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75 protocols using sc 8008

1

Western Blot Analysis of Cellular Proteins

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Cellular proteins were prepared from mouse pancreas and PSCs using standard methods. Protein concentrations were measured using a BCA protein assay kit (Boster); the samples were adjusted to 4 μg/μL using 6 × loading buffer (TransGen Biotech, Beijing, China) and boiled at 95°C for 5 min. Protein extracts were subjected to sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE; Bio-Rad, Hercules, CA, United States) and blotted to polyvinylidene difluoride membrane (EMD Millipore, Darmstadt, Germany). The membranes were blocked with 5% non-fat milk for 1 h, then probed with the following primary antibodies: anti-GAPDH (BM1623, Boster, 1:1,000), anti-α-SMA (bs-10196R, Bioss, 1:400), anti-NF-κB p65 (sc-8008, Santa Cruz, 1:400), anti-p-NF-κB p65 (#3033, CST, 1:1,000), anti-COL1A1 (#84366, CST, 1:1,000), TGF-βR1 (SC-402, Santa Cruz, 1:400), and p-TAK1 (bs-5435R, Bioss, 1:400), respectively, overnight at 4°C. The samples were then incubated with horseradish peroxidase conjugated second antibody (goat anti-rabbit, goat anti-mouse, or rabbit anti-goat, 1:2,000) for 1 h. A 10–250 kDa protein marker was used to determine the size of detected bands in the BeyoECL Star Chemiluminescent system (Beyotime Biotechnology, Shanghai, China).
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2

Western Blot Analysis of T Cell Signaling

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Following cytokine stimulations, proteins were extracted from CD4+ T cells and separated into cytosol and nuclear fractions using NE-PER™ Nuclear and Cytoplasmic Extraction Reagents (Thermo Fisher Scientific) according to the manufacturer’s instruction. The samples were separated on 8 or 10 % SDS-PAGE gel, transferred to polyvinylidene difluoride (PVDF) membrane. The membrane was blocked with blocking buffer (TBS containing 0.1% Tween 20 (TBS-T) and 5% nonfat dry milk). After 3 washes with TBS-T, the membrane was incubated overnight with primary antibodies at 1: 1,000–1: 4,000 dilutions in blocking buffer at 4 °C. After 3 washes with TBS-T, the membrane was incubated with corresponding secondary antibody at 1: 4,000 dilution in blocking buffer for 1 h. After 3 washes with TBS-T, the proteins were visualized using Amersham ECL Prime Detection Reagent (GE Healthcare). The primary antibodies used were: α-Tubulin (sc-69969, Santa Cruz); NF-κB p65 (sc-8008, Santa Cruz); NF-κB p105/p50 (ab32360, Abcam); SMAD3 (ab28379, Abcam); TFIIB (sc-225, Santa Cruz). The secondary antibodies used were: anti-mouse IgG (#7076, Cell Signaling Technology); anti-rabbit IgG (#7074, Cell Signaling Technology).
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3

Immunofluorescence Imaging of NF-κB Activation

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The HK2 cells were fixed in 4% paraformaldehyde for 20 min at room temperature and cell permeability increased with 0.2% Triton-x and dissolved in PBS solution for 10 min at the same temperature. The cells were blocked with 1% BSA, and were dissolved in PBS solutions and incubated with the primary antibody at 4 °C overnight, followed by treatment with the secondary antibody for 1 h at room temperature. For immunofluorescent labeling, the NF-κB primary antibody (SC-8008, 2 µg/mL, Santa Cruz Biotechnology, Dallas, CA, USA) and the donkey anti-rabbit IgG (H+L) highly cross-adsorbed alongside the secondary antibody with Alexa FluorTM 488 (A-21206, 200:1, Invitrogen, Carlsbad, CA, USA) were used. Using fluorescence microscopy (CKX53, OLYMPUS, Tokyo, Japan), images of the immunofluorescence were obtained after the nucleus was stained with Hoechst (62,249, 1 µg/mL, Thermo Fisher Scientific, Marietta, OH, USA).
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4

