ArticleMolecules (Basel, Switzerland)2018
Photo-Induced Depletion of Binding Sites in DNA-PAINT Microscopy.
Article in Molecules (Basel, Switzerland), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed, 64 citations in OpenAlex.
- Unraveling single-molecule reactions via multiplexed in-situ DNA sequencing.Nature communications · 2026Article
- High-speed multiplexed DNA-PAINT imaging of nuclear organization using an expanded sequence repertoire.Nature communications · 2026Article
- Quantitative Stimulated Emission Depletion (STED) Microscopy with DNA-Fluorophore Labels.ACS nano · 2026Article
- Utilizing the predictable binding kinetics of DNA-PAINT to denoise super-resolution images.Nature communications · 2026Article
- A Simple, Ultrastable, and Cost-Effective Oxygen-Scavenging System for Long-Term DNA-PAINT Imaging.Small (Weinheim an der Bergstrasse, Germany) · 2026Article
- Multiplexed single-molecule characterization at the library scale.Nature protocols · 2026Review
- Optimizing Effective Labeling Efficiency in MINFLUX 3D DNA-PAINT Microscopy by Maximizing Marker Detection Probability.ACS photonics · 2026Article
- Super-resolution imaging in whole cells and tissues via DNA-PAINT on a spinning disk confocal with optical photon reassignment.Nature communications · 2025Article
- Bayesian Inference of Binding Kinetics from Fluorescence Time Series.The journal of physical chemistry. B · 2025Article
- Minimally Invasive DNA-Mediated Photostabilization for Extended Single-Molecule and Super-resolution Imaging.bioRxiv : the preprint server for biology · 2025Article
- Reduced Non-Specific Binding of Super-Resolution DNA-PAINT Markers by Shielded DNA-PAINT Labeling Protocols.Small (Weinheim an der Bergstrasse, Germany) · 2024Article
- The DNA-PAINT palette: a comprehensive performance analysis of fluorescent dyes.Nature methods · 2024Article
- Bleaching-resistant, Near-continuous Single-molecule Fluorescence and FRET Based on Fluorogenic and Transient DNA Binding.Chemphyschem : a European journal of chemical physics and physical chemistry · 2023Article
- Engineered fast-dissociating antibody fragments for multiplexed super-resolution microscopy.Cell reports methods · 2022Article
- resPAINT: Accelerating Volumetric Super-Resolution Localisation Microscopy by Active Control of Probe Emission.Angewandte Chemie (Weinheim an der Bergstrasse, Germany) · 2022Article
- resPAINT: Accelerating Volumetric Super-Resolution Localisation Microscopy by Active Control of Probe Emission.Angewandte Chemie (International ed. in English) · 2022Article
- Fast DNA-PAINT imaging using a deep neural network.Nature communications · 2022Article
- An economic, square-shaped flat-field illumination module for TIRF-based super-resolution microscopy.Biophysical reports · 2022Article
- A single-molecule localization microscopy method for tissues reveals nonrandom nuclear pore distribution in Drosophila.Journal of cell science · 2021Article
- Calibration-free counting of low molecular copy numbers in single DNA-PAINT localization clusters.Biophysical reports · 2021Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
The limited photon budget of fluorescent dyes is the main limitation for localization precision in localization-based super-resolution microscopy. Points accumulation for imaging in nanoscale topography (PAINT)-based techniques use the reversible binding of fluorophores and can sample a single binding site multiple times, thus elegantly circumventing the photon budget limitation. With DNA-based PAINT (DNA-PAINT), resolutions down to a few nanometers have been reached on DNA-origami nanostructures. However, for long acquisition times, we find a photo-induced depletion of binding sites in DNA-PAINT microscopy that ultimately limits the quality of the rendered images. Here we systematically investigate the loss of binding sites in DNA-PAINT imaging and support the observations with measurements of DNA hybridization kinetics via surface-integrated fluorescence correlation spectroscopy (SI-FCS). We do not only show that the depletion of binding sites is clearly photo-induced, but also provide evidence that it is mainly caused by dye-induced generation of reactive oxygen species (ROS). We evaluate two possible strategies to reduce the depletion of binding sites: By addition of oxygen scavenging reagents, and by the positioning of the fluorescent dye at a larger distance from the binding site.
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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.