ArticleJournal of fluorescence2009
Nucleosome dynamics as studied by single-pair fluorescence resonance energy transfer: a reevaluation.
Article in Journal of fluorescence, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Nucleosomal DNA Dynamics Mediate Oct4 Pioneer Factor Binding.Biophysical journal · 2020Article
- Article
- Coupling between Histone Conformations and DNA Geometry in Nucleosomes on a Microsecond Timescale: Atomistic Insights into Nucleosome Functions.Journal of molecular biology · 2016Article
- Recent insights from in vitro single-molecule studies into nucleosome structure and dynamics.Biophysical reviews · 2016Review
- Nucleosome Core Particle Disassembly and Assembly Kinetics Studied Using Single-Molecule Fluorescence.Biophysical journal · 2015Article
- Nucleosomes undergo slow spontaneous gaping.Nucleic acids research · 2015Article
- Single molecule fluorescence methodologies for investigating transcription factor binding kinetics to nucleosomes and DNA.Methods (San Diego, Calif.) · 2014Article
- Contribution of fluorophore dynamics and solvation to resonant energy transfer in protein-DNA complexes: a molecular-dynamics study.Biophysical journal · 2014Article
- Revealing transient structures of nucleosomes as DNA unwinds.Nucleic acids research · 2014Article
- Contribution of DNA unwrapping from histone octamers to the repair of oxidatively damaged DNA in nucleosomes.DNA repair · 2013Article
- Rules of engagement for base excision repair in chromatin.Journal of cellular physiology · 2013Review
- Structural dynamics of nucleosomes at single-molecule resolution.Trends in biochemical sciences · 2012Review
- Unwrapping of nucleosomal DNA ends: a multiscale molecular dynamics study.Biophysical journal · 2012Article
- Dynamics of nucleosome invasion by DNA binding proteins.Journal of molecular biology · 2011Article
- Nucleosome accessibility governed by the dimer/tetramer interface.Nucleic acids research · 2011Article
- On the spontaneous stochastic dynamics of a single gene: complexity of the molecular interplay at the promoter.BMC systems biology · 2010Article
- Dynamics of nucleosomes revealed by time-lapse atomic force microscopy.Biochemistry · 2009Article
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Accessibility of nucleosomal DNA to protein factor binding is ensured by at least three mechanisms: post-synthetic modifications to the histones, chromatin remodeling, and spontaneous unwrapping of the DNA from the histone core. We have previously used single-pair fluorescence resonance energy transfer (spFRET) experiments to investigate long-range conformational fluctuations in nucleosomal DNA (Tomschik M, Zheng H, van Holde K, Zlatanova J, Leuba SH in Proc Natl Acad Sci USA 102(9):3278-3283, 2005). Recent work has drawn attention to a major artifact in such studies due to photoblinking of the acceptor fluorophore. We have now used formaldehyde-crosslinked nucleosomes and imaging in the presence of Trolox, an efficient triplet-state quencher that suppresses photoblinking, to reevaluate our previous conclusions. Careful analysis of the data indicates that most of the events previously characterized as nucleosome 'opening' must have corresponded to photoblinking. There is, nevertheless, evidence for the existence of infrequent, rapid opening events.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.