Report
Universal dynamics of cohesin-mediated loop extrusion
| Title: | Universal dynamics of cohesin-mediated loop extrusion |
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| Authors: | Sabaté, Thomas, Lelandais, Benoît, Robert, Marie-Cécile, Szalay, Michael, Tinevez, Jean-Yves, Bertrand, Edouard, Zimmer, Christophe |
| Contributors: | Imagerie et Modélisation - Imaging and Modeling, Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Institut de génétique humaine (IGH), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Collège Doctoral, Sorbonne Université (SU), Hub d'analyse d'images - Image Analysis Hub (Platform) (IAH), Institut Pasteur Paris (IP)-Université Paris Cité (UPCité), Julius-Maximilians-Universität Würzburg = University of Würzburg Würsburg, Germany (JMU), We acknowledge and thank members of the MRI imaging facility, part of the nationalinfrastructure France-BioImaging supported by the French Nation Research Agency(ANR-10-INBS-04, Investments for the future)., T.S. was supported by aContrat Doctoral Spécifique aux Normaliens and Fondation ARC pour la recherchesur le cancer (ARCDOC 42021120004333). We also acknowledge Investissement d’Avenir grant ANR-16-CONV-0005 for funding computing resources used in thiswork., We acknowledge the help of the HPC Core Facility of the Institut Pasteur for the use of computing resources. We thank Xavier Pichon for the initial cloning of the splitGFP array., ANR-10-INBS-0004,France-BioImaging,Développment d'une infrastructure française distribuée coordonnée(2010), ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016) |
| Source: | https://hal.science/hal-04780400 ; 2024. |
| Publisher Information: | CCSD |
| Publication Year: | 2024 |
| Subject Terms: | [SDV]Life Sciences [q-bio] |
| Description: | Most animal genomes are partitioned into Topologically Associating Domains (TADs), created by cohesin-mediated loop extrusion and defined by convergently oriented CTCF sites. The dynamics of loop extrusion and its regulation remains poorly characterized in vivo . Here, we tracked TAD anchors in living human cells to visualize and quantify cohesin-dependent loop extrusion across multiple endogenous genomic regions. We show that TADs are dynamic structures whose anchors are brought in proximity about once per hour and for 6-19 min (∼16% of the time). TADs are continuously subjected to extrusion by multiple cohesin complexes, extruding loops at ∼0.1 kb/s. Remarkably, despite strong differences of Hi-C patterns between the chromatin regions, their dynamics is consistent with the same density, residence time and speed of cohesin. Our results suggest that TAD dynamics is governed primarily by CTCF site location and affinity, which allows genome-wide predictive models of cohesin-dependent interactions. |
| Document Type: | report |
| Language: | English |
| Relation: | BIORXIV: 2024.08.09.605990 |
| DOI: | 10.1101/2024.08.09.605990 |
| Availability: | https://hal.science/hal-04780400 https://hal.science/hal-04780400v1/document https://hal.science/hal-04780400v1/file/2024.08.09.605990v1.full.pdf https://doi.org/10.1101/2024.08.09.605990 |
| Rights: | http://creativecommons.org/licenses/by-nc-nd/ ; info:eu-repo/semantics/OpenAccess |
| Accession Number: | edsbas.6D181421 |
| Database: | BASE |
| DOI: | 10.1101/2024.08.09.605990 |
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