Combining 3D single molecule localization strategies for reproducible bioimaging
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Updated: Jan 25, 2026

Mapping Absolute DNA Density in Cell Nuclei using Single-molecule Localization Microscopy
Published on: November 11, 2025
Clément Cabriel1, Nicolas Bourg2, Pierre Jouchet2
1Institut des Sciences Moléculaires d'Orsay, CNRS, Univ. Paris-Sud, Université Paris-Saclay, bâtiment 520, rue André Rivière, 91405, Orsay Cedex, France. clement.cabriel@u-psud.fr.
Abstract:
Here, we present a 3D localization-based super-resolution technique providing a slowly varying localization precision over a 1 μm range with precisions down to 15 nm. The axial localization is performed through a combination of point spread function (PSF) shaping and supercritical angle fluorescence (SAF), which yields absolute axial information. Using a dual-view scheme, the axial detection is decoupled from the lateral detection and optimized independently to provide a weakly anisotropic 3D resolution over the imaging range. This method can be readily implemented on most homemade PSF shaping setups and provides drift-free, tilt-insensitive and achromatic results. Its insensitivity to these unavoidable experimental biases is especially adapted for multicolor 3D super-resolution microscopy, as we demonstrate by imaging cell cytoskeleton, living bacteria membranes and axon periodic submembrane scaffolds. We further illustrate the interest of the technique for biological multicolor imaging over a several-μm range by direct merging of multiple acquisitions at different depths.
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