Benchmarking thiolate driven photoswitching of cyanine dyes

Abstract

Carbocyanines are among the best performing dyes in singlemolecule localization microscopy (SMLM), but their performance critically relies on optimized photoswitching buffers. As the chemical buffer composition controls the transitions between non-fluorescent off- and fluorescent on-states, it is ultimately linked to the maximum achievable resolution. Here, we describe a workflow for screening optimal buffer conditions for single-molecule photoswitching. This is achieved by creating an intensity gradient within the field of view using a single micro-electromechanical systems (MEMS) mirror in the excitation path of the wide-field setup. Photon budget, on-state and off-state lifetimes are studied for different concentrations of mercatoethylamine (MEA) and buffer pH values. Both of MEA concentration and buffer pH determine the amount of thiolate, which is the main requirement for carbocyanine dye photoswitching. We show that thiolate acts as a concentration bandpass filter for the maximum achievable resolution and determine a minimum thiolate concentration of [~]1 mM is necessary to facilitate SMLM measurements. We also identify a concentration bandwidth of 1-16 mM in which the photoswitching performance can be balanced between high molecular brightness and high off-time to on-time ratios. Furthermore, we monitor the performance of the popular oxygen scavenger system based on glucose and glucose oxidase over time and show simple measures to avoid acidification during prolonged measurements. Finally, the impact of buffer settings is quantitatively tested on the distribution of the glucose transporter protein 4 within the plasma membrane of adipocytes. Our work provides a general strategy for achieving optimal resolution in SMLM with relevance for the development of novel buffers and dyes.