Chromatin Immunoprecipitation Indirect Peaks Highlight Long-Range Interactions of Insulator Proteins and Pol II Pausing
| Autor: | Jun Liang, Eldon Emberly, Sophie Queille, Olivier Bouchez, Pierre Lepetit, Keji Zhao, Laurent Lacroix, Olivier Cuvier, Gaël Micas, Franck Court, Serge Urbach, Pascal G.P. Martin, Suresh Cuddapah, Jutta Vogelmann, Magali Hennion, Marcelo Nollmann, Priscillia Lhoumaud, Adrien Gamot |
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| Přispěvatelé: | Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées, National Institutes of Health, Centre National de la Recherche Scientifique (CNRS), Laboratoire de Génétique Cellulaire (LGC), Institut National de la Recherche Agronomique (INRA)-Ecole Nationale Vétérinaire de Toulouse (ENVT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Génome et Transcriptome - Plateforme Génomique (GeT-PlaGe), Institut National de la Recherche Agronomique (INRA)-Plateforme Génome & Transcriptome (GET), Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Ecole Nationale Vétérinaire de Toulouse (ENVT), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Génopole Toulouse Midi-Pyrénées [Auzeville] (GENOTOUL), Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Simon Fraser Univ, Dept Phys, Burnaby, BC V5A 1S6, Canada, Partenaires INRAE, Division of Intramural Research Program of the National Heart, Lung and Blood Institute, NIH, European Research Council [260787], NSERC, Canadian Institute for Advanced Research (CIFAR), ANR, ARC, CNRS-Inserm ATIP-AVENIR program, Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Toulouse III - Paul Sabatier (UT3) |
| Rok vydání: | 2014 |
| Předmět: |
CCCTC-Binding Factor
Chromatin Immunoprecipitation [SDV]Life Sciences [q-bio] Gene regulatory network RNA polymerase II Biology Insulator (genetics) DNA-binding protein Article Protein Interaction Mapping Animals Drosophila Proteins Gene Regulatory Networks Eye Proteins Promoter Regions Genetic Molecular Biology Gene Genetics Regulation of gene expression Binding Sites Cell Biology DNA-Binding Proteins Repressor Proteins Drosophila melanogaster Gene Expression Regulation Eukaryotic chromosome fine structure Mutation biology.protein Insulator Elements RNA Interference RNA Polymerase II Chromatin immunoprecipitation Protein Binding Transcription Factors |
| Zdroj: | Molecular Cell Molecular Cell, Elsevier, 2014, 53 (4), pp.672-681. ⟨10.1016/j.molcel.2013.12.029⟩ Molecular Cell, Cell Press, 2014, 53 (4), pp.672-681. ⟨10.1016/j.molcel.2013.12.029⟩ |
| ISSN: | 1097-2765 1097-4164 |
| DOI: | 10.1016/j.molcel.2013.12.029 |
| Popis: | International audience; Eukaryotic chromosomes are partitioned into topologically associating domains (TADs) that are demarcated by distinct insulator-binding proteins (IBPs) in Drosophila. Whether IBPs regulate specific long-range contacts and how this may impact gene expression remains unclear. Here we identify "indirect peaks'' of multiple IBPs that represent their distant sites of interactions through long-range contacts. Indirect peaks depend on protein-protein interactions among multiple IBPs and their common cofactors, including CP190, as confirmed by high-resolution analyses of long-range contacts. Mutant IBPs unable to interact with CP190 impair long-range contacts as well as the expression of hundreds of distant genes that are specifically flanked by indirect peaks. Regulation of distant genes strongly correlates with RNAPII pausing, highlighting how this key transcriptional stage may trap insulator-based long-range interactions. Our data illustrate how indirect peaks may decipher gene regulatory networks through specific long-range interactions. |
| Databáze: | OpenAIRE |
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