Literature DB >> 24098838

On the topology of chromatin fibres.

Maria Barbi1, Julien Mozziconacci, Jean-Marc Victor, Hua Wong, Christophe Lavelle.   

Abstract

The ability of cells to pack, use and duplicate DNA remains one of the most fascinating questions in biology. To understand DNA organization and dynamics, it is important to consider the physical and topological constraints acting on it. In the eukaryotic cell nucleus, DNA is organized by proteins acting as spools on which DNA can be wrapped. These proteins can subsequently interact and form a structure called the chromatin fibre. Using a simple geometric model, we propose a general method for computing topological properties (twist, writhe and linking number) of the DNA embedded in those fibres. The relevance of the method is reviewed through the analysis of magnetic tweezers single molecule experiments that revealed unexpected properties of the chromatin fibre. Possible biological implications of these results are discussed.

Keywords:  DNA; chromatin; topology

Year:  2012        PMID: 24098838      PMCID: PMC3438564          DOI: 10.1098/rsfs.2011.0101

Source DB:  PubMed          Journal:  Interface Focus        ISSN: 2042-8898            Impact factor:   3.906


  47 in total

1.  Evidence for short-range helical order in the 30-nm chromatin fibers of erythrocyte nuclei.

Authors:  Margot P Scheffer; Mikhail Eltsov; Achilleas S Frangakis
Journal:  Proc Natl Acad Sci U S A       Date:  2011-10-03       Impact factor: 11.205

2.  How are nucleosomes disrupted during transcription elongation?

Authors:  Jordanka Zlatanova; Jean-Marc Victor
Journal:  HFSP J       Date:  2009-11-12

3.  Extracting DNA twist rigidity from experimental supercoiling data.

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

Review 4.  Nucleosome displacement in transcription.

Authors:  Jerry L Workman
Journal:  Genes Dev       Date:  2006-08-01       Impact factor: 11.361

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.  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

7.  Crystal structure of the nucleosome core particle at 2.8 A resolution.

Authors:  K Luger; A W Mäder; R K Richmond; D F Sargent; T J Richmond
Journal:  Nature       Date:  1997-09-18       Impact factor: 49.962

8.  Structure of chromatin and the linking number of DNA.

Authors:  A Worcel; S Strogatz; D Riley
Journal:  Proc Natl Acad Sci U S A       Date:  1981-03       Impact factor: 11.205

9.  The dependence of the linking number of a circular minichromosome upon the shape and the orientation of its nucleosomes.

Authors:  S A Grigoryev; L B Ioffe
Journal:  FEBS Lett       Date:  1981-07-20       Impact factor: 4.124

10.  Real-time detection of cruciform extrusion by single-molecule DNA nanomanipulation.

Authors:  T Ramreddy; R Sachidanandam; T R Strick
Journal:  Nucleic Acids Res       Date:  2011-01-25       Impact factor: 16.971

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  3 in total

Review 1.  DNA topology and transcription.

Authors:  Fedor Kouzine; David Levens; Laura Baranello
Journal:  Nucleus       Date:  2014-04-22       Impact factor: 4.197

Review 2.  DNA torsion as a feedback mediator of transcription and chromatin dynamics.

Authors:  Sheila S Teves; Steven Henikoff
Journal:  Nucleus       Date:  2014-05-12       Impact factor: 4.197

3.  Rigid Basepair Monte Carlo Simulations of One-Start and Two-Start Chromatin Fiber Unfolding by Force.

Authors:  Babette E de Jong; Thomas B Brouwer; Artur Kaczmarczyk; Bert Visscher; John van Noort
Journal:  Biophys J       Date:  2018-10-11       Impact factor: 4.033

  3 in total

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