Literature DB >> 28460037

Probing the salt dependence of the torsional stiffness of DNA by multiplexed magnetic torque tweezers.

Franziska Kriegel1, Niklas Ermann1, Ruaridh Forbes2, David Dulin2,3, Nynke H Dekker2, Jan Lipfert1.   

Abstract

The mechanical properties of DNA fundamentally constrain and enable the storage and transmission of genetic information and its use in DNA nanotechnology. Many properties of DNA depend on the ionic environment due to its highly charged backbone. In particular, both theoretical analyses and direct single-molecule experiments have shown its bending stiffness to depend on salt concentration. In contrast, the salt-dependence of the twist stiffness of DNA is much less explored. Here, we employ optimized multiplexed magnetic torque tweezers to study the torsional stiffness of DNA under varying salt conditions as a function of stretching force. At low forces (<3 pN), the effective torsional stiffness is ∼10% smaller for high salt conditions (500 mM NaCl or 10 mM MgCl2) compared to lower salt concentrations (20 mM NaCl and 100 mM NaCl). These differences, however, can be accounted for by taking into account the known salt dependence of the bending stiffness. In addition, the measured high-force (6.5 pN) torsional stiffness values of C = 103 ± 4 nm are identical, within experimental errors, for all tested salt concentration, suggesting that the intrinsic torsional stiffness of DNA does not depend on salt.
© The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

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Year:  2017        PMID: 28460037      PMCID: PMC5449586          DOI: 10.1093/nar/gkx280

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  71 in total

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Journal:  Nano Lett       Date:  2011-10-27       Impact factor: 11.189

2.  Torque measurements reveal sequence-specific cooperative transitions in supercoiled DNA.

Authors:  Florian C Oberstrass; Louis E Fernandes; Zev Bryant
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3.  Energetics at the DNA supercoiling transition.

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Authors:  Sébastien Neukirch
Journal:  Phys Rev Lett       Date:  2004-11-05       Impact factor: 9.161

5.  Elasticity and electrostatics of plectonemic DNA.

Authors:  N Clauvelin; B Audoly; S Neukirch
Journal:  Biophys J       Date:  2009-05-06       Impact factor: 4.033

6.  Magnetic tweezers measurement of single molecule torque.

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Journal:  Nano Lett       Date:  2009-04       Impact factor: 11.189

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Authors:  Marc Emanuel; Giovanni Lanzani; Helmut Schiessel
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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

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Authors:  Jan Lipfert; Sebastian Doniach; Rhiju Das; Daniel Herschlag
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10.  Magnetic tweezers measurements of the nanomechanical stability of DNA against denaturation at various conditions of pH and ionic strength.

Authors:  Alessia Tempestini; Valeria Cassina; Doriano Brogioli; Roberto Ziano; Simona Erba; Roberto Giovannoni; Maria G Cerrito; Domenico Salerno; Francesco Mantegazza
Journal:  Nucleic Acids Res       Date:  2012-12-16       Impact factor: 16.971

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  14 in total

1.  The temperature dependence of the helical twist of DNA.

Authors:  Franziska Kriegel; Christian Matek; Tomáš Dršata; Klara Kulenkampff; Sophie Tschirpke; Martin Zacharias; Filip Lankaš; Jan Lipfert
Journal:  Nucleic Acids Res       Date:  2018-09-06       Impact factor: 16.971

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

3.  DNA Sequence Is a Major Determinant of Tetrasome Dynamics.

Authors:  Orkide Ordu; Alexandra Lusser; Nynke H Dekker
Journal:  Biophys J       Date:  2019-08-21       Impact factor: 4.033

4.  Torsional Stiffness of Extended and Plectonemic DNA.

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Journal:  Phys Rev Lett       Date:  2021-07-09       Impact factor: 9.161

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Authors:  Steffen M Sedlak; Magnus S Bauer; Carleen Kluger; Leonard C Schendel; Lukas F Milles; Diana A Pippig; Hermann E Gaub
Journal:  PLoS One       Date:  2017-12-05       Impact factor: 3.240

Review 6.  Dynamic DNA Assemblies in Biomedical Applications.

Authors:  Yaqin Hu; Ying Wang; Jianhua Yan; Nachuan Wen; Hongjie Xiong; Shundong Cai; Qunye He; Dongming Peng; Zhenbao Liu; Yanfei Liu
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7.  Chromatin fibers stabilize nucleosomes under torsional stress.

Authors:  Artur Kaczmarczyk; He Meng; Orkide Ordu; John van Noort; Nynke H Dekker
Journal:  Nat Commun       Date:  2020-01-08       Impact factor: 14.919

8.  Multiplex flow magnetic tweezers reveal rare enzymatic events with single molecule precision.

Authors:  Rohit Agarwal; Karl E Duderstadt
Journal:  Nat Commun       Date:  2020-09-18       Impact factor: 14.919

9.  Specifically bound BZIP transcription factors modulate DNA supercoiling transitions.

Authors:  Johanna Hörberg; Anna Reymer
Journal:  Sci Rep       Date:  2020-11-02       Impact factor: 4.379

Review 10.  Insights into the Structure and Energy of DNA Nanoassemblies.

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