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| Status |
Public on Jun 04, 2018 |
| Title |
The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes [ATAC-seq] |
| Organism |
Drosophila melanogaster |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| 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.
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| Overall design |
ATAC-seq on inbred Drosophila Melanogaster strains from the DGRP project to identify Chromatin Accessibility QTLs.
ATAC-seq on the eye-antennal and wing imaginal discs of animals with stably integrated enhancer reporter constructs (PSA268-271).
ChIPmentation-seq on the transcription factor Grainyhead in eye-antennal and wing imaginal discs.
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| Contributor(s) |
Jacobs J, Aerts S |
| Citation(s) |
29867222 |
| Submission date |
Jul 24, 2017 |
| Last update date |
Jul 25, 2021 |
| Contact name |
Jelle Jacobs |
| E-mail(s) |
jelle.jacobs9255@gmail.com
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| Organization name |
Institute of molecular Pathology
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| Department |
VBC
|
| Lab |
Stark lab
|
| Street address |
Campus-Vienna-Biocenter 1
|
| City |
Vienna |
| ZIP/Postal code |
1030 |
| Country |
Austria |
| |
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| Platforms (2) |
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
| GPL19132 |
Illumina NextSeq 500 (Drosophila melanogaster) |
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| Samples (46)
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| This SubSeries is part of SuperSeries: |
| GSE102441 |
The transcription factor Grainyhead primes epithelial enhancers for spatiotemporal activation by displacing nucleosomes |
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| Relations |
| BioProject |
PRJNA395597 |
| SRA |
SRP113497 |
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