ArticleNature communications2018
A nanofluidic knot factory based on compression of single DNA in nanochannels.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Activity-driven polymer knotting for macromolecular topology engineering.Science advances · 2024Article
- Folding a Molecular Strand into a Trefoil Knot of Single Handedness with Co(II)/Co(III) Chaperones.Journal of the American Chemical Society · 2024Article
- Knot Formation on DNA Pushed Inside Chiral Nanochannels.Polymers · 2023Article
- Knot Factories with Helical Geometry Enhance Knotting and Induce Handedness to Knots.Polymers · 2022Article
- Knot formation of dsDNA pushed inside a nanochannel.Scientific reports · 2022Article
- Influence of ionic conditions on knotting in a coarse-grained model for DNA.Frontiers in chemistry · 2022Article
- Effects of turn-structure on folding and entanglement in artificial molecular overhand knots.Chemical science · 2020Article
- Article
- Knotting a molecular strand can invert macroscopic effects of chirality.Nature chemistry · 2020Article
- Tying different knots in a molecular strand.Nature · 2020Article
- Loop-closure kinetics reveal a stable, right-handed DNA intermediate in Cre recombination.Nucleic acids research · 2020Article
- Complex DNA knots detected with a nanopore sensor.Nature communications · 2019Article
- Fabrication of polydimethylsiloxane nanofluidic chips under AFM tip-based nanomilling process.Nanoscale research letters · 2019Article
- Article
- Miniaturized flow cell with pneumatically-actuated vertical nanoconfinement for single-molecule imaging and manipulation.Biomicrofluidics · 2018Article
- Article
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Authors and funding
5 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Knots form when polymers self-entangle, a process enhanced by compaction with important implications in biological and artificial systems involving chain confinement. In particular, new experimental tools are needed to assess the impact of multiple variables influencing knotting probability. Here, we introduce a nanofluidic knot factory for efficient knot formation and detection. Knots are produced during hydrodynamic compression of single DNA molecules against barriers in a nanochannel; subsequent extension of the chain enables direct assessment of the number of independently evolving knots. Knotting probability increases with chain compression as well as with waiting time in the compressed state. Using a free energy derived from scaling arguments, we develop a knot-formation model that can quantify the effect of interactions and the breakdown of Poisson statistics at high compression. Our model suggests that highly compressed knotted states are stabilized by a decreased free energy as knotted contour contributes a lower self-exclusion derived free energy.
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