ArticleNature communications2015
The impact of DNA intercalators on DNA and DNA-processing enzymes elucidated through force-dependent binding kinetics.
Article in Nature communications, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 85 papers.
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Who cites it
85 citing papers in PubMed, 211 citations in OpenAlex.
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- Ensemble molecular dynamics for predicting binding energies of DNA intercalators.RSC advances · 2026Article
- Search for Specific Inhibitors Targeting Type IA Topoisomerases.Journal of molecular biology · 2026Review
- Development and optimization of an easy to interpret loop-mediated isothermal amplification (LAMP) assay for the identification of bacterial pathogens causing childhood pneumonia.Frontiers in microbiology · 2026Article
- Artificial Intelligence and Machine Learning-Based Approaches for Genetic Damage Prediction.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Cas9-Leveraged Single-Molecule Characterization of Sparse Plasmid Vectors in Heterogenous DNA Samples.Applied biochemistry and biotechnology · 2026Article
- Photophysical and DNA-Binding Properties of Phenoxazine-Based Push-Pull Type Organic Chromophores: Insights From DFT, Molecular Docking, and Optical Studies.ChemistryOpen · 2026Article
- Naphthalimide-organometallic hybrids as multi-targeted anticancer and luminescent cellular imaging agents.RSC medicinal chemistry · 2025Review
- Replisome passage through the cohesin ring.Cell · 2025Article
- Metal complexes containing vitamin B6-based scaffold as potential DNA/BSA-binding agents inducing apoptosis in hepatocarcinoma (HepG2) cells.Molecular diversity · 2025Article
- Effect of Molecular Weight of Fluorescent Dyes on DNA Separation by Capillary Electrophoresis.Journal of fluorescence · 2025Article
- Single-molecule measurements of double-stranded DNA condensation.Biophysical journal · 2025Review
- Binuclear ruthenium complex linker length tunes DNA threading intercalation kinetics.Biophysical journal · 2025Article
- Propidium Monoazide is Unreliable for Quantitative Live-Dead Molecular Assays.Analytical chemistry · 2025Article
- Recent Developments in the Synthesis of Benzothiazoles and their Anti-cancer Mechanistic Discoveries.Current pharmaceutical design · 2025Review
- Single-molecule orientation-localization microscopy: Applications and approaches.Quarterly reviews of biophysics · 2024Review
25 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA intercalators are widely used as fluorescent probes to visualize DNA and DNA transactions in vivo and in vitro. It is well known that they perturb DNA structure and stability, which can in turn influence DNA-processing by proteins. Here we elucidate this perturbation by combining single-dye fluorescence microscopy with force spectroscopy and measuring the kinetics of DNA intercalation by the mono- and bis-intercalating cyanine dyes SYTOX Orange, SYTOX Green, SYBR Gold, YO-PRO-1, YOYO-1 and POPO-3. We show that their DNA-binding affinity is mainly governed by a strongly tension-dependent dissociation rate. These rates can be tuned over a range of seven orders of magnitude by changing DNA tension, intercalating species and ionic strength. We show that optimizing these rates minimizes the impact of intercalators on strand separation and enzymatic activity. These new insights provide handles for the improved use of intercalators as DNA probes with minimal perturbation and maximal efficacy.
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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.