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6 protocols using gadd34

1

Osteoclastogenesis Regulation by Rapamycin

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Human macrophage colony-stimulating factor (M-CSF) and RANKL was purchased from Peprotech (Rocky Hill, NJ, United States). Rapamycin was obtained from Calbiochem. Antibodies were used for immunoblotting as follows: NFATc1 (Santa Cruz Biotechnology; sc-7294); α-tubulin (Sigma-Aldrich; T9026); phosphorylated p70S6K, p70S6K (Cell Signaling Technology; 9234, 2708); and GADD34 (Proteintech; 10449-1-AP). A mouse CTX-I and P1NP ELISA kits were purchased from Cloud-Clone (Wuhan, China).
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2

Western Blot Analysis of Brain Tissue

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Frozen brain tissue was prepared for Western blot assays as previously described (Naidoo et al., 2008 (link), 2018 (link)). Briefly, brain tissue was homogenized on ice with lysis buffer containing protease inhibitors. After centrifugation, protein concentration for each sample was determined with a BCA protein assay and samples were prepared such that each contained 20µg of protein. SDS‐PAGE gels were run as previously described (Naidoo et al., 2008 (link)), and protein bands were imaged and quantified via infrared imaging on an Odyssey scanner (LiCor). For all markers, we compared n = 5–8 for each of the groups. Primary antibodies are as follows: BiP/anti‐KDEL (1:1000, Enzo Life Sciences ADI‐SPA‐827F); GADD34 (1:500, Protein Tech 10449‐1‐AP); p‐AKT (1:500, Cell Signaling 9271); and Akt (1:500, Cell Signaling 9272). Secondary antibodies are as follows: LiCor IRDye 680RD Goat anti‐Mouse (1:10,000); LiCor IRDye 800RD Goat anti‐Mouse (1:10,000); LiCor IRDye 800RD Goat anti‐Rabbit (1:10,000); and Odyssey IRDye 680 Goat anti‐Rabbit (1:10,000).
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3

Western Blot Analysis of Cellular Signaling

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Cells were lysed in buffer H (10 mM HEPES, pH 7.9, 50 mM NaCl, 500 mM sucrose, 0.1 mM EDTA, 0.5% (v/v) Triton X-100, 1 mM PMSF, 1X Complete protease inhibitor cocktail (Roche Applied Science, Mannheim, Germany)) supplemented with phosphatase inhibitors (10 mM tetrasodium pyrophosphate, 17.5 mM β-glycerophosphate, and 100 mM NaF [25 (link), 27 (link)]) for detection by antibodies directed against phospho-eIF2α (Cell Signaling Technology, Danvers, MA, USA), eIF2α (gift from Prof. Dr. D. Ron), KDEL (Enzo Life Sciences), GADD34 (ProteinTech, Chicago, IL, USA), puromycin (Millipore, Billerica, MA, USA), β-actin and GAPDH (CellSignalling), or in sample buffer (0.2 M Tris-HCl pH 6.8, 16% [v/v] glycerol, 4% [w/v] SDS, 4% [v/v] 2-mercaptoethanol, 0.003% [w/v] bromophenol blue) for detection by antibodies directed against (phospho-) p38 MAPK (both CellSignalling). The proteins in the samples were separated using a 10% SDS-PAGE gel and transferred onto a nitrocellulose membrane. After blocking with PBS containing 0.05% Tween-20 (v/v) and 5% skimmed-milk (w/v), the membrane was incubated overnight with the primary antibody (1:1000) in TBS with 0.05% Tween-20 (v/v) and 5% BSA (w/v) at 4°C. Next, the membrane was incubated with HRP-labelled anti-mouse or anti-rabbit antibody (Sigma) in blocking buffer for 1 hour and developed using ECL (ThermoScientific).
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4

Immunoblot Analysis of Cellular Proteins

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Immunoblots were performed as described previously (Teske et al., 2013 (link); Collier et al., 2015 (link)). Antibodies include eIF2α-P (Abcam, Cambridge, UK; #32157), eIF2α total (Scott Kimball, Pennsylvania State University College of Medicine), GADD34 (Proteintech; #10449), p21 and cleaved caspase-3 (Cell Signaling; #2947 and #9661, respectively), β-actin (Sigma-Aldrich; A5441), and cyclin D1 (Millipore; DCS-6).
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5

Protein Extraction and Western Blot Analysis

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After specific treatments, the cells were harvested, and their protein extracts were isolated by cell lysis/extraction reagent according to the manufacturer’s protocol. The protein content was determined using the Bradford method (Bio-Rad, Hercules, CA, USA). Samples with equal amounts of proteins were incubated with the specific primary antibody. Detection was carried out by incubation with secondary horseradish peroxidase-conjugated anti-rabbit or anti-mouse IgG antibody (Santa Cruz Biotechnology, Santa Cruz, CA, USA). The immunoreactive signals were visualized by the chemiluminescent reagent Immobilon Western (Millipore, Billerica, MA, USA) on the X-ray film (GE Healthcare, Piscataway, NJ, USA). The primary antibodies were used according to the selected proteins, including GADD34 (Proteintech; 10449-1-AP), GADD45A (Proteintech; 13747-1-AP), GABARAPL1 (GeneTex; GTX129277), p-eIF2α (Cell signaling; #9721), ATF4 (Cell signaling; #11815), CHOP (Cell signaling; #2895), SirT3 (Cell signaling; #5490), FOXO3A (Cell signaling; #12829), and p-AKT (Cell signaling; #4060). Immunoblot of GAPDH (Abcam; ab128915) was performed to demonstrate equal protein loading.
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6

Amyloid and Protein Visualization in Brain Tissue

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Paraformaldehyde fixed brains stored in 30% sucrose in PBS were cut into 30 µm coronal or saggital sections on a freezing sliding microtome and collected in PBS. Sections were stained with Thiazine Red (2 mg/ml diluted 1∶60,000) or Thioflavin S (1 mg/ml diluted 1∶5000) for amyloid fibrils, BACE1 (D10E5, Cell Signaling, 1∶500 or Eptomics EPR3956 1∶250), GADD34 (Protein Tech Group, Chicago 1∶1000). GFP and YFP fluorescence signals were imaged directly. Donkey anti-rabbit or anti-mouse conjugated to Alexa 568 or 647 secondary antibody (Molecular Probes) was used at the same concentrations as primary being detected. DAPI (Molecular Probes) was used at 300 nM for imaging nuclei. Coverslips were mounted using Prolong Gold (Molecular Probes), Conventional images were collected using a Keyence BZ9000 microscope (Tokyo, Japan), using 10x or 20x objectives. The “merge” function was used to generate hemibrain and hippocampus images. Confocal images were collected on Nikon A1 microscope using a 60x oil immersion objective lens and NIS Elements software (Northwestern University’s Cell Imaging Facility).
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