Topological gelation of reconnecting polymers

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Bonato, Andrea and Marenduzzo, Davide and Michieletto, Davide and Orlandini, Enzo (2022) Topological gelation of reconnecting polymers. Proceedings of the National Academy of Sciences, 119 (44). e2207728119. ISSN 0027-8424 (https://doi.org/10.1073/pnas.2207728119)

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Abstract

DNA recombination is a ubiquitous process that ensures genetic diversity. Contrary to textbook pictures, DNA recombination, as well as generic DNA translocations, occurs in a confined and highly entangled environment. Inspired by this observation, here, we investigate a solution of semiflexible polymer rings undergoing generic cutting and reconnection operations under spherical confinement. Our setup may be realized using engineered DNA in the presence of recombinase proteins or by considering micelle-like components able to form living (or reversibly breakable) polymer rings. We find that in such systems, there is a topological gelation transition, which can be triggered by increasing either the stiffness or the concentration of the rings. Flexible or dilute polymers break into an ensemble of short, unlinked, and segregated rings, whereas sufficiently stiff or dense polymers self-assemble into a network of long, linked, and mixed loops, many of which are knotted. We predict that the two phases should behave qualitatively differently in elution experiments monitoring the escape dynamics from a permeabilized container. Besides shedding some light on the biophysics and topology of genomes undergoing DNA reconnection in vivo, our findings could be leveraged in vitro to design polymeric complex fluids—e.g., DNA-based complex fluids or living polymer networks—with desired topologies.

  • Item type:Article
    ID code:83807
    Dates:
    Date
    Event
    24 October 2022
    Published
    24 October 2022
    Published Online
    27 September 2022
    Accepted
    6 May 2022
    Submitted
    Subjects:Science > Physics
    Department:Faculty of Science > Physics
    Depositing user: Pure Administrator
    Date deposited:24 Jan 2023 10:22
    Last modified:11 Nov 2024 13:45
    URI:https://strathprints.strath.ac.uk/id/eprint/83807
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