Immunofluorescence Analysis of NF-κB and iNOS

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Immunofluorescence was realized according to the previously described methodology of Guerra et al. (2016) (link) and Ribeiro et al. (2017) (link). Sections of the oral mucosa from the hamsters, three per group, were dewaxed using xylol and, posteriorly, washed in concentrations different of ethanol and PBS. In process of antigen retrieval, was utilized a 10 mM sodium citrate solution containing 0.05% Tween 20 for a period 40 min at 95°C. Posteriorly, the samples were incubated in Sudan-Black 0.1% diluted in 70% ethanol, for 40 min, at room temperature to decrease the tissue autofluorescence. The slides again were incubated at 4°C overnight with mouse monoclonal anti-NFκB (1:200; sc-8008, Santa Cruz Biotechnology) or rat polyclonal anti-iNOS (1:200, sc-8332, Santa Cruz Biotechnology) primary antibodies and were washed three times for 5 min in PBS containing 0.2% Triton X-100. Subsequently, the samples were incubated with an Alexa Fluor 488-conjugated goat anti-rabbit secondary antibody (1:500 in 1% BSA blocking solution; Dako, Brazil, and United States). Finally, coverslips were applied using VECTASHIELD® mounting medium with DAPI (4′,6-diamidino-2′-phenylindole). Immunofluorescence images were obtained using a Carl Zeiss Laser Scanning microscope (LSM 710, 20× objective, Carl Zeiss, Jena, Germany) (Araujo Junior et al., 2016 (link); de Assis et al., 2016 (link)).
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5

Molecular Signaling Modulators in Inflammation

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Interferon-gamma (IFN-γ, 300-02) and tumor necrosis factor alpha (TNF-α, 300-01A) were purchased from Peprotech. AMPK agonists Metformin hydrochloride (PHR1084), AICAR (A9978), Resveratrol (R5010); SIRT1 agonist SRT1720 (SRT1720) and NRF-2/HO-1 agonist Protoporphyrin IX cobalt chloride (C1900) were purchased from Sigma-Aldrich. Inhibitors of NF-κB Emodin (E7881) and JSH23 (J4455); IKKβ inhibitor IKK16 (SML1138); STAT1 inhibitor Fludarabine (F2773) and NOS2 inhibitor 1400W (W4262) were purchased from Sigma-Aldrich. Inhibitors of MEK1 and MEK2 PD98059 (ab120234), JNK SP600125 (ab120065) and MAPK SB202190 (ab120638) were purchased from Abcam. Reagents were dissolved in DMSO or water (Metformin and AICAR) at 100x stock concentrations and maximum DMSO concentration used in cells was 1%. Monoclonal antibody against 3-nitrotyrosine (ab61392) was purchased from Abcam. Monoclonal antibody against NF-κB p65 (sc-8008) was purchased from Santa Cruz Biotechnology.
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6

Protein Expression Analysis by Western Blot

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Protein lysates were boiled for 5 minutes at 95°C in SDS protein buffer (5x laemmli sample buffer, Thermo Fisher Scientific) and separated by SDS-PAGE following transfer to a polyvinylidene fluoride (PVDF) membrane. Primary antibodies were anti-alpha-Amylase (rabbit polyclonal, CST-4017, Cell signaling, Boston, USA), anti-Pancreatic-Lipase-A3 (mouse monoclonal, SC-374612, Santa-Cruz, Texas, USA), anti-Glyoxalase-I (Glo-I, mouse monoclonal, SC-133214, Santa-Cruz), anti-NF-ĸB (p65 subunit, mouse monoclonal SC-8008, Santa-Cruz) and anti-Vinculin (mouse monoclonal, SC-73614, Santa-Cruz). Secondary antibodies were anti-mouse (goat anti-mouse, 1858413, Pierce / Thermo Fisher Scientific) and anti-rabbit (goat anti-rabbit, 1858415, Pierce). Western Blot signals were quantified using imager (G-Box Chemie XX9, Syngene, Cambridge, UK). Signals were normalized to their respective loading controls using ImageJ-Software (v. 1.48, http://imagej.nih.gov) and: GeneTools (Syngene).
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7

Regulation of RSK2 and TRAF6 in Cellular Signaling

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Fetal bovine serum (FBS) and Dulbecco’s modified Eagle’s medium (DMEM) were from Life Technologies, Inc. (Grand Island, NY). Antibodies against phosphor-RSK2 (#11989), phosphor-Ikkα/β (#2697), phosphor-IKBα (#2859), phosphor-JNKs (#4668), phosphor-p38 (#4511) and COX2 (#12282) were from Cell Signaling Technology, Inc. (Beverly, MA). Antibodies against TRAF6 (sc-8409), Ub (sc-166553), and NFκB p65 (sc-8008) were from Santa Cruz Biotechnology, Inc. β-actin antibody was from Santa Cruz Biotechnology, Inc (Santa Cruz, CA). Anti-Xpress (R91025) was from Thermo Fisher Scientific Corporation (Carlsbad, CA). Active RSK2 and anti-Flag (F3165) were from Upstate Biotechnology, Inc. (Charlottesville, VA). The pRK5-HA-Ub-Wt, pRK5-HA-Ub-K48 and pRK5-HA-Ub-K63 plasmids were purchased from Addgene (Cambridge, MA). The pCDNA3-Flag-TRAF6 plasmid was kindly provided by Dr. Peter ten Dijke (23 (link)), and the pCDNA4-Xpress-RSK2 plasmid was described previously (7 (link)).
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8

