Literature DB >> 23406786

Bending of short DNA helices.

Alexander Vologodskii1, Quan Du, Maxim D Frank-Kamenetskii.   

Abstract

In their recent Science paper, Vafabakhsh and Ha claim that DNA duplexes at the range of 100 bp experience anomalous flexibility, much greater than the flexibility of large DNA molecules. ( 1) However, careful reevaluation of their data leads to the conclusion that the presented data do not warrant the authors' claim.

Keywords:  DNA bending flexibility; DNA extreme bendability; DNA minicircles; DNA sticky ends; single-molecule data

Mesh:

Substances:

Year:  2013        PMID: 23406786      PMCID: PMC3654724          DOI: 10.4161/adna.23892

Source DB:  PubMed          Journal:  Artif DNA PNA XNA        ISSN: 1949-095X


  13 in total

1.  Multimerization-cyclization of DNA fragments as a method of conformational analysis.

Authors:  A A Podtelezhnikov; C Mao; N C Seeman; A Vologodskii
Journal:  Biophys J       Date:  2000-11       Impact factor: 4.033

2.  Exact theory of kinkable elastic polymers.

Authors:  Paul A Wiggins; Rob Phillips; Philip C Nelson
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2005-02-23

3.  Cyclization of short DNA fragments and bending fluctuations of the double helix.

Authors:  Quan Du; Chaim Smith; Nahum Shiffeldrim; Maria Vologodskaia; Alexander Vologodskii
Journal:  Proc Natl Acad Sci U S A       Date:  2005-04-04       Impact factor: 11.205

4.  Theoretical analysis of disruptions in DNA minicircles.

Authors:  Xiaozhong Zheng; Alexander Vologodskii
Journal:  Biophys J       Date:  2009-02-18       Impact factor: 4.033

Review 5.  DNA curvature and flexibility in vitro and in vivo.

Authors:  Justin P Peters; L James Maher
Journal:  Q Rev Biophys       Date:  2010-05-18       Impact factor: 5.318

6.  Construction of a DNA nano-object directly demonstrates computation.

Authors:  Gang Wu; Natasha Jonoska; Nadrian C Seeman
Journal:  Biosystems       Date:  2009-07-14       Impact factor: 1.973

7.  Energetics of DNA twisting. I. Relation between twist and cyclization probability.

Authors:  D Shore; R L Baldwin
Journal:  J Mol Biol       Date:  1983-11-15       Impact factor: 5.469

8.  Extreme bendability of DNA less than 100 base pairs long revealed by single-molecule cyclization.

Authors:  Reza Vafabakhsh; Taekjip Ha
Journal:  Science       Date:  2012-08-31       Impact factor: 47.728

9.  Bending modes of DNA directly addressed by cryo-electron microscopy of DNA minicircles.

Authors:  Davide Demurtas; Arnaud Amzallag; Eric J Rawdon; John H Maddocks; Jacques Dubochet; Andrzej Stasiak
Journal:  Nucleic Acids Res       Date:  2009-03-12       Impact factor: 16.971

10.  Kinking the double helix by bending deformation.

Authors:  Quan Du; Alexander Kotlyar; Alexander Vologodskii
Journal:  Nucleic Acids Res       Date:  2007-12-20       Impact factor: 16.971

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  7 in total

1.  Atomic force microscopy study of DNA flexibility on short length scales: smooth bending versus kinking.

Authors:  Alexey K Mazur; Mounir Maaloum
Journal:  Nucleic Acids Res       Date:  2014-11-20       Impact factor: 16.971

2.  Probing the elastic limit of DNA bending.

Authors:  Tung T Le; Harold D Kim
Journal:  Nucleic Acids Res       Date:  2014-08-13       Impact factor: 16.971

3.  Studying DNA looping by single-molecule FRET.

Authors:  Tung T Le; Harold D Kim
Journal:  J Vis Exp       Date:  2014-06-28       Impact factor: 1.355

4.  Determinants of cyclization-decyclization kinetics of short DNA with sticky ends.

Authors:  Jiyoun Jeong; Harold D Kim
Journal:  Nucleic Acids Res       Date:  2020-05-21       Impact factor: 16.971

5.  Role of microscopic flexibility in tightly curved DNA.

Authors:  Maryna Taranova; Andrew D Hirsh; Noel C Perkins; Ioan Andricioaei
Journal:  J Phys Chem B       Date:  2014-09-16       Impact factor: 2.991

Review 6.  Strong bending of the DNA double helix.

Authors:  Alexander Vologodskii; Maxim D Frank-Kamenetskii
Journal:  Nucleic Acids Res       Date:  2013-05-15       Impact factor: 16.971

7.  Revisiting the Anomalous Bending Elasticity of Sharply Bent DNA.

Authors:  Peiwen Cong; Liang Dai; Hu Chen; Johan R C van der Maarel; Patrick S Doyle; Jie Yan
Journal:  Biophys J       Date:  2015-12-01       Impact factor: 4.033

  7 in total

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