ArticleNucleic acids research2017
Transcription-induced supercoiling explains formation of self-interacting chromatin domains in S. pombe.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 43 citations in OpenAlex.
- Actively Induced Supercoiling Can Slow Down Plasmid Solutions by Trapping the Threading Entanglements.ACS nano · 2026Article
- Integrative Modeling of 3D Genome Organization by Bayesian Molecular Dynamics Simulations with Hi-C Metainference.Methods in molecular biology (Clifton, N.J.) · 2025Article
- The role of insulators and transcription in 3D chromatin organization of flies.Genome research · 2022Article
- Understanding 3D genome organization by multidisciplinary methods.Nature reviews. Molecular cell biology · 2021Review
- Topological tuning of DNA mobility in entangled solutions of supercoiled plasmids.Science advances · 2021Article
- Weak interactions in higher-order chromatin organization.Nucleic acids research · 2020Review
- Article
- Emerging roles for R-loop structures in the management of topological stress.The Journal of biological chemistry · 2020Review
- Chromatin architecture reorganization during neuronal cell differentiation inGenome research · 2019Article
- Principles of genome folding into topologically associating domains.Science advances · 2019Review
- Properties of gene expression and chromatin structure with mechanically regulated elongation.Nucleic acids research · 2018Article
- Protein-mediated loops in supercoiled DNA create large topological domains.Nucleic acids research · 2018Article
- DNA Supercoiling, Topoisomerases, and Cohesin: Partners in Regulating Chromatin Architecture?International journal of molecular sciences · 2018Review
- Transcription-induced supercoiling as the driving force of chromatin loop extrusion during formation of TADs in interphase chromosomes.Nucleic acids research · 2018Article
- Extrusion without a motor: a new take on the loop extrusion model of genome organization.Nucleus (Austin, Tex.) · 2018Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The question of how self-interacting chromatin domains in interphase chromosomes are structured and generated dominates current discussions on eukaryotic chromosomes. Numerical simulations using standard polymer models have been helpful in testing the validity of various models of chromosome organization. Experimental contact maps can be compared with simulated contact maps and thus verify how good is the model. With increasing resolution of experimental contact maps, it became apparent though that active processes need to be introduced into models to recapitulate the experimental data. Since transcribing RNA polymerases are very strong molecular motors that induce axial rotation of transcribed DNA, we present here models that include such rotational motors. We also include into our models swivels and sites for intersegmental passages that account for action of DNA topoisomerases releasing torsional stress. Using these elements in our models, we show that transcription-induced supercoiling generated in the regions with divergent-transcription and supercoiling relaxation occurring between these regions are sufficient to explain formation of self-interacting chromatin domains in chromosomes of fission yeast (S. pombe).
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