ArticleNucleic acids research2015
Generation of supercoils in nicked and gapped DNA drives DNA unknotting and postreplicative decatenation.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Actively Induced Supercoiling Can Slow Down Plasmid Solutions by Trapping the Threading Entanglements.ACS nano · 2026Article
- Quantifying complexity in DNA structures with high resolution Atomic Force Microscopy.Nature communications · 2025Article
- The Free Energy of Nucleosomal DNA Based on the Landau Model and Topology.Biomolecules · 2023Article
- Knot Formation on DNA Pushed Inside Chiral Nanochannels.Polymers · 2023Article
- Knot Factories with Helical Geometry Enhance Knotting and Induce Handedness to Knots.Polymers · 2022Article
- Channels with Helical Modulation Display Stereospecific Sensitivity for Chiral Superstructures.Polymers · 2021Article
- Moltemplate: A Tool for Coarse-Grained Modeling of Complex Biological Matter and Soft Condensed Matter Physics.Journal of molecular biology · 2021Article
- Article
- Loop-closure kinetics reveal a stable, right-handed DNA intermediate in Cre recombination.Nucleic acids research · 2020Article
- Synergy of topoisomerase and structural-maintenance-of-chromosomes proteins creates a universal pathway to simplify genome topology.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Chromatin Loop Extrusion and Chromatin Unknotting.Polymers · 2018Article
- Dynamics of supercoiled DNA with complex knots: large-scale rearrangements and persistent multi-strand interlocking.Nucleic acids research · 2018Article
- Transcription-induced supercoiling as the driving force of chromatin loop extrusion during formation of TADs in interphase chromosomes.Nucleic acids research · 2018Article
- Transcription-induced supercoiling explains formation of self-interacting chromatin domains in S. pombe.Nucleic acids research · 2017Article
- To Tie or Not to Tie? That Is the Question.Polymers · 2017Review
- Spatial confinement induces hairpins in nicked circular DNA.Nucleic acids research · 2017Article
- Pore translocation of knotted DNA rings.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- How topoisomerase IV can efficiently unknot and decatenate negatively supercoiled DNA molecules without causing their torsional relaxation.Nucleic acids research · 2016Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Due to the helical structure of DNA the process of DNA replication is topologically complex. Freshly replicated DNA molecules are catenated with each other and are frequently knotted. For proper functioning of DNA it is necessary to remove all of these entanglements. This is done by DNA topoisomerases that pass DNA segments through each other. However, it has been a riddle how DNA topoisomerases select the sites of their action. In highly crowded DNA in living cells random passages between contacting segments would only increase the extent of entanglement. Using molecular dynamics simulations we observed that in actively supercoiled DNA molecules the entanglements resulting from DNA knotting or catenation spontaneously approach sites of nicks and gaps in the DNA. Type I topoisomerases, that preferentially act at sites of nick and gaps, are thus naturally provided with DNA-DNA juxtapositions where a passage results in an error-free DNA unknotting or DNA decatenation.
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