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3 protocols using af6348

1

Protein Expression Analysis in Cells

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Cells and tissues were lysed by RIPA buffer containing protease and phosphatase inhibitors and PMSF. The proteins were separated by 10% SDS-PAGE and transferred onto polyvinylidene fluoride (PVDF) membranes (Millipore, Darmstadt, Germany). After blocking for 1.5 h in 5% skimmed milk diluted by 1 × PBS-T (0.5% Tween−20), the membranes were incubated overnight at 4°C with the following primary antibodies: anti-CX43 (ab11370, Abcam, MA, USA), anti-CD133 (abs131197, Absin, Shanghai, China), anti-CD44 (DF6392, Affinity Biosciences, OH, USA), anti-Nanog (AF5388, Affinity Biosciences), anti-SOX2 (ab92494, Abcam), anti-cleaved caspase-3 (AF7022, Affinity Biosciences), anti-cleaved caspase-9 (AF5240, Affinity Biosciences), anti-caspase-3 (AF6311, Affinity Biosciences) or anti-caspase-9 (AF6348, Affinity Biosciences). Anti-GAPDH (Proteintech Group, Wuhan, China) was used as protein-loading controls. Blots were incubated with HRP-conjugated secondary antibodies for 1 h at room temperature and visualized with ECL Western Blotting Substrate (ThermoFisher Scientific, IL, USA).
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2

Mitochondrial Dysfunction and Apoptosis in Retina

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The retinas were collected at 1, 3, 5, and 7 days after the intravitreal injection of mtDNA or control solution. The retinas processed with the Mitochondria Isolation Kit for Tissue as previously described [4 (link)] and the proteins collected from the supernatant and sediment were used for the detection of cytochrome c. Western blotting was performed according to methods described in previous study [4 (link)]. The following primary antibodies were used: rabbit anti-BAX (#2772, Cell Signaling Technology), rabbit anti-BAK (#12105, Cell Signaling Technology), rabbit anti-caspase 9 (AF6348, Affinity Biosciences Ltd), rabbit anti-cleaved caspase 9 (AF5240, affbiotech), rabbit anti-caspase 3 (ab44976, Abcam), rabbit anti-cleaved caspase 3 (ab49822, Abcam), anti-β-actin (ab8227, Abcam), anti-cGAS (ab179785, Abcam), rabbit anti-STING (D1V5L) (#50,494, Cell Signaling Technology), rabbit anti-TBK1/NAK (D1B4) (#3504, Cell Signaling Technology), rabbit anti-phospho-TBK1/NAK (Ser172) (D52C2) XP® (#5483, Cell Signaling Technology), rabbit anti-IRF3 (D83B9) (#4302, Cell Signaling Technology), rabbit anti-phospho-IRF3 (Ser396) (D6O1M) (#29047, Cell Signaling Technology), anti-interferon β (ab140211, Abcam), rabbit anti-cytochrome c (10993-1-AP, Proteintech), and rabbit anti-VDAC1 (ab154856; Abcam). Three eyes from each group were tested.
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3

Hippocampal Protein Extraction and Analysis

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The hippocampus was carefully removed before extracting the total protein on ice. After adding 360 μL RIPA and 3.6 μL PMSP solution (both from Biyuntian Technologic Inc., China), the homogenate was centrifuged at 12,000 rpm for 10 min. The supernatant was collected and the concentration of protein was determined using a BCA protein assay kit (Biyuntian Technologic Inc.). Equal amounts of protein were separated by SDS-polyacrylamide gels and then transferred onto PVDF membranes (Solarbio Science & Technology Co., Ltd., China). The membranes containing P-Akt were blocked in 5% bovine serum albumin (BSA), whereas the others were blocked with 5% non-fat milk for 2 h at room temperature and then incubated overnight at 4 °C with the following primary antibodies: anti-p-Akt (1:1000, #AF0016; Affinity Bioscience, China), anti-Akt (1:1000, #AF6261; Affinity Bioscience), anti-caspase-9 (1:1000, #AF6348; Affinity Bioscience) and anti-β-actin (1:1000, #TA-09;Zhongshan Biotech, China). The membranes were washed with TBST (4 × 8 min) and incubated for 2 h with HRP-conjugated secondary antibodies (#ZB2301; Zhongshan Biotech): goat anti-mouse IgG (1:5000) and goat anti-rabbit IgG (1:8000). The blots were developed using an enhanced chemiluminescence kit and exposed to X-ray film. The protein expression levels were analyzed using Image J software (NIH, Bethesda, MD, USA).
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