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Related Experiment Video

Updated: Jun 1, 2026

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Engineering mononucleosomes for single-pair FRET experiments.

Wiepke J A Koopmans1, Ruth Buning, John van Noort

  • 1Leiden Institute of Physics, Leiden Universiteit, Leiden, The Netherlands.

Methods in Molecular Biology (Clifton, N.J.)
|June 16, 2011
PubMed
Summary
This summary is machine-generated.

Researchers used DNA nanotechnology to study nucleosome structure and dynamics. Fluorescently labeled nucleosomes revealed DNA breathing dynamics, offering insights into gene regulation mechanisms.

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Last Updated: Jun 1, 2026

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Published on: April 11, 2017

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Probing The Structure And Dynamics Of Nucleosomes Using Atomic Force Microscopy Imaging
09:52

Probing The Structure And Dynamics Of Nucleosomes Using Atomic Force Microscopy Imaging

Published on: January 31, 2019

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Biophysics

Background:

  • DNA nanotechnology utilizes DNA as a structural material, influencing information accessibility.
  • Nucleosomes, the fundamental units of DNA compaction in eukaryotes, regulate gene expression by controlling DNA accessibility.
  • Understanding nucleosome conformational changes is crucial for deciphering DNA accessibility regulation.

Purpose of the Study:

  • To investigate the molecular mechanisms of nucleosome conformational changes.
  • To study nucleosome structure and dynamics in detail using advanced microscopy techniques.

Main Methods:

  • Designed and constructed custom nucleosomes with strategically placed fluorescent labels.
  • Employed single-pair Förster Resonance Energy Transfer (spFRET) microscopy for molecular-level analysis.
  • Utilized widefield total internal reflection fluorescence (TIRF) microscopy for immobilized nucleosomes.
  • Applied confocal fluorescence microscopy for characterizing freely diffusing nucleosome populations.

Main Results:

  • Observed and quantified DNA breathing dynamics in individual nucleosomes using TIRF microscopy.
  • Characterized nucleosome conformational distributions rapidly using confocal microscopy on freely diffusing molecules.

Conclusions:

  • Demonstrated the utility of fluorescently labeled nucleosomes and spFRET for studying DNA dynamics.
  • Provided molecular insights into how nucleosome structure influences DNA accessibility and gene regulation.