Using polarization sensitive SMLM to infer the interaction strength of dye-plasmonic nanosphere systems

Single-molecule microscopy is an effective tool for the characterization of fluorophore–plasmonic structure interaction. However, sophisticated evaluation is required as specific information is hidden in the emission. Here, we theoretically and experimentally investigated the emission polarization of rotationally mobile fluorophores near plasmonic Au–Ag alloy nanospheres. We developed an elaborate calculation based on the Mie theory, which considers the rotational mobility of dyes near spherical plasmonic nanoparticles of any size. Furthermore, we have created a simplified model that describes the emission’s degree of polarization within 10% accuracy in the case of small nanoparticles, when dipole approximation is valid. Our results indicate the close relation of the polarization degree of the emission, which can reach up to be $\sim 0.8$ in the resonant case, to fluorescence scattering. DNA-PAINT single-molecule localization microscopy experiments conducted using AF488 and Atto647N dyes revealed that the measured polarization degree distribution followed the tendency predicted by calculations.