Background: Flow cytometric fluorescence resonance energy transfer (FCET) is an efficient method to map associations between biomolecules because of its high sensitivity to changes in molecular distances in the range of 1-10 nm. However, the requirement for a dual-laser instrument and the need for a relatively high signal-tonoise system (i.e., high expression level of the molecules) pose limitations to a wide application of the method. Methods: Antibodies conjugated to cyanines 3 and 5 (Cy3 and Cy5) were used to label membrane proteins on the cell surface. FCET measurements were made on a widely used benchtop dual-laser flow cytometer, the FACSCalibur, by using cell-by-cell analysis of energy transfer efficiency. Results: To increase the accuracy of FCET measurements, we applied a long wavelength donor-acceptor pair, Cy3 and Cy5, which beneficially affected the signal-to-noise ratio in comparison with the classic pair of fluorescein and rhodamine. A new algorithm for cell-by-cell correction of autofluorescence further improved the sensitivity of the technique; cell subpopulations with only slightly different FCET efficiencies could be identified. The new FCET technique was tested on various direct and indirect immunofluorescent labeling strategies. The highest FCET values could be measured when applying direct labeling on both (donor and acceptor) sides. Upon increasing the complexity of the labeling scheme by introducing secondary antibodies, we detected a decrease in the energy transfer efficiency.
Conclusions:We developed a new FCET protocol by applying long wavelength excitation and detection of fluorescence and by refining autofluorescence correction. The increased accuracy of the new method makes cells with low receptor expression amenable to FCET investigation, and the new approach can be implemented easily on a commercially available dual-laser flow cytometer, such as a FACSCalibur. Cytometry 48:124 -135, 2002. © 2002 Key terms: autofluorescence; flow cytometric resonance energy transfer (FCET); indirect immunofluorescence; cyanine 3 and 5 donor-acceptor pair; CD45 isoforms; HLA class I molecules Protein-protein interactions are critical to most biological processes, extending from the formation of cellular macromolecular structures and enzymatic complexes to the regulation of signal transduction pathways. The cellular machinery is completely dependent on the exchange of signals, ions, and nutrients between the extracellular environment and the interior of cells. Preexisting and ligand-induced associations of membrane proteins are crucial to such processes. Although generally applied biochemical and immunological approaches (i.e., cocapping, coprecipitation, chemical cross-linking) have provided valuable information about the topography of cell surface protein interactions, such techniques have several disadvantages. For example, the necessary application of extraction or isolation procedures prevent the investigation of proteins in their natural environment and may, on the Cytometry 48:124 -135 (2002)...