Literature DB >> 28618488

Torque and buckling in stretched intertwined double-helix DNAs.

Sumitabha Brahmachari1, John F Marko1,2.   

Abstract

We present a statistical-mechanical model for the behavior of intertwined DNAs, with a focus on their torque and extension as a function of their catenation (linking) number and applied force, as studied in magnetic tweezers experiments. Our model produces results in good agreement with available experimental data and predicts a catenation-dependent effective twist modulus distinct from what is observed for twisted individual double-helix DNAs. We find that buckling occurs near the point where experiments have observed a kink in the extension versus linking number, and that the subsequent "supercoiled braid" state corresponds to a proliferation of multiple small plectoneme structures. We predict a discontinuity in extension at the buckling transition corresponding to nucleation of the first plectoneme domain. We also find that buckling occurs for lower linking number at lower salt; the opposite trend is observed for supercoiled single DNAs.

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Year:  2017        PMID: 28618488      PMCID: PMC5505651          DOI: 10.1103/PhysRevE.95.052401

Source DB:  PubMed          Journal:  Phys Rev E        ISSN: 2470-0045            Impact factor:   2.529


  36 in total

1.  Electrostatic-undulatory theory of plectonemically supercoiled DNA.

Authors:  J Ubbink; T Odijk
Journal:  Biophys J       Date:  1999-05       Impact factor: 4.033

2.  Energetics at the DNA supercoiling transition.

Authors:  Hergen Brutzer; Nicholas Luzzietti; Daniel Klaue; Ralf Seidel
Journal:  Biophys J       Date:  2010-04-07       Impact factor: 4.033

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Authors:  G Charvin; A Vologodskii; D Bensimon; V Croquette
Journal:  Biophys J       Date:  2005-03-18       Impact factor: 4.033

4.  Multiplectoneme phase of double-stranded DNA under torsion.

Authors:  Marc Emanuel; Giovanni Lanzani; Helmut Schiessel
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2013-08-12

5.  Effect of undulations on spontaneous braid formation.

Authors:  Dominic Lee
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2013-08-29

6.  Abrupt buckling transition observed during the plectoneme formation of individual DNA molecules.

Authors:  Scott Forth; Christopher Deufel; Maxim Y Sheinin; Bryan Daniels; James P Sethna; Michelle D Wang
Journal:  Phys Rev Lett       Date:  2008-04-08       Impact factor: 9.161

7.  Roles of topoisomerase IV and DNA gyrase in DNA unlinking during replication in Escherichia coli.

Authors:  E L Zechiedrich; N R Cozzarelli
Journal:  Genes Dev       Date:  1995-11-15       Impact factor: 11.361

8.  Torsional directed walks, entropic elasticity, and DNA twist stiffness.

Authors:  J D Moroz; P Nelson
Journal:  Proc Natl Acad Sci U S A       Date:  1997-12-23       Impact factor: 11.205

9.  Bipolar localization of Bacillus subtilis topoisomerase IV, an enzyme required for chromosome segregation.

Authors:  W M Huang; J L Libbey; P van der Hoeven; S X Yu
Journal:  Proc Natl Acad Sci U S A       Date:  1998-04-14       Impact factor: 11.205

10.  Decatenation activity of topoisomerase IV during oriC and pBR322 DNA replication in vitro.

Authors:  H Peng; K J Marians
Journal:  Proc Natl Acad Sci U S A       Date:  1993-09-15       Impact factor: 11.205

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  3 in total

1.  Nucleation of Multiple Buckled Structures in Intertwined DNA Double Helices.

Authors:  Sumitabha Brahmachari; Kathryn H Gunn; Rebecca D Giuntoli; Alfonso Mondragón; John F Marko
Journal:  Phys Rev Lett       Date:  2017-10-31       Impact factor: 9.161

2.  Defect-facilitated buckling in supercoiled double-helix DNA.

Authors:  Sumitabha Brahmachari; Andrew Dittmore; Yasuharu Takagi; Keir C Neuman; John F Marko
Journal:  Phys Rev E       Date:  2018-02       Impact factor: 2.529

Review 3.  DNA Mechanics and Topology.

Authors:  Sumitabha Brahmachari; John F Marko
Journal:  Adv Exp Med Biol       Date:  2018       Impact factor: 2.622

  3 in total

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