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41 protocols using foxo3

1

Quantitative Protein Analysis of Autophagy

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Tissues and cells were kept in ice‐cold RIPA buffer with protease (Sigma, St. Louis, MO, USA) inhibitor to extract total proteins at 24 hr after treatment. Proteins were separated on a 12% SDS‐PAGE and electrophoretically transferred to polyvinylidene difluoride (PVDF) membranes (Millipore, Billerica, MA). Membranes were then blocked in 5% nonfat milk with Tris‐buffered saline and 0.1% Tween 20 at room temperature for 2 hr. Primary antibodies were incubated at 4°C for at least 12 hr, including LC3B (1:1,000, Cell Signaling Technology, Beverly, MA, USA), SQSTM1 (1:1,000, Cell Signaling Technology, Beverly, MA, USA), FOXO3 (1:1,000, Cell Signaling Technology, Beverly, MA, USA), ATG7 (1:1,000, Cell Signaling Technology, Beverly, MA, USA), and GAPDH (1:1,000, Santa Cruz Biotechnology, CA, USA). Membranes were subsequently incubated with HRP‐conjugated secondary antibodies for another 2 hr at room temperature. Immunoblots were visualized by an enhanced chemiluminescence detection kit (ECL kit; Millipore, Billerica, MA) under a chemiluminescence imaging analysis system (Amersham Imager 600, GE, CT, USA). Relative integrated density values were calculated using Image J software.
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2

Protein Expression Analysis of FoxO3 and Akt Signaling

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Cells were lysed with radioimmunoprecipitation assay (RIPA) buffer added with protease and phosphatase inhibitor cocktails on ice for 30 min and centrifuged at 12,000 rpm for 30 min at 4 °C. Protein concentration in the supernatants was quantified using a bicinchoninic (BCA) kit (Solarbio, Beijing, China). We separated 30–50 µg proteins by 10% gels and electroblotted to polyvinylidene fluoride (PVDF) membranes (Millipore, Burlington, MA, USA). Proteins were detected using specific antibodies of GAPDH, α-SMA (Proteintech, Wuhan, China), FoxO3, phospho-FoxO3, Akt and phospho-Akt (Cell Signaling Technology, CST, Danvers, MA, USA) overnight at 4 °C. The membranes were then incubated with horseradish peroxidase (HRP)-conjugated secondary antibody (Proteintech, Wuhan, China). The signal was visualized using the Pierce ECL Western Blotting Substrate (Thermo Fisher Scientific, Waltham, MA, USA).
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3

Western Blot Analysis of Apoptosis Markers

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Cells were lysed by 1x laemmeli buffer containing 62.5 mM Tris-HCl, pH 6.8, 2% SDS, 10% glycerol, 2.5% β-mercaptoethano, and 0.01% bromophenol blue, followed by boiling at 95°C for 10 min. Total cell lysates were separated in SDS polyacrylamide gels and then electrophoretically transferred to PVDF membranes that were pretreated with 100% methanol for 5 minutes. The prepared membranes were blocked with 3% skim milk for 1 hour at room temperature and then sequentially incubated with indicated primary antibody overnight at 4°C and secondary antibody for 1 hour at room temperature. The used primary antibodies included rabbit monoclonal antibodies to FoxO1 (Cell Signaling Technology, 2880), FoxO3 (Cell Signaling Technology, 2497), cleaved caspase 3 (Cell Signaling Technology, 9664), β-actin (ABclonal, AC026), and a mouse monoclonal antibody to ORFK8 (Santa Cruz, F33P1). β-actin was used as the loading control.
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4

