Literature DB >> 18518075

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

Scott Forth1, Christopher Deufel, Maxim Y Sheinin, Bryan Daniels, James P Sethna, Michelle D Wang.   

Abstract

The response of single DNA molecules to externally applied forces and torques was directly measured using an angular optical trap. Upon overwinding, DNA buckled abruptly as revealed by a sharp extension drop followed by a torque plateau. When the DNA was held at the buckling transition, its extension hopped rapidly between two distinct states. Furthermore, the initial plectonemic loop absorbed approximately twice as much extension as was absorbed into the plectoneme upon each additional turn. The observed extension change after buckling and the postbuckling torque support a recent DNA elasticity model.

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Year:  2008        PMID: 18518075      PMCID: PMC3019760          DOI: 10.1103/PhysRevLett.100.148301

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  20 in total

1.  Micro-mechanical measurement of the torsional modulus of DNA.

Authors:  T R Strick; D Bensimon; V Croquette
Journal:  Genetica       Date:  1999       Impact factor: 1.082

2.  Direct observation of DNA rotation during transcription by Escherichia coli RNA polymerase.

Authors:  Y Harada; O Ohara; A Takatsuki; H Itoh; N Shimamoto; K Kinosita
Journal:  Nature       Date:  2001-01-04       Impact factor: 49.962

3.  Structural transitions and elasticity from torque measurements on DNA.

Authors:  Zev Bryant; Michael D Stone; Jeff Gore; Steven B Smith; Nicholas R Cozzarelli; Carlos Bustamante
Journal:  Nature       Date:  2003-07-17       Impact factor: 49.962

4.  Direct mechanical measurements of the elasticity of single DNA molecules by using magnetic beads.

Authors:  S B Smith; L Finzi; C Bustamante
Journal:  Science       Date:  1992-11-13       Impact factor: 47.728

5.  Conformational and thermodynamic properties of supercoiled DNA.

Authors:  A V Vologodskii; S D Levene; K V Klenin; M Frank-Kamenetskii; N R Cozzarelli
Journal:  J Mol Biol       Date:  1992-10-20       Impact factor: 5.469

6.  Optical microrheology using rotating laser-trapped particles.

Authors:  Alexis I Bishop; Timo A Nieminen; Norman R Heckenberg; Halina Rubinsztein-Dunlop
Journal:  Phys Rev Lett       Date:  2004-05-14       Impact factor: 9.161

7.  Optical torque wrench: angular trapping, rotation, and torque detection of quartz microparticles.

Authors:  Arthur La Porta; Michelle D Wang
Journal:  Phys Rev Lett       Date:  2004-05-14       Impact factor: 9.161

8.  Torsional rigidity of positively and negatively supercoiled DNA.

Authors:  P R Selvin; D N Cook; N G Pon; W R Bauer; M P Klein; J E Hearst
Journal:  Science       Date:  1992-01-03       Impact factor: 47.728

9.  Friction and torque govern the relaxation of DNA supercoils by eukaryotic topoisomerase IB.

Authors:  Daniel A Koster; Vincent Croquette; Cees Dekker; Stewart Shuman; Nynke H Dekker
Journal:  Nature       Date:  2005-03-31       Impact factor: 49.962

10.  Single-molecule analysis of DNA uncoiling by a type II topoisomerase.

Authors:  T R Strick; V Croquette; D Bensimon
Journal:  Nature       Date:  2000-04-20       Impact factor: 49.962

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  77 in total

1.  Competition between curls and plectonemes near the buckling transition of stretched supercoiled DNA.

Authors:  John F Marko; Sébastien Neukirch
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2012-01-11

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

Authors:  Florian C Oberstrass; Louis E Fernandes; Zev Bryant
Journal:  Proc Natl Acad Sci U S A       Date:  2012-04-02       Impact factor: 11.205

3.  Torque-induced deformations of charged elastic DNA rods: thin helices, loops, and precursors of DNA supercoiling.

Authors:  Andrey G Cherstvy
Journal:  J Biol Phys       Date:  2011-01-18       Impact factor: 1.365

4.  Passive torque wrench and angular position detection using a single-beam optical trap.

Authors:  James Inman; Scott Forth; Michelle D Wang
Journal:  Opt Lett       Date:  2010-09-01       Impact factor: 3.776

5.  Free energy calculations reveal rotating-ratchet mechanism for DNA supercoil relaxation by topoisomerase IB and its inhibition.

Authors:  Jeff Wereszczynski; Ioan Andricioaei
Journal:  Biophys J       Date:  2010-08-04       Impact factor: 4.033

Review 6.  Single-molecule measurements of DNA topology and topoisomerases.

Authors:  Keir C Neuman
Journal:  J Biol Chem       Date:  2010-04-09       Impact factor: 5.157

7.  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

8.  Magnetic torque tweezers: measuring torsional stiffness in DNA and RecA-DNA filaments.

Authors:  Jan Lipfert; Jacob W J Kerssemakers; Tessa Jager; Nynke H Dekker
Journal:  Nat Methods       Date:  2010-10-17       Impact factor: 28.547

9.  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

10.  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

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