Genomics

Dataset Information

155

Nuclear Pores provide a scaffold for induced enhancer promoter contacts


ABSTRACT: 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. 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.

INSTRUMENT(S): Illumina HiSeq 2000 (Drosophila melanogaster)

SUBMITTER: Yemin Lan 

PROVIDER: GSE94922 | GEO | 2017-03-30

SECONDARY ACCESSION(S): PRJNA374851

REPOSITORIES: GEO

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Publications

Metazoan Nuclear Pores Provide a Scaffold for Poised Genes and Mediate Induced Enhancer-Promoter Contacts.

Pascual-Garcia Pau P   Debo Brian B   Aleman Jennifer R JR   Talamas Jessica A JA   Lan Yemin Y   Nguyen Nha H NH   Won Kyoung J KJ   Capelson Maya M  

Molecular cell 20170330 1


Nuclear pore complex components (Nups) have been implicated in transcriptional regulation, yet what regulatory steps are controlled by metazoan Nups remains unclear. We identified the presence of multiple Nups at promoters, enhancers, and insulators in the Drosophila genome. In line with this binding, we uncovered 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 activ  ...[more]

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