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PMID: 12785093 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Review

Optical tweezers stretching of chromatin.

Journal of muscle research and cell motility ·Vol. 23 ·No. 5-6 ·2002-00-00 ·Pages 397-407

Pope LH, Bennink ML, Greve J

Abstract

Recently significant success has emerged from exciting research involving chromatin stretching using optical tweezers. These experiments, in which a single chromatin fibre is attached by one end to a micron-sized bead held in an optical trap and to a solid surface or second bead via the other end, allows manipulation and force detection at a single-molecule level. Through force-induced stretching of chromatin, mechanical properties, specific intermolecular bond strengths and DNA-protein association and dissociation kinetics have been determined. These studies will be extremely fruitful in terms of understanding the function of chromatin structure and its dynamics within the cell.

MeSH Terms
Animals Chromatin/chemistry,metabolism Elasticity Humans Kinetics Lasers Models, Molecular Molecular Conformation Nucleosomes/chemistry,metabolism Optics and Photonics/instrumentation
Chemicals
Chromatin Nucleosomes
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Pope Lisa H
Department of Applied Physics and MESA Research Institute, University of Twente, PO Box 217, 7500 AE Enschede, The Netherlands. [email protected]
Bennink Martin L
Greve Jan
References (57)
57 references, click to expand
  1. Reversible and irreversible unfolding of mitotic newt chromosomes by applied force.
    Mol Biol Cell. 2000 Jan;11(1):269-76 PMID: 10637307
  2. Emerging connections between DNA methylation and histone acetylation.
    Cell Mol Life Sci. 2001 May;58(5-6):721-7 PMID: 11437233
  3. Contributions of linker histones and histone H3 to chromatin structure: scanning force microscopy studies on trypsinized fibers.
    Biophys J. 1998 Jun;74(6):2823-9 PMID: 9635736
  4. Role of histone pairs H2A,H2B and H3,H4 in the self-assembly of nucleosome core particles.
    J Mol Biol. 1982 Apr 25;156(4):771-89 PMID: 7120393
  5. Crystal structure of the nucleosome core particle at 2.8 A resolution.
    Nature. 1997 Sep 18;389(6648):251-60 PMID: 9305837
  6. Assembly of SV40 chromatin in a cell-free system from Xenopus eggs.
    Cell. 1977 Feb;10(2):237-43 PMID: 189936
  7. Unfolding individual nucleosomes by stretching single chromatin fibers with optical tweezers.
    Nat Struct Biol. 2001 Jul;8(7):606-10 PMID: 11427891
  8. Mechanism of protein access to specific DNA sequences in chromatin: a dynamic equilibrium model for gene regulation.
    J Mol Biol. 1995 Nov 24;254(2):130-49 PMID: 7490738
  9. Structure of the 300A chromatin filament: X-ray diffraction from oriented samples.
    Cell. 1985 Nov;43(1):207-13 PMID: 4075395
  10. DNA folding by histones: the kinetics of chromatin core particle reassembly and the interaction of nucleosomes with histones.
    J Mol Biol. 1979 May 15;130(2):103-34 PMID: 469938
  11. Mechanical disruption of individual nucleosomes reveals a reversible multistage release of DNA.
    Proc Natl Acad Sci U S A. 2002 Feb 19;99(4):1960-5 PMID: 11854495
  12. Dynamic force spectroscopy of single DNA molecules.
    Proc Natl Acad Sci U S A. 1999 Sep 28;96(20):11277-82 PMID: 10500167
  13. Overstretching B-DNA: the elastic response of individual double-stranded and single-stranded DNA molecules.
    Science. 1996 Feb 9;271(5250):795-9 PMID: 8628994
  14. Transcription against an applied force.
    Science. 1995 Dec 8;270(5242):1653-7 PMID: 7502073
  15. Driving proteins off DNA using applied tension.
    Biophys J. 1997 Oct;73(4):2173-8 PMID: 9336213
  16. Fast kinetics of chromatin assembly revealed by single-molecule videomicroscopy and scanning force microscopy.
    Proc Natl Acad Sci U S A. 2000 Dec 19;97(26):14251-6 PMID: 11114182
  17. Effects of core histone tail domains on the equilibrium constants for dynamic DNA site accessibility in nucleosomes.
    J Mol Biol. 2000 Apr 28;298(2):211-23 PMID: 10764592
  18. Linker histone tails and N-tails of histone H3 are redundant: scanning force microscopy studies of reconstituted fibers.
    Biophys J. 1998 Jun;74(6):2830-9 PMID: 9635737
  19. The three-dimensional architecture of chromatin in situ: electron tomography reveals fibers composed of a continuously variable zig-zag nucleosomal ribbon.
    J Cell Biol. 1994 Apr;125(1):1-10 PMID: 8138564
  20. Elasticity and structure of eukaryote chromosomes studied by micromanipulation and micropipette aspiration.
    J Cell Biol. 1997 Oct 6;139(1):1-12 PMID: 9314524
  21. Probing the relation between force--lifetime--and chemistry in single molecular bonds.
    Annu Rev Biophys Biomol Struct. 2001;30:105-28 PMID: 11340054
  22. Chromatin fiber structure: morphology, molecular determinants, structural transitions.
    Biophys J. 1998 May;74(5):2554-66 PMID: 9591681
  23. Twisting and stretching single DNA molecules.
    Prog Biophys Mol Biol. 2000;74(1-2):115-40 PMID: 11106809
  24. DNA binding within the nucleosome core.
