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| Status |
Public on Mar 30, 2017 |
| Title |
Nuclear Pores provide a scaffold for induced enhancer promoter contacts |
| Organism |
Drosophila melanogaster |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
We found that in addition to promoters, multiple Nups bind enhancers and insulators in the Drosophila genome. We identified a functional role for Nup98 in mediating enhancer-promoter looping at ecdysone-inducible genes. These genes were found to be stably associated with nuclear pores before and after activation. Interestingly, although changing the levels of Nup98 disrupted induced enhancer-promoter contact, it did not affect transcriptional activation. Instead, loss of Nup98-mediated enhancer-promoter contact affected the primed response to subsequent transcriptional activation or transcriptional memory. In support of the enhancer-looping role, we found Nup98 to gain and retain physical interactions with several architectural proteins upon stimulation with ecdysone.
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| Overall design |
Characterization of Nup98 occupancy by ChIP-Seq in drosophila embryonic S2 cells. Drosophila brains were also dissected from 3rd instar larvae and ChIP-Seq were performed using Nup93, Elys, Nup98, H3K27ac and H3K27m3 antibodies. Control S2 cells and Nup93 and Elys knockdown cells were used to test antibodies specificity.
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| Contributor(s) |
Pascual-Garcia P, Capelson M |
| Citation(s) |
28366641 |
| |
| Submission date |
Feb 15, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Yemin Lan |
| Organization name |
University of Pennsylvania
|
| Street address |
3400 Civic Center Blvd
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
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| Platforms (2) |
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
| GPL19132 |
Illumina NextSeq 500 (Drosophila melanogaster) |
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| Samples (21)
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| Relations |
| BioProject |
PRJNA374851 |
| SRA |
SRP099834 |
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