Report
Προβολή σε EDS

Universal dynamics of cohesin-mediated loop extrusion

Λεπτομέρειες βιβλιογραφικής εγγραφής
Τίτλος: Universal dynamics of cohesin-mediated loop extrusion
Συγγραφείς: Sabaté, Thomas, Lelandais, Benoît, Robert, Marie-Cécile, Szalay, Michael, Tinevez, Jean-Yves, Bertrand, Edouard, Zimmer, Christophe
Συνεισφορές: 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)
Πηγή: https://hal.science/hal-04780400 ; 2024.
Στοιχεία εκδότη: CCSD
Έτος έκδοσης: 2024
Θεματικοί όροι: [SDV]Life Sciences [q-bio]
Περιγραφή: 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.
Τύπος εγγράφου: report
Γλώσσα: English
Relation: BIORXIV: 2024.08.09.605990
DOI: 10.1101/2024.08.09.605990
Διαθεσιμότητα: 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
Αριθμός Καταχώρησης: edsbas.6D181421
Βάση Δεδομένων: BASE
FullText Text:
  Availability: 0
CustomLinks:
  – Url: https://hal.science/hal-04780400#
    Name: EDS - BASE (ns324271)
    Category: fullText
    Text: View record from BASE
Header DbId: edsbas
DbLabel: BASE
An: edsbas.6D181421
RelevancyScore: 935
AccessLevel: 3
PubType: Report
PubTypeId: report
PreciseRelevancyScore: 934.707946777344
IllustrationInfo
Items – Name: Title
  Label: Title
  Group: Ti
  Data: Universal dynamics of cohesin-mediated loop extrusion
– Name: Author
  Label: Authors
  Group: Au
  Data: <searchLink fieldCode="AR" term="%22Sabaté%2C+Thomas%22">Sabaté, Thomas</searchLink><br /><searchLink fieldCode="AR" term="%22Lelandais%2C+Benoît%22">Lelandais, Benoît</searchLink><br /><searchLink fieldCode="AR" term="%22Robert%2C+Marie-Cécile%22">Robert, Marie-Cécile</searchLink><br /><searchLink fieldCode="AR" term="%22Szalay%2C+Michael%22">Szalay, Michael</searchLink><br /><searchLink fieldCode="AR" term="%22Tinevez%2C+Jean-Yves%22">Tinevez, Jean-Yves</searchLink><br /><searchLink fieldCode="AR" term="%22Bertrand%2C+Edouard%22">Bertrand, Edouard</searchLink><br /><searchLink fieldCode="AR" term="%22Zimmer%2C+Christophe%22">Zimmer, Christophe</searchLink>
– Name: Author
  Label: Contributors
  Group: Au
  Data: Imagerie et Modélisation - Imaging and Modeling<br />Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité)<br />Institut de génétique humaine (IGH)<br />Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)<br />Collège Doctoral<br />Sorbonne Université (SU)<br />Hub d'analyse d'images - Image Analysis Hub (Platform) (IAH)<br />Institut Pasteur Paris (IP)-Université Paris Cité (UPCité)<br />Julius-Maximilians-Universität Würzburg = University of Würzburg Würsburg, Germany (JMU)<br />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).<br />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.<br />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.<br />ANR-10-INBS-0004,France-BioImaging,Développment d'une infrastructure française distribuée coordonnée(2010)<br />ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016)
– Name: TitleSource
  Label: Source
  Group: Src
  Data: <i>https://hal.science/hal-04780400 ; 2024</i>.
– Name: Publisher
  Label: Publisher Information
  Group: PubInfo
  Data: CCSD
– Name: DatePubCY
  Label: Publication Year
  Group: Date
  Data: 2024
– Name: Subject
  Label: Subject Terms
  Group: Su
  Data: <searchLink fieldCode="DE" term="%22[SDV]Life+Sciences+[q-bio]%22">[SDV]Life Sciences [q-bio]</searchLink>
– Name: Abstract
  Label: Description
  Group: Ab
  Data: 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.
– Name: TypeDocument
  Label: Document Type
  Group: TypDoc
  Data: report
– Name: Language
  Label: Language
  Group: Lang
  Data: English
– Name: NoteTitleSource
  Label: Relation
  Group: SrcInfo
  Data: BIORXIV: 2024.08.09.605990
– Name: DOI
  Label: DOI
  Group: ID
  Data: 10.1101/2024.08.09.605990
– Name: URL
  Label: Availability
  Group: URL
  Data: https://hal.science/hal-04780400<br />https://hal.science/hal-04780400v1/document<br />https://hal.science/hal-04780400v1/file/2024.08.09.605990v1.full.pdf<br />https://doi.org/10.1101/2024.08.09.605990
– Name: Copyright
  Label: Rights
  Group: Cpyrght
  Data: http://creativecommons.org/licenses/by-nc-nd/ ; info:eu-repo/semantics/OpenAccess
– Name: AN
  Label: Accession Number
  Group: ID
  Data: edsbas.6D181421
PLink https://search.ebscohost.com/login.aspx?direct=true&site=eds-live&db=edsbas&AN=edsbas.6D181421
RecordInfo BibRecord:
  BibEntity:
    Identifiers:
      – Type: doi
        Value: 10.1101/2024.08.09.605990
    Languages:
      – Text: English
    Subjects:
      – SubjectFull: [SDV]Life Sciences [q-bio]
        Type: general
    Titles:
      – TitleFull: Universal dynamics of cohesin-mediated loop extrusion
        Type: main
  BibRelationships:
    HasContributorRelationships:
      – PersonEntity:
          Name:
            NameFull: Sabaté, Thomas
      – PersonEntity:
          Name:
            NameFull: Lelandais, Benoît
      – PersonEntity:
          Name:
            NameFull: Robert, Marie-Cécile
      – PersonEntity:
          Name:
            NameFull: Szalay, Michael
      – PersonEntity:
          Name:
            NameFull: Tinevez, Jean-Yves
      – PersonEntity:
          Name:
            NameFull: Bertrand, Edouard
      – PersonEntity:
          Name:
            NameFull: Zimmer, Christophe
      – PersonEntity:
          Name:
            NameFull: Imagerie et Modélisation - Imaging and Modeling
      – PersonEntity:
          Name:
            NameFull: Institut Pasteur Paris (IP)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité)
      – PersonEntity:
          Name:
            NameFull: Institut de génétique humaine (IGH)
      – PersonEntity:
          Name:
            NameFull: Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)
      – PersonEntity:
          Name:
            NameFull: Collège Doctoral
      – PersonEntity:
          Name:
            NameFull: Sorbonne Université (SU)
      – PersonEntity:
          Name:
            NameFull: Hub d'analyse d'images - Image Analysis Hub (Platform) (IAH)
      – PersonEntity:
          Name:
            NameFull: Institut Pasteur Paris (IP)-Université Paris Cité (UPCité)
      – PersonEntity:
          Name:
            NameFull: Julius-Maximilians-Universität Würzburg = University of Würzburg Würsburg, Germany (JMU)
      – PersonEntity:
          Name:
            NameFull: 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).
      – PersonEntity:
          Name:
            NameFull: 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.
      – PersonEntity:
          Name:
            NameFull: 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.
      – PersonEntity:
          Name:
            NameFull: ANR-10-INBS-0004,France-BioImaging,Développment d'une infrastructure française distribuée coordonnée(2010)
      – PersonEntity:
          Name:
            NameFull: ANR-16-CONV-0005,INCEPTION,Institut Convergences pour l'étude de l'Emergence des Pathologies au Travers des Individus et des populatiONs(2016)
    IsPartOfRelationships:
      – BibEntity:
          Dates:
            – D: 01
              M: 01
              Type: published
              Y: 2024
          Identifiers:
            – Type: issn-locals
              Value: edsbas
            – Type: issn-locals
              Value: edsbas.oa
          Titles:
            – TitleFull: https://hal.science/hal-04780400 ; 2024
              Type: main
ResultId 1