    Curr Opin Struct Biol. 1998 Feb;8(1):33-40 PMID: 9519294
  25. Dynamic strength of molecular adhesion bonds.
    Biophys J. 1997 Apr;72 (4):1541-55 PMID: 9083660
  26. Automated electron microscope tomography of frozen-hydrated chromatin: the irregular three-dimensional zigzag architecture persists in compact, isolated fibers.
    J Struct Biol. 1997 Dec;120(3):353-62 PMID: 9441938
  27. Ionic effects on the elasticity of single DNA molecules.
    Proc Natl Acad Sci U S A. 1997 Jun 10;94(12):6185-90 PMID: 9177192
  28. Thermodynamics of DNA interactions from single molecule stretching experiments.
    Acc Chem Res. 2002 Mar;35(3):159-66 PMID: 11900519
  29. Entropic elasticity of lambda-phage DNA.
    Science. 1994 Sep 9;265(5178):1599-600 PMID: 8079175
  30. Strength of a weak bond connecting flexible polymer chains.
    Biophys J. 1999 May;76(5):2439-47 PMID: 10233061
  31. Three-dimensional structure of extended chromatin fibers as revealed by tapping-mode scanning force microscopy.
    Proc Natl Acad Sci U S A. 1994 Nov 22;91(24):11621-5 PMID: 7972114
  32. Removal of DNA-bound proteins by DNA twisting.
    Phys Rev E Stat Nonlin Soft Matter Phys. 2001 Dec;64(6 Pt 1):061909 PMID: 11736212
  33. Energy landscapes of biomolecular adhesion and receptor anchoring at interfaces explored with dynamic force spectroscopy.
    Faraday Discuss. 1998;(111):1-16 PMID: 10822596
  34. Visualization and analysis of chromatin by scanning force microscopy.
    Methods. 1997 May;12(1):73-83 PMID: 9169197
  35. Alteration of nucleosome structure as a mechanism of transcriptional regulation.
    Annu Rev Biochem. 1998;67:545-79 PMID: 9759497
  36. Force and velocity measured for single molecules of RNA polymerase.
    Science. 1998 Oct 30;282(5390):902-7 PMID: 9794753
  37. Twenty-five years of the nucleosome, fundamental particle of the eukaryote chromosome.
    Cell. 1999 Aug 6;98(3):285-94 PMID: 10458604
  38. Unwinding of chromatin by the SV40 large T antigen DNA helicase.
    EMBO J. 1995 Jul 3;14(13):3215-25 PMID: 7621834
  39. Supercoiling of the DNA template during transcription.
    Proc Natl Acad Sci U S A. 1987 Oct;84(20):7024-7 PMID: 2823250
  40. Force-induced melting of a short DNA double helix.
    Eur Biophys J. 2001;30(1):53-62 PMID: 11372533
  41. DNA at the entry-exit of the nucleosome observed by cryoelectron microscopy.
    J Struct Biol. 1995 May-Jun;114(3):177-83 PMID: 7662486
  42. Energy landscapes of receptor-ligand bonds explored with dynamic force spectroscopy.
    Nature. 1999 Jan 7;397(6714):50-3 PMID: 9892352
  43. Solenoidal model for superstructure in chromatin.
    Proc Natl Acad Sci U S A. 1976 Jun;73(6):1897-901 PMID: 1064861
  44. Structure, dynamics, and function of chromatin in vitro.
    Annu Rev Biophys Biomol Struct. 1998;27:285-327 PMID: 9646870
  45. Stretching DNA with optical tweezers.
    Biophys J. 1997 Mar;72(3):1335-46 PMID: 9138579
  46. Chromatin conformation and salt-induced compaction: three-dimensional structural information from cryoelectron microscopy.
    J Cell Biol. 1995 Dec;131(6 Pt 1):1365-76 PMID: 8522597
  47. Recognition and silencing of repeated DNA.
    Annu Rev Genet. 2000;34:187-204 PMID: 11092826
  48. DNA: an extensible molecule.
    Science. 1996 Feb 9;271(5250):792-4 PMID: 8628993
  49. Nucleosomes, linker DNA, and linker histone form a unique structural motif that directs the higher-order folding and compaction of chromatin.
    Proc Natl Acad Sci U S A. 1998 Nov 24;95(24):14173-8 PMID: 9826673
  50. Direct observation of DNA rotation during transcription by Escherichia coli RNA polymerase.
    Nature. 2001 Jan 4;409(6816):113-5 PMID: 11343125
  51. The nucleosome core particle: does it have structural and physiologic relevance?
    Bioessays. 1999 Sep;21(9):776-80 PMID: 10462418
  52. Generation of superhelical torsion by ATP-dependent chromatin remodeling activities.
    Cell. 2000 Dec 22;103(7):1133-42 PMID: 11163188
  53. Mechanical unfolding intermediates in titin modules.
    Nature. 1999 Nov 4;402(6757):100-3 PMID: 10573426
  54. Pulling a single chromatin fiber reveals the forces that maintain its higher-order structure.
    Proc Natl Acad Sci U S A. 2000 Jan 4;97(1):127-32 PMID: 10618382
  55. Probing chromosome structure with dynamic force relaxation.
    Phys Rev Lett. 2001 Jan 8;86(2):360-3 PMID: 11177831
  56. Pulling chromatin fibers: computer simulations of direct physical micromanipulations.
    J Mol Biol. 2000 Jan 7;295(1):29-40 PMID: 10623506
  57. Linker DNA accessibility in chromatin fibers of different conformations: a reevaluation.
    Proc Natl Acad Sci U S A. 1994 Jun 7;91(12):5277-80 PMID: 8202481
Article Info
Journal
Journal of muscle research and cell motility
Abbr.
J Muscle Res Cell Motil
ISSN
0142-4319
DOI
10.1023/a:1023450204528
Email
[email protected]
Published
2002-00-00
Pages
397-407
Language
English
Region
Netherlands
NLM ID
8006298
Subset
IM
External Links
PubMed source DOI: 10.1023/a:1023450204528 View journal details
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