Results 41 to 50 of about 19,057 (244)

Cohesin and condensin extrude DNA loops in a cell cycle-dependent manner

eLife, 2020
Loop extrusion by structural maintenance of chromosomes (SMC) complexes has been proposed as a mechanism to organize chromatin in interphase and metaphase. However, the requirements for chromatin organization in these cell cycle phases are different, and
Stefan Golfier, Thomas Quail, Hiroshi Kimura, Jan Brugués   +3 more
doaj   +1 more source

DNA double-strand break end synapsis by DNA loop extrusion. [PDF]

Nat Commun, 2023
DNA double-strand breaks (DSBs) occur every cell cycle and must be repaired. Here the authors combine theory and simulations to establish a likely role for loop extrusion in bringing the DSB ends back into proximity for ...
Yang JH, Brandão HB, Hansen AS.
europepmc   +2 more sources

Two CTCF motifs impede cohesin-mediated DNA loop extrusion

Molecular Cell
Cees Dekker, Roman Barth, Richard Janissen   +2 more
exaly   +2 more sources

Theory and simulations of condensin mediated loop extrusion in DNA [PDF]

Nature Communications, 2020
Abstract Condensation of hundreds of mega-base-pair-long human chromosomes in a small nuclear volume is a spectacular biological phenomenon. This process is driven by the formation of chromosome loops. The ATP consuming motor, condensin, interacts with chromatin segments to actively extrude loops.
Ryota Takaki, Atreya Dey, Guang Shi, D. Thirumalai   +3 more
openaire   +5 more sources

MCM complexes are barriers that restrict cohesin-mediated loop extrusion [PDF]

, 2022
Eukaryotic genomes are compacted into loops and topologically associating domains (TADs)(1–3), which contribute to transcription, recombination and genomic stability(4,5). Cohesin extrudes DNA into loops that are thought to lengthen until CTCF boundaries
Flyamer, Ilya M, Stocsits, R., Davidson, I., Duderstadt, Karl E., Lalic, Aleksandar, Peters, Jan-Michael, Gassler, Johanna, Gaspar, I., Flyamer, I., Brandao, H., Duderstadt, Karl E, Brandão, Hugo B, Tachibana, K., Dequeker, Bart JH, Dequeker, B., Duderstadt, K., Davidson, Iain F., Scherr, M., Gaspar, Imre, Peters, J., Dequeker, Bart J. H., Tang, W., Davidson, Iain F, Flyamer, Ilya M., Lalic, A., Scherr, Matthias J, Mirny, Leonid A, Brandão, Hugo B., Gassler, J., Mirny, Leonid A., Scherr, Matthias J., Powell, S., Powell, Sean, Stocsits, Roman, Tachibana, Kikuë, Tang, Wen, Mirny, L.   +36 more
core   +2 more sources

Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy.

PLoS Computational Biology, 2021
The condensin protein complex compacts chromatin during mitosis using its DNA-loop extrusion activity. Previous studies proposed scrunching and loop-capture models as molecular mechanisms for the loop extrusion process, both of which assume the binding ...
Hiroki Koide, Noriyuki Kodera, Shveta Bisht, Shoji Takada, Tsuyoshi Terakawa   +4 more
doaj   +1 more source

The role of chromatin loop extrusion in antibody diversification. [PDF]

Nat Rev Immunol, 2022
Cohesin mediates chromatin loop formation across the genome by extruding chromatin between convergently oriented CTCF-binding elements. Recent studies indicate that cohesin-mediated loop extrusion in developing B cells presents immunoglobulin heavy chain (Igh) variable (V), diversity (D) and joining (J) gene segments to RAG endonuclease through a ...
Zhang Y, Zhang X, Dai HQ, Hu H, Alt FW.
europepmc   +3 more sources

Cohesin biology meets the loop extrusion model [PDF]

Chromosome Research, 2017
Extensive research has revealed that cohesin acts as a topological device, trapping chromosomal DNA within a large tripartite ring. In so doing, cohesin contributes to the formation of compact and organized genomes. How exactly the cohesin subunits interact, how it opens, closes, and translocates on chromatin, and how it actually tethers DNA strands ...
Barrington, C, Finn, R, Hadjur, S
openaire   +3 more sources

Heterochromatin diversity modulates genome compartmentalization and loop extrusion barriers [preprint] [PDF]

, 2021
This article is a preprint. Preprints are preliminary reports of work that have not been certified by peer review.Two dominant processes organizing chromosomes are loop extrusion and the compartmental segregation of active and inactive chromatin.
Dekker, Job, Imakaev, Maxim, Spracklin, George, Pradhan, Sriharsa, Abdennur, Nezar, Chowdhury, Neil, Mirny, Leonid   +6 more
core   +2 more sources

TAD cliques predict key features of chromatin organization

BMC Genomics, 2021
Background Mechanisms underlying genome 3D organization and domain formation in the mammalian nucleus are not completely understood. Multiple processes such as transcriptional compartmentalization, DNA loop extrusion and interactions with the nuclear ...
Tharvesh M. Liyakat Ali, Annaël Brunet, Philippe Collas, Jonas Paulsen   +3 more
doaj   +1 more source