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5 protocols using protease and phosphatase inhibitors

1

Western Blot Analysis of Oxidative Stress Markers

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Homogenized lung tissue or cell lysates were supplemented with phosphatase and protease inhibitors (both from Gold Biotechnology, Olivette, MO). Western blotting was performed as we previously described26 (link). Briefly, 8–16% polyacrylamide gels (Invitrogen Corp, Carlsbad, CA) were used to separate the proteins. We used GAPDH (Abcam, Cambridge, MA), 4-HNE (Percipio Biosciences, Burlingame, CA), Cys106-oxidized DJ-1 (HCA024, Bio-Rad, Hercules, CA), β-actin (Sigma, St. Louis, MO), lamin-B1, Tom 20, DJ-1, His-tag, VDAC1, IKBα, COX IV and PDI (all were purchased from Santa Cruz Biotechnology, Dallas, TX). Horseradish peroxidase (HRP)-conjugated AffiniPure donkey IgG were obtained from Jackson ImmunoResearch (West Grove, PA). The blots were then developed using an enhanced chemiluminescence western blotting kit according to the manufacturer’s instructions (Amersham Pharmacia Biotech, Piscataway, NJ). Images were quantitated using ImageJ software.
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2

Western Blot Analysis of DNA Repair Proteins

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Cells were collected by trypsinization and lysed in RIPA lysis buffer (150 mM NaCl, 1.0% IGEPAL CA-630, 0.5% sodium deoxycholate, 0.1% SDS, 50 mM Tris base, pH 8.0). Phosphatase and protease inhibitors (Gold Biotechnology) were added freshly to the lysis buffer. Following gel electrophoresis and transfer of cell extracts onto nitrocellulose, membranes were incubated for 1 hr or overnight in blocking buffer (5% milk in TBS + 0.1% tween). Membranes were subsequently incubated with primary antibodies diluted in antibody buffer (3% BSA in TBS + 0.1% tween) for 2 hrs at room temperature or overnight at 4°C. Detection was achieved using appropriate horseradish peroxidase (HRP)-conjugated secondary antibodies. Anti-ZRANB3 (1:5,000, Bethyl Laboratories), anti-SMARCAL1 (1:1,000, Santa Cruz Biotechnology), anti-BRCA1 (1:500, Bethyl Laboratories), anti-BRCA2 (1:1,000, Bethyl Laboratories), anti-vinculin (1:100,000, Sigma-Aldrich), anti-β-actin (1:100,000, Novus Biologicals), anti-GAPDH (1:5,000, Novus Biologicals), anti-HLTF (1:2,000, Abcam), anti-LAMIN B1 (Thermo Fisher Scientific), anti-FANCD2 (1:1,000, Novus Biologicals), anti-PCNA (1:100,000, Abcam), anti-NBS1 (GeneTex), anti-MRE11 (Cell Signaling Technology), anti-RPA2 (Bethyl Laboratories) antibodies were used in western blot experiments.
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3

Western Blot Analysis of Cell Lysates

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Cells were harvested in ice-cold RIPA buffer (50 mM Tris/HCl, pH 8.0, 150 mM NaCl, 1% Nonidet P-40, 0.5% sodium deoxycholate, 0.1% SDS) containing protease and phosphatase inhibitors (Gold Biotechnology Inc., St. Louis, MO, USA). Lysis occurred on ice for 20 min and then total lysates were cleared by centrifugation at 14,000 × g for 10 min (4 °C). A Bio-Rad protein assay was used for protein quantification (Bio-Rad, Hercules, CA, USA). Cell lysate (40 μg) was resolved by SDS–polyacrylamide gel electrophoresis and electroblotted onto polyvinylidene fluoride membranes (Millipore, Bedford, MA, USA). After blocking (5% non-fat dry skim milk), the membranes were immunoblotted for desired proteins. The immunoblots developed on X-ray film were visualized by an enhanced chemiluminescence system (Amersham Biosciences, Piscataway, NJ, USA). The intensities of the protein bands were quantified using Image J software (NIH, Bethesda, Maryland, USA).
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4

Western Blot Analysis of ATII Cell Proteins

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ATII cells were lysed using mammalian cell PE buffer (G-Biosciences, St. Louis, MO, USA) with protease and phosphatase inhibitors (Gold Biotechnology, St Louis, MO, USA). Western blotting was performed as we previously described [24 (link)]. Antibodies against ACE2 (BioRad, Hercules, CA, USA), HERPUD1 (Cell Signaling Technology, Danvers, MA, USA), CD209L (R&D Systems, Minneapolis, MN, USA), TMPRSS2, GRP78, and GAPDH (all from Abcam, Cambridge, UK) were used. HRP-conjugated donkey, anti-rabbit, or anti-mouse IgG (Jackson ImmunoResearch, West Grove, PA, USA) were applied. The blots were developed using Luminata Forte Western HRP Substrate (Millipore, Burlington, MA, USA). The density of bands was quantified using ImageJ and NIH Image software.
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5

Insulin Signaling Pathway Analysis

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Mice were fasted overnight and treated with insulin (1 U/kg body weight) or saline by intraperitoneal injection. Tissues were isolated after 30 min, homogenized in ice-cold radioimmune precipitation assay buffer (Thermo Fisher Scientific) containing protease and phosphatase inhibitors (GoldBio), and were examined by Western blot with specific antibodies to detect Akt and Akt phosphorylated on Ser473.
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