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8 protocols using phosphorylase inhibitor

1

Immunoprecipitation of GFP- and His-tagged Proteins

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The immunoprecipitation analysis was performed based on these protocols (47 (link)). The hepatocytes were lysed in the NP40 cell lysis buffer (p0013F, Beyotime, Shanghai, China) with phosphorylase inhibitor (P1082, Beyotime, Shanghai, China). Then, the anti-GFP tag or anti-His tag was added to the cell lysate overnight at 4 °C and the protein A/G beads (P2012, Beyotime, Shanghai, China) were added. Finally, the immunocomplexes were washed by NP40 buffer. The western blot was used to measure the protein expression.
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2

Western Blot Protein Quantification

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Total protein was extracted from tissues or cells using a lysis buffer with phenylmethanesulfonylfluoride (cat. no. ST505; Beyotime Institute of Biotechnology) containing a phosphorylase inhibitor (cat. no. 78445, Thermo Fisher Scientific). The protein concentration was determined with a bicinchoninic acid assay (Beyotime Institute of Biotechnology). A total of 40 µg of protein was separated by 10% SDS-PAGE, transferred to PVDF membrane (Millipore, Hayward, CA, USA), and blocked with 5% fat-free milk for 1 h at room temperature. The membranes were probed with primary antibodies overnight at 4 ºC followed by incubation with the appropriate secondary antibodies for 2 h at room temperature. Proteins were visualized using enhanced ECL substrate (cat. no. ab133406; Abcam). ImageJ 1.8.0 software (National Institutes of Health, Bethesda, MD, USA) was used to quantitatively compare the differences between groups. The antibodies used are shown in Table 1.
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3

Western Blot Protein Quantification Protocol

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Total protein was extracted from cells with 60 μL RIPA lysis buffer containing 1% protease inhibitor and 1% phosphorylase inhibitor (Beyotime). The protein concentration was then determined with a bicinchoninic acid kit (Beyotime). After separation by 10% sodium dodecyl sulfate polyacrylamide gel electrophoresis, 20 μg protein was transferred onto a polyvinylidene fluoride membrane. Next, the membrane was treated with 5% BSA at room temperature for 2 h and underwent overnight incubation at 4°C with primary antibodies (Supplementary Table 2), followed by 1-h incubation with horseradish peroxidase-labeled secondary antibody (Supplementary Table 2) at room temperature. Afterwards, the immunocomplexes on the membrane were visualized using enhanced chemiluminescence (ECL) reagent (BM101, Biomiga Inc.) and developed using BioSpectrum 600 Imaging System (Ultra-Violet Products, Cambridge, UK) after which the gray value of protein bands was quantified by ImageJ software.
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4

Western Blot Analysis of Protein Targets

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High-efficiency RIPA lysis buffer supplemented with 1% protease inhibitor and 1% phosphorylase inhibitor (Beyotime, Shanghai, China) was adopted for total protein extraction from tissues and cells. Following protein concentration measurement using a BCA kit (Thermo Fisher Scientific), sample proteins were separated by 10% SDS-PAGE, transferred to a PVDF membrane, and then blocked with 5% BSA. Subsequently, the protein-loaded membrane was probed overnight at 4 °C with primary antibodies to UCHL3 (rabbit, 1:2000, ab241490, Abcam), AhR (mouse, 1:500, MA1-513, Thermo Fisher Scientific), PD-L1 (rabbit, 1:1000, ab205921, Abcam) and β-actin (rabbit, 1:5000, ab8227, Abcam; loading control), followed by 1.5-h incubation with HRP-labeled goat anti-rabbit IgG (1:20000, ab205718, Abcam) or HRP-labeled goat anti-mouse IgG (1:500, 31430, Thermo Fisher Scientific) at room temperature. The blots were visualized using developing solution (NCI4106, Pierce, Rockford, IL). Quantitative analysis was then conducted using ImageJ 1.48u software (Bio-Rad, HercμLes, CA).
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5

RIPA Lysis and Protein Quantification

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RIPA lysate (P0013B Beyotime Biotechnