Chromatin Loop Extrusion and Chromatin Unknotting.

Détails

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Etat: Public
Version: Final published version
Licence: CC BY 4.0
ID Serval
serval:BIB_381D19E8C38F
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Chromatin Loop Extrusion and Chromatin Unknotting.
Périodique
Polymers
Auteur(s)
Racko D., Benedetti F., Goundaroulis D., Stasiak A.
ISSN
2073-4360 (Electronic)
ISSN-L
2073-4360
Statut éditorial
Publié
Date de publication
11/10/2018
Peer-reviewed
Oui
Volume
10
Numéro
10
Pages
1126
Langue
anglais
Notes
Publication types: Journal Article
Publication Status: epublish
Résumé
It has been a puzzle how decondensed interphase chromosomes remain essentially unknotted. The natural expectation is that in the presence of type II DNA topoisomerases that permit passages of double-stranded DNA regions through each other, all chromosomes should reach the state of topological equilibrium. The topological equilibrium in highly crowded interphase chromosomes forming chromosome territories would result in formation of highly knotted chromatin fibres. However, Chromosome Conformation Capture (3C) methods revealed that the decay of contact probabilities with the genomic distance in interphase chromosomes is practically the same as in the crumpled globule state that is formed when long polymers condense without formation of any knots. To remove knots from highly crowded chromatin, one would need an active process that should not only provide the energy to move the system from the state of topological equilibrium but also guide topoisomerase-mediated passages in such a way that knots would be efficiently unknotted instead of making the knots even more complex. We perform coarse-grained molecular dynamics simulations of the process of chromatin loop extrusion involving knotted and catenated chromatin fibres to check whether chromatin loop extrusion may be involved in active unknotting of chromatin fibres. Our simulations show that the process of chromatin loop extrusion is ideally suited to actively unknot, decatenate and demix chromatin fibres in interphase chromosomes.
Mots-clé
DNA knots, DNA topoisomerases, biopolymers, chromatin, chromatin loop extrusion, chromosomes, cohesin
Pubmed
Web of science
Open Access
Oui
Création de la notice
19/11/2018 18:01
Dernière modification de la notice
26/10/2019 5:09
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