To identify which cells expressed NADPH-diaphorase or NOS, double immunohistochemical staining using rabbit anti-nNOS antibody (BD Biosciences) paired with mouse anti-βIII tubulin (TUJ1 antibody for RGCs; Babco, Evanston, IL) anti-CD68 (ED1 antibody for macrophages; Serotec, Oxford, UK), or anti-parvalbumin antibodies (antibody for amacrine cells; Swant, Bellinzona, Switzerland) was performed in retinal sections and wholemounts after saline, CNTF, and BDNF treatments (n = 3 each group). For each retina in this part of the study, half the retina was cryosectioned and the other half wholemounted. Briefly, retinal sections or wholemounts were washed three times in PBS andblocked in 10% normal goat serum (NGS) and 0.2% Triton for 1 hour. Primary rabbit antibody against nNOS (1:500) together with mouse TUJ1 (1:400), ED1 (1:500), or anti-parvalbumin (1:400) antibodies were added into the blocking solution and incubated overnight at 4°C. After three 10-minute washes in PBS, retinal sections were incubated with fluorescein-5-isothiocyanate (FITC)–conjugated anti-mouse IgG (1:400; ICN, Aurora, OH) and Cy3-conjugated goat anti-rabbit (1:500; Jackson ImmunoResearch Laboratories, West Grove, PA) secondary antibodies at room temperature for 1 hour. Specificity of immunostaining was assessed by comparing with the negative (no primary antibody) and positive (rat pituitary gland) controls as instructed in the antibody information sheet.
To further confirm whether RGCs were NADPH-diaphorase+, double-labeling approaches using fluorescent gold (FG; Fluorogold; Fluorochrome, Englewood, CO) for retrograde labeling of RGCs and NADPH-diaphorase staining RGCs were also performed. Both FG and GB were initially used, but FG labeling was retained well after NADPH-diaphorase histochemistry procedure, thus FG was chosen for this part of the study. RGCs were retrogradely prelabeled by applying 4% FG in both superior colliculi of two animals, and the retinal wholemounts were later stained for NADPH diaphorase. Examination of the staining was performed under normal light (for NADPH) and fluorescent light (for FG).