23884 |
Illumina NextSeq 500 (Drosophila persimilis) |
| GPL23885 |
Illumina NextSeq 500 (Drosophila pseudoobscura) |
| GPL23886 |
Illumina NextSeq 500 (Drosophila sechellia) |
|
| Samples (24)
|
|
| This SubSeries is part of SuperSeries: |
| GSE102441 |
The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes |
|
| Relations |
| BioProject |
PRJNA397749 |
| SRA |
SRP115122 |
Less...
More...