Protein Expression Analysis in Lung Tissue

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Detection of MIF, angiopoietin (Ang)1, Ang 2, tyrosine kinase with immunoglobulin and epidermal growth factor homology domains receptor 2 (Tie2), Vascular Endothelial Growth Factor-A (VEGF-A), interleukin (IL)-6, IL-1β, YWHAZ and FOXO3 was performed using vinculin and β-actin as loading controls from lung tissue and MLEC lysates using Western blot as previously described [25 (link)].
The primary antibodies used were MIF (Abcam, Cambridge, UK, 1:400), vinculin (Santa-Cruz Biotechnology, Dallas, TX; 1:10,000), β-actin (Cell Signaling Technology, Danvers, MA), Ang1, (Sigma-Aldrich, St. Louis, MO, 1:500), Ang2 (Sigma-Aldrich, St. Louis, MO, 1:500), Tie2 (Santa-Cruz Biotechnology, Dallas, TX; 1:200), VEGF-A (Abcam, Cambridge, UK, 1:200), IL-6 (Santa-Cruz Biotechnology, Dallas, TX; 1:500), IL-1β (Cell Signaling Technology, Danvers, MA), FOXO3 (Cell Signaling Technology, Danvers, MA; 1:1000), YWHAZ, (Santa-Cruz Biotechnology, Dallas, TX; 1:800).
ImageJ software was used to analyze expression of target proteins relative to either vinculin or β-actin loading controls.
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5

Protein Extraction and Immunoblotting

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Total protein extraction and immunoblots were performed as previously described [15 (link)]. Antibodies specific to PLIN2 (Santa Cruz Biotechnology), FOXO3 (Cell Signaling), SIRT6 (Cell Signaling) and Tubulin (Cell Signaling) were used. Secondary antibody (Li-Cor Biosciences) signals were detected using an Odyssey infrared imaging system (Li-Cor Biosciencesgeneration).
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6

Quantification of ER Stress-Related Proteins

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Cells were lysed in radioimmunoprecipitation assay buffer (50 mM Tris-HCl, pH 8, 150 mM NaCl, 1 % NP-40, 0.5 % sodium deoxycholate, and 0.1 % SDS, supplemented with protease inhibitor cocktail; Sigma-Aldrich) for 30 min at 4°C and the protein content was measured by DC Protein Assay (Bio-Rad). Protein samples (20 μg) were resuspended in Laemmli buffer and separated by SDS-PAGE. Next, samples were transferred to PVDF membranes (Immobilon-P, Millipore) and blocked with 5 % dry milk supplemented with 0.05% Tween 20 in PBS. The membranes were then immunoblotted by specific antibodies: FOXO1 (2880; Cell Signaling Technology), FOXO3 (D19A7; Cell Signaling Technology), FOXO4 (9472; Cell Signaling Technology), XBP-1s (83418; Cell Signaling Technology), IRE1α (3294; Cell Signaling Technology), IRE1α [pSer724] (NB100–2323SS; Novus Biologicals), eIF2α (9722; Cell Signaling Technology), ATF4 (11815; Cell Signaling), GAPDH (2118; Cell Signaling Technology) and β-actin (A5316; Sigma-Aldrich). For chemiluminescent detection, we used enhanced luminol-based chemiluminescent substrate (ECL) and ECL Hyperfilm (Amersham). Immunoblotting results were analyzed by densitometry (Image J).
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7

Immunofluorescence Staining and Imaging of Cells and Brain Tissue

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Cells were washed with PBS and fixed using 4% paraformaldehyde for 10 min at room temperature. Samples were incubated overnight with primary antibodies in blocking solution (PBST + 3% goat serum and 1% BSA) followed by incubation with appropriate secondary antibodies and 4′,6-diamidino-2-phenylindole (DAPI). Images were obtained using a Zeiss Observer Z1 microscope and AxioVision software or a PerkinElmer Operetta high-content imaging system and Harmony software. Transplanted mouse brains were harvested, sectioned into 30-µm slices using a vibratome, stained using immunohistochemistry (IHC) as free-floating staining, and imaged using a Leica SP8 confocal microscope.
The following primary antibodies were used: Olig2 (1:100; Millipore), V5 tag (1:1000; eBioscience), Sox2 (1:50; R&D Systems), mNestin (1:10; Developmental Studies Hybridoma Bank), hNestin (1:500; R&D Systems), FOXG1 (1:3; hybridoma clone 17B12), FOXO3 (1:800; Cell Signaling Technology), GFAP (1:1000; Sigma), S100 (1:100; DAKO), Stem121 (1:500; Stem Cell Technology), BLBP (1:200; Santa Cruz Biotechnology), and Ki67 (1:500; Lab Vision). EdU incorporation assays were performed as described previously (Carén et al. 2015 (link)).
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8

