ArticleNucleic acids research2016
The structure and intermolecular forces of DNA condensates.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed, 88 citations in OpenAlex.
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- Efficacy of Plasmid DNA Delivery into Mice by Intradermal Injections Alone and Facilitated by Sonoporation or Electroporation.Vaccines · 2026Article
- Helical correlations in curved DNA condensates.Nucleic acids research · 2025Article
- Article
- Impact of Divalent Cations on In-Layer Positional Order of DNA-Based Liquid Crystals: Implications for DNA Condensation.Biomacromolecules · 2024Article
- Sequence-Dependent Orientational Coupling and Electrostatic Attraction in Cation-Mediated DNA-DNA Interactions.Journal of chemical theory and computation · 2023Article
- Experimental detection of conformational transitions between forms of DNA: problems and prospects.Biophysical reviews · 2023Review
- Role of DNA-DNA sliding friction and nonequilibrium dynamics in viral genome ejection and packaging.Nucleic acids research · 2023Article
- All-Atom Molecular Dynamics Simulations of Membrane-Spanning DNA Origami Nanopores.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Caging Polycations: Effect of Increasing Confinement on the Modes of Interaction of SpermidineFrontiers in chemistry · 2022Article
- Local structure of DNA toroids reveals curvature-dependent intermolecular forces.Nucleic acids research · 2021Article
- Structure-guided DNA-DNA attraction mediated by divalent cations.Nucleic acids research · 2020Article
- Additive Modulation of DNA-DNA Interactions by Interstitial Ions.Biophysical journal · 2020Article
- Multivalent counterions induced attraction between DNA polyelectrolytes.RSC advances · 2020Article
- DNA Condensation with a Boron-Containing Cationic Peptide for Modeling Boron Neutron Capture Therapy.Radiation physics and chemistry (Oxford, England : 1993) · 2020Article
- The promotion and suppression of DNA charge neutralization by the cosolute ectoine.RSC advances · 2019Article
- Specific effects of antitumor active norspermidine on the structure and function of DNA.Scientific reports · 2019Article
- Biodegradable Polymers for Gene Delivery.Molecules (Basel, Switzerland) · 2019Review
- Article
- Counterion-Dependent Mechanisms of DNA Origami Nanostructure Stabilization Revealed by Atomistic Molecular Simulation.ACS nano · 2019Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Spontaneous assembly of DNA molecules into compact structures is ubiquitous in biological systems. Experiment has shown that polycations can turn electrostatic self-repulsion of DNA into attraction, yet the physical mechanism of DNA condensation has remained elusive. Here, we report the results of atomistic molecular dynamics simulations that elucidated the microscopic structure of dense DNA assemblies and the physics of interactions that makes such assemblies possible. Reproducing the setup of the DNA condensation experiments, we measured the internal pressure of DNA arrays as a function of the DNA-DNA distance, showing a quantitative agreement between the results of our simulations and the experimental data. Analysis of the MD trajectories determined the DNA-DNA force in a DNA condensate to be pairwise, the DNA condensation to be driven by electrostatics of polycations and not hydration, and the concentration of bridging cations, not adsorbed cations, to determine the magnitude and the sign of the DNA-DNA force. Finally, our simulations quantitatively characterized the orientational correlations of DNA in DNA arrays as well as diffusive motion of DNA and cations.
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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.