ArticleNucleic acids research2013
Genome-wide localization of exosome components to active promoters and chromatin insulators in Drosophila.
Article in Nucleic acids research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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Who cites it
33 citing papers in PubMed.
- Drosophila Rumpelstiltskin regulates Polycomb cis and trans interactions and Homie barrier activity.Epigenetics & chromatin · 2026Article
- Review
- Comparative analyses of disease-linked missense mutations in the RNA exosome modeled in budding yeast reveal distinct functional consequences in translation.RNA (New York, N.Y.) · 2025Article
- EFFICIENT RIBOSOMAL RNA DEPLETION FROMWellcome open research · 2025Article
- In vivo characterization of the critical interaction between the RNA exosome and the essential RNA helicase Mtr4 in Saccharomyces cerevisiae.G3 (Bethesda, Md.) · 2023Article
- Genome-Wide Characterization of the RNA Exosome Complex in Relation to Growth, Development, and Pathogenicity of Fusarium graminearum.Microbiology spectrum · 2023Article
- RNA-regulatory exosome complex suppresses an apoptotic program to confer erythroid progenitor cell survival in vivo.Blood advances · 2023Article
- Mechanism of noncoding RNA-associated NMolecular cell · 2021Article
- A budding yeast model for human disease mutations in theRNA (New York, N.Y.) · 2021Article
- A Drosophila model of Pontocerebellar Hypoplasia reveals a critical role for the RNA exosome in neurons.PLoS genetics · 2020Article
- The RNA Exosome and Human Disease.Methods in molecular biology (Clifton, N.J.) · 2020Review
- Modeling Pathogenic Variants in the RNA Exosome.RNA & disease (Houston, Tex.) · 2020Article
- RNA Exosomes and Their Cofactors.Methods in molecular biology (Clifton, N.J.) · 2020Review
- The Integrator Complex Attenuates Promoter-Proximal Transcription at Protein-Coding Genes.Molecular cell · 2019Article
- Writing a wrong: Coupled RNA polymerase II transcription and RNA quality control.Wiley interdisciplinary reviews. RNA · 2019Review
- The zinc-finger protein CLAMP promotesJournal of cell science · 2019Article
- The RNA exosome contributes to gene expression regulation during stem cell differentiation.Nucleic acids research · 2018Article
- Transcription start site analysis reveals widespread divergent transcription in D. melanogaster and core promoter-encoded enhancer activities.Nucleic acids research · 2018Article
- The RNA exosome and RNA exosome-linked disease.RNA (New York, N.Y.) · 2018Review
- EAST affects the activity of Su(Hw) insulators by two different mechanisms in Drosophila melanogaster.Chromosoma · 2017Article
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5 authors.
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Abstract
Chromatin insulators are functionally conserved DNA-protein complexes situated throughout the genome that organize independent transcriptional domains. Previous work implicated RNA as an important cofactor in chromatin insulator activity, although the precise mechanisms are not yet understood. Here we identify the exosome, the highly conserved major cellular 3' to 5' RNA degradation machinery, as a physical interactor of CP190-dependent chromatin insulator complexes in Drosophila. Genome-wide profiling of exosome by ChIP-seq in two different embryonic cell lines reveals extensive and specific overlap with the CP190, BEAF-32 and CTCF insulator proteins. Colocalization occurs mainly at promoters but also boundary elements such as Mcp, Fab-8, scs and scs', which overlaps with a promoter. Surprisingly, exosome associates primarily with promoters but not gene bodies of active genes, arguing against simple cotranscriptional recruitment to RNA substrates. Similar to insulator proteins, exosome is also significantly enriched at divergently transcribed promoters. Directed ChIP of exosome in cell lines depleted of insulator proteins shows that CTCF is required specifically for exosome association at Mcp and Fab-8 but not other sites, suggesting that alternate mechanisms must also contribute to exosome chromatin recruitment. Taken together, our results reveal a novel positive relationship between exosome and chromatin insulators throughout the genome.
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