Western Blot Analysis of Neuronal Proteins

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Total protein was extracted using Neuronal Protein Extraction Reagent (ThermoFisher Scientific), and proteins were separated by electrophoresis on a 12% polyacrylamide gel and transferred to a PVDF membrane (Millipore, Billerica, MA, USA). The membranes were incubated overnight with the primary antibodies at 4 °C with optimal dilution following the manufacturer’s recommendations, and then incubated with the appropriate secondary antibody at a 1:2000 dilution for 1 h at room temperature. The FOXO3 (Cat No. 2497, Cell Signaling Technology, Danvers, MA, USA), p-FOXO3 (Thr32) (Cat No. 9464S, Cell Signaling Technology), p-AKT (Ser473) (Cat No. 4060, Cell Signaling Technology), BCL2 (Cat No. 7382, Santa Cruz Biotechnology, Santa Cruz, CA, USA), CASP3 (Cat No. 7184, Santa Cruz Biotechnology), PTEN (Cat No. 9188, Cell Signaling Technology), and ACTIN β (Cat No. 4967, Cell Signaling Technology) primary antibodies were used in the Western blot experiments. The membranes were then incubated with horseradish peroxidase-conjugated secondary antibodies (1:2000; Cell Signaling Technology) for 1 h at room temperature. The specific signals were detected with enhanced chemiluminescence (Western Bright ECL HRP substrate; Advansta, Menlo Park, CA, USA) and Lucent Blue X-ray film (Advansta).
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9

Immunocytochemistry of Lung Fibroblasts

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Human lung fibroblasts to be subjected to ICC were cultured on eight‐well glass chamber slides. Cells were fixed with ice‐cold methanol/acetone (1:1) for 30 min, washed three times for 5 min with PBS and blocked for 1 h with blocking buffer (5% BSA, 0.5% goat serum, 0.2% Triton‐X in PBS), and incubated over night with one of the following antibodies: Col1a (1:100, Median life science, T40777R), FoxO3 (1:100, cell signalling, 2497), and α‐SMACy3 (1:200 Sigma Aldrich, C6198). This was followed by 1‐h incubation with secondary antibody Alexa Fluor®‐488 (1:1,000, Life Technologies, A11008) except for the cells that were probed with α‐SMA. TOPO3 was used for nuclear counter stain. Fluorescent images were taken with LSM 710 confocal microscope.
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10

Protein Analysis Using SDS-PAGE and Immunoblotting

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SDS-PAGE and immunoblotting were carried out as previously described (10 (link)). Cells were lysed with either radioimmunoprecipitation assay lysis buffer as previously described (10 (link)) or 1% Triton X-100 lysis buffer as described (46 (link)). Antibodies recognizing ERRB3 Y1197, ERBB3, EPHA2 S897, NDRG1 T346, Akt S473, Akt T308, Akt, p70S6K T389, p70S6K, ribosomal S6 S240/244, S6, IGF1R Y1135/36/IR Y1150/51, IGF1R, FOXO1/3a T24/T32, and FOXO3 were from Cell Signaling. Other antibodies included EPHA2 (Santa Cruz), secreted form of NRG1 (R&D Systems), NDRG1 (Abcam), and GAPDH (EMD Millipore). Anti-NF2/merlin polyclonal antibody has been previously described (61 (link)).
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