Visualizing ion channels in lipid nanodomains using live-cell fluorescence lifetime imaging.

Abstract

Ion channels function in a lipid-membrane nano-environment where the lipid composition and membrane compartmentalization can undergo rapid changes. How transmembrane potential activates voltage-gated ion channels differently in liquid-ordered, cholesterol-rich (Lo, or called “lipid raft”) versus in liquid-disordered, cholesterol-poor membrane (Ld) nanodomains remains less explored in intact cells. Using phasor plot fluorescence-lifetime imaging microscopy (phasor FLIM), combined with Förster resonance energy transfer (FRET) between donor- and acceptor-fluorophores conjugated to cholera toxin subunit B (CTxB) or to short lipidated peptides that specifically recognize Lo and Ld domains, we visualized the membrane domains in different cells, including Xenopus oocytes, cultured primary hepatocytes and dorsal root ganglion (DRG) sensory neurons. We postulate that a large percentage of the plasma membrane could be Lo domain. Extracting cholesterols using β-cyclodextrin was able to decrease the FRET efficiency indicating a reduced size of Lo domains. Interestingly, the measured apparent FRET was low in DRG neurons, consistent with the unique lipid organization of neuronal membranes, in comparison to other cell types. Furthermore, the localization of voltage-gated ion channels in proximity to lipid nanodomains could be examined by either FLIM-FRET or spectral FRET using these fluorescent markers. Moreover, fluorescent noncanonical amino acids (ncAAs) incorporated near the hydrophobic constriction site of voltage sensors of hyperpolarization-activated cyclic nucleotide-gated (HCN) channels showed a similar lifetime as when their free forms were dissolved in hydrophobic solvents; lifetime of the incorporated ncAAs changed upon membrane hyperpolarization. In addition, using the stop-codon suppression strategies and click chemistry via the inverse-electron demand Diels-Alder cycloaddition, a photostable dye was tagged site-specifically to the extracellular region of the HCN voltage sensor. These labeling strategies will facilitate measuring the voltage-sensor conformational dynamics of ion channels in distinct lipid nanodomains using time-resolved phasor FLIM-FRET or single-molecule FRET.