Western Blot Analysis of Hepatocyte Proteins

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Western blot analyses were performed as described previously (Zheng et al., 2021 (link)). Total proteins were extracted from hepatocytes or liver samples using RIPA lysis buffer (P0013B, Beyotime, China), separated by SDS-PAGE gel electrophoresis, and transferred to polyvinylidene fluoride membranes (ISEQ00010, Millipore, United States). The membranes were blocked with 5% milk (232100, BD Biosciences, United States), and subsequently hybridized overnight with primary antibodies at 4°C. Finally, the secondary antibody (1:10000, 14708, CST, United States) was used to combine chemiluminescent horseradish-peroxidase substrate (WBKLS0500, Millipore, United States), and the membranes were imaged by Bio-Rad ChemiDoc XRS System (Hercules, United States).
Primary antibodies against p-TBK1 (1:2000, 5483), p-NF-κB (1:2000, 3033) and beta-actin (1:2000, 4970) were obtained from Cell Signaling Technology (Beverly, United States), against TBK1 (1:1000, sc-398366) and NF-κB (1:1000, sc-8008) were purchased from Santa Cruz Biotechnology (California, United States), and against CCR2 (1:1000, abs136993) was purchased from Absin (Shanghai, China).
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9

Western Blot Analysis of Liver Proteins

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Analysis of protein expression by western blot was performed by modifying our previous method.(3 (link)) Nuclear factor-κB (NF-κB) content in liver nuclei was assessed by using the primary antibody against NF-κB (sc-8008, mouse mAb; Santa Cruz Biotechnology, Dallas, TX). For insulin signal pathway, phospho-insulin receptor β, phospho-protein kinase B (Akt/PKB) and sterol regulatory element-binding protein-1c (SREBP-1c) expressions were quantified by using the primary antibodies against these proteins respectively; sc-81500 (mouse mAb; Santa Cruz Biotechnology, Inc.), #4060S (rabbit mAb; Cell Signaling Technology, Inc., Danvers, MA) and ab3259 (mouse mAb; Abcam plc., Cambridge, UK). As corresponding secondary antibody, goat anti-mouse IgG-HRP (sc-2031; Santa Cruz Biotechnology, Inc.) or goat anti-rabbit IgG H&L (HRP) (ab205718; Abcam plc.) was used. Generally, as housekeeping proteins, glyceraldehyde 3-phosphate dehydrogenase, β-actin, and Histone H1 are used. But, in our NASH model, these protein expressions were altered from control rat livers (data not shown) because of the change of nutrient energy metabolism, fibrosis, and oxidative stress. Therefore, we did not express housekeeping protein expressions. We made samples for western blot analysis with the same amount of total proteins with each other. Then, we loaded the same volume samples to equalize the loading dose.
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10

Protein Expression Regulation in RAW264.7 Cells

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The protein expression in RAW264.7 cells were detected by Western blot. Cells (1.6 × 105 cells/well) were plated overnight and then treated with the indicated concentrations of bioactive compounds. After 1h, 1μg/ml LPS were added. Then, the supernatant and precipitation of cells were collected 24h later. Immunoblotting was performed using antibodies against the target proteins, including AKT1 (1:2,500; ab89402; Abcam, Cambridge, MA, United States), p-AKT1 (1:5,000; ab81283; Abcam, Cambridge, MA, United States), PI3K (1:1,000; 4,249; Cell Signaling Technology, Inc., Danvers, MA, United States), p-PI3K (1:1,000; bs-3332R; Bioss Antibodies, Biotechnology, Inc., Beijing, China), NFκB-p65 (1:1,000; sc-8008; Santa Cruz Biotechnology, Inc.,Dallas, TX, United States), p-NFκB-p65 (1:1,000; YP0191; Immuno Way, Biotechnology, Inc., Plano, TX, United States). The blots were developed with an enhanced chemiluminescence kit (ECL, Amersham Biosciences, Buckinghamshire, United Kingdom) and measured by using a luminescent image analyzer (LAS-3000, Fuji Photo Film Co. Ltd., Japan).
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