Spectrally red-shifted fluorescent fiducial markers for optimal drift correction in localization microscopy

Abstract

Precise drift correction is crucial for every single-molecule localization-based microscopy experiment. We evaluate commonly used fiducial markers such as gold nanoparticles, TetraSpeck microspheres, FluoSpheres and nanodiamonds. We introduce spectrally red-shifted fluorescent particles as optimal fiducial markers. Our concept exploits exciting the fluorescent particles at low efficiency far away from their absorption maximum. A fluorescent particle that is covered by a multitude of dyes will nevertheless yield a bright fiducial signal. This represents a simple yet powerful approach to alleviate common problems in drift corrections caused by photobleaching, sudden signal intensity changes or saturation effects of fiducial markers. We adapt our approach for PALM, sptPALM and DNA-PAINT experiments and demonstrate its simple use for varying imaging conditions in different spectral channels.