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4 protocols using rpe65

1

Retinal Protein Extraction and Analysis

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Whole eyes without cornea and lens, dissected neural retina, or dissected posterior eyecups enriched in RPE and choroid were lysed in ice-cold HNTG lysis buffer (50 mM HEPES, pH 7.4, NaCl 150 mM, 10% glycerol, and 1% Triton X-100) supplemented with 1 mM phenylmethylsulfonyl fluoride and 1% protease inhibitor cocktail. Cleared lysates were subjected to standard SDS-PAGE, immunoblotting, and signal detection on autoradiography film using enhanced chemiluminescence (Lightning Plus; Perkin Elmer, Shelton, CT, USA). Primary antibodies were to: rhodopsin B630, blue opsin (Millipore-Sigma; #5407), red/green opsin (Millipore-Sigma; #5405), GAPDH (Genetex, Irvine, CA, USA; #GTX100118), gal-3, MerTK (R&D Systems; #AF591), RPE65 (Genetex; #GTX103472), and anti-PSD95 (Cell Signaling, Danvers, MA, USA; #S4507). Image-J software was used to quantify relative densities of bands.
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2

Immunoblotting Analysis of Retinal Proteins

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Primary antibodies against the following proteins were used: PlxnB1, RhoA and β5 Integrin (Santa Cruz Biotechnology, Santa Cruz, CA), Rac 1 (BD Biosciences, San Jose, CA), Sema4D (Millipore, Billerica, MA, and Bio-Techne, Minneapolis, MN), RPE65 (Genetex, Irvine, CA), porin, AKT and phospho-AKT (ser473) (Cell Signaling, Danvers, MA), MerTK and MFG-E8 (Bio-Techne), rhodopsin clone B6-30 [21 (link)], PSD 95 (EMD Millipore), β-actin (Sigma), and ZO-1 (Thermofisher).
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3

Retinal Protein Expression Analysis

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Posterior eyecups containing RPE and choroid (R/Ch) and neural retinas (NR) were lysed in 50 mM HEPES, pH 7.4, 150 mM NaCl, 10 % glycerol, 1.5 mM MgCl2, 1 % Triton X-100 supplemented with protease and phosphatase inhibitor cocktails. Lysates were analyzed by SDS-PAGE and immunoblotting for LAMP-1, PSD95 (both Cell Signaling), and RPE65 (Genetex). Bands were quantified by densitometry using GE ImageQuant TL 7.0.
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4

Quantifying Subretinal Fibrosis Volume

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Immunofluorescence assays were performed with retinal sections, RPE–choroid flatmounts, or primary RPE cells in 24-well slide chambers. Primary antibodies were used for staining against E-cadherin (3195, Cell Signaling Technology), N-cadherin (13116, Cell Signaling Technology), α-SMA (ab5694, Abcam), RPE65 (GTX13826, GeneTex), METTL3 (ab195352, Abcam), IB4 (DL-1207, Vector Laboratories), F4/80 (MCA497, Abd Serotec), Alexa FluorTM 488 Phalloidin (A12379, Thermo Fisher Scientific), Ki67 (ab15580, Abcam), HMGA2 (8179, Cell Signaling Technology), and GFP (ab290, Abcam).
To evaluate the volume of subretinal fibrosis, RPE–choroid flatmounts were stained with the antibody against Fibronectin (AB2033, Merck Millipore) on Day 28 after laser injury. The volume analysis was performed as previously described (Ye et al., 2015 (link)). Fibronectin was visualized using a confocal laser scanning microscope (TCS SP8; Leica Biosystems). Horizontal optical sections were taken at 1 µm intervals from the top to the bottom of the fibrosis lesion. The area of Fibronectin-positive lesion on each layer was measured using ImageJ software. The total area of each horizontal section was used as an index of Fibronectin volume. All laser spots in each eye were measured.
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