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The technical notes above contain detailed information about dyes but essentially , if you are imaging a single channel , Leica recommends using Oregon Green; but , but Alexa 488 also works well. If you want to image a second channel you will have to use a long Stokes shift dye. Leica recommends Abberior Star440SX or BD Horizon V500. Star 440SX is available conjugated to secondary antibodies but you will most likely need to use the streptavidin conjugated form V500 as it is designed for use in flow cytometers and is only available directly conjugated to antibodies against leukocyte antigens. This means your secondary will have to be conjugated to biotin.
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