Mechanism, regulation and functions of genome folding through loop extrusion by cohesin-NIPBL

Project Information

LoopMechRegFun

Grant agreement ID: 101020558

DOI

10.3030/101020558

EC signature date 13 June 2021

Start date 1 October 2021

End date 30 September 2026

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 1 679 465,00

EU contribution

€ 1 679 465,00

Coordinated by

FORSCHUNGSINSTITUT FUR MOLEKULARE PATHOLOGIE GESELLSCHAFT MBH
Austria

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Non-peer reviewed articles (5)

Cohesin supercoils DNA during loop extrusion

Author(s): 13. Davidson, I.F., Barth, R., Horn, S., Janissen, R., Nagasaka, K., Wutz, G., Stocsits, R., Bauer, B., Dekker, C. and Peters, J.-M.
Published in: bioRxiv, Issue 2024.03.22.586228, 2024, ISSN 2692-8205
Publisher: Cold Spring Harbor Laboratories
DOI: 10.1101/2024.03.22.586228

SMC motor proteins extrude DNA asymmetrically and contain a direction switch.

Author(s): 12. Barth, R., Davidson, I.F., van der Torre, J., Taschner, M., Gruber, S., Peters, J.-M. and Dekker, C.
Published in: bioRxiv, Issue 2023.12.21.572892, 2023, ISSN 2692-8205
Publisher: Cold Spring Harbor Laboratories
DOI: 10.1101/2023.12.21.572892

All eukaryotic SMC proteins induce a twist of -0.6 at each DNA-loop-extrusion step

Author(s): Janissen, R., Barth, R., Davidson, I.F., Taschner, M., Gruber, S., Peters, J.-M. and Dekker, C.
Published in: bioRxiv, Issue 2024.03.22.586328, 2024, ISSN 2692-8205
Publisher: Cold Spring Harbor Laboratories
DOI: 10.1101/2024.03.22.586328

NIPBL and STAG1 enable loop extrusion by providing differential DNA-cohesin affinity

Author(s): van Wee, R., Asor, R., Li, Y., Drechsel, D., Popova, M., Litos, G., Davidson, I.F., Peters, J.-M. and Kukura, P.
Published in: bioRxiv, 2024, ISSN 2692-8205
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.22.619583

Nanoscale 3D DNA tracing in single human cells visualizes loop extrusion directly in situ

Author(s): Beckwith, K.S., 1, Ødegård-Fougner, Ø., Morero, N.R., Barton, C., Schueder, F., Tang, W., Alexander, S., Peters, J.-M., Jungmann, R., Birney, E. and Ellenberg J.
Published in: bioRxiv, Issue 2021.04.12.439407, 2023, ISSN 2692-8205
Publisher: Cold Spring Harbor Laboratories
DOI: 10.1101/2021.04.12.439407

Peer reviewed articles (11)

Transcription shapes 3D chromatin organization by interacting with loop-extruding cohesin complexes

Author(s): "Banigan, E.J., Tang, W., van den Berg, A.A., Stocsits, R.R., Wutz, G., Brandão, H.B., Busslinger, G.A., Peters#, J.-M. and Mirny#, L.A."
Published in: Proc Natl Acad Sci U S A, Issue 120(11):e2210480120, 2023, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2210480120

Sororin is an evolutionary conserved antagonist of WAPL

Author(s): "Prusen Mota, I., Galova, M., Schleiffer, A., Nguyen, T.-T., Kovacikova, I., Farias Saad, C., Litos, G., Nishiyama, T., Gregan#, J., Peters#, J.-M. and Schlögelhofer#, P."
Published in: Nature Communications, Issue 15, 4729, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-024-49178-0

Cohesin mediates DNA loop extrusion and sister chromatid cohesion by distinct mechanisms

Author(s): 8. Nagasaka, K., Davidson, I.F., Stocsits, R., Tang, W., Wutz, G., Betty, P., Panarotto, M., Litos, G., Schleiffer, A., Gerlich, D. and Peters, J.-M.
Published in: Mol Cell., Issue 2023 Sep 7;83(17):3049-3063.e6, 2023, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2023.07.024

Single cohesin molecules generate force by two distinct mechanisms

Author(s): Pobegalov, G., Chu, L.-Y., Peters, J.-M. and Maxim Molodtsov
Published in: Nat. Comm., Issue Jul 4;14(1):3946, 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-39696-8

CTCF is a DNA-tension-dependent barrier to cohesin-mediated loop extrusion

Author(s): Iain F. Davidson; Roman Barth; Maciej Zaczek; Jaco van der Torre; Wen Tang; Kota Nagasaka; Richard Janissen; Jacob Kerssemakers; Gordana Wutz; Cees Dekker; Jan-Michael Peters
Published in: Nature, Issue 616, 2023, Page(s) 822-827, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-023-05961-5

Cohesin and CTCF do not assemble TADs in Xenopus sperm and male pronuclei

Author(s): Jessberger, G., Várnai, C., Stocsits, R.R., Tang, W., Stary, G. and Peters, J.-M.
Published in: Genome Research, Issue 33, 2023, Page(s) 2094-107, ISSN 1088-9051
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.277865.123

Testing pseudotopological and nontopological models for SMC-driven DNA loop extrusion against roadblock-traversal experiments

Author(s): Barth, R.,Pradhan, B., Kim, E., Davidson, I.F., van der Torre, J., Peters, J.-M. and Cees Dekker
Published in: Sci Rep., Issue May 19;13(1):8100, 2023, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-023-35359-2

Cornelia de Lange Syndrome mutations in NIPBL can impair cohesin-mediated DNA loop extrusion

Author(s): Panarotto, M., Davidson, I.F., Schleiffer, A. and Peters, J.-M.
Published in: Proc Natl Acad Sci U S A, Issue 119(18):e2201029119, 2022, ISSN 0027-8424
Publisher: National Academy of Sciences
DOI: 10.1073/pnas.2201029119

MCM complexes are barriers that restrict cohesin-mediated loop extrusion.

Author(s): Dequeker, B.J.H., Scherr, M.J., Brandão, H.B., Gassler, J., Powell, S., Gaspar, I., Flyamer, I.M., Lalic A, Tang, W., Stocsits, R., Davidson, I.F., Peters, J.-M., Duderstadt, K.E., Mirny, L.A. and Tachibana, K.
Published in: Nature, Issue 606, 2022, Page(s) 197-203, ISSN 0028-0836
Publisher: Nature Publishing Group
DOI: 10.1038/s41586-022-04730-0

Igh and Igk loci use different folding principles for V gene recombination due to distinct chromosomal architectures of pro-B and pre-B cells

Author(s): Hill, L., Wutz, G., Jaritz, M., Tagoh, H., Calderón, L., Peters, J.-M., Goloborodko, A. and Busslinger, M
Published in: Nat Commun., Issue 2023 Apr 21;14(1):2316., 2023, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-023-37994-9

How do molecular motors fold the genome?

Author(s): Dekker, C, Haering, C.H., Peters, J.-M. and Rowland, B.D.
Published in: Science, Issue 382, 2023, Page(s) 646-648, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.adi8308