ArticleBiophysical journal2016
Nanomechanics of Fluorescent DNA Dyes on DNA Investigated by Magnetic Tweezers.
Article in Biophysical journal, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed, 29 citations in OpenAlex.
- From single DNA molecule to nanoparticle formation: mechanistic basis for monocationic aromatic drug-induced DNA frameworks.Journal of nanobiotechnology · 2026Article
- Azure A Dye Interaction with Double-Stranded DNA Can Be Modulated by the Ionic Strength: Choosing the Binding Mode.ACS omega · 2026Article
- Effects of MgBiochemistry and biophysics reports · 2025Article
- DNA binding to small anionic ligands: the case of Orange G dye.European biophysics journal : EBJ · 2025Article
- Role of DNA-DNA sliding friction and nonequilibrium dynamics in viral genome ejection and packaging.Nucleic acids research · 2023Article
- Modulating the chemo-mechanical response of structured DNA assemblies through binding molecules.Nucleic acids research · 2021Article
- Two Intercalation Mechanisms of Oxazole Yellow Dimer (YOYO-1) into DNA.Molecules (Basel, Switzerland) · 2021Article
- Molecular structure, DNA binding mode, photophysical properties and recommendations for use of SYBR Gold.Nucleic acids research · 2021Article
- Anticooperative Binding Governs the Mechanics of Ethidium-Complexed DNA.Biophysical journal · 2019Article
- Binding mechanism of anti-cancer chemotherapeutic drug mitoxantrone to DNA characterized by magnetic tweezers.Journal of nanobiotechnology · 2018Article
- Tether-Length Dependence of Bias in Equilibrium Free-Energy Estimates for Surface-to-Molecule Unbinding Experiments.Langmuir : the ACS journal of surfaces and colloids · 2018Article
- Binding mechanism of PicoGreen to DNA characterized by magnetic tweezers and fluorescence spectroscopy.European biophysics journal : EBJ · 2017Article
Corrections and comments
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Fluorescent DNA dyes are broadly used in many biotechnological applications for detecting and imaging DNA in cells and gels. Their binding alters the structural and nanomechanical properties of DNA and affects the biological processes that are associated with it. Although interaction modes like intercalation and minor groove binding already have been identified, associated mechanic effects like local elongation, unwinding, and softening of the DNA often remain in question. We used magnetic tweezers to quantitatively investigate the impact of three DNA-binding dyes (YOYO-1, DAPI, and DRAQ5) in a concentration-dependent manner. By extending and overwinding individual, torsionally constrained, nick-free dsDNA molecules, we measured the contour lengths and molecular forces that allow estimation of thermodynamic and nanomechanical binding parameters. Whereas for YOYO-1 and DAPI the binding mechanisms could be assigned to bis-intercalation and minor groove binding, respectively, DRAQ5 exhibited both binding modes in a concentration-dependent manner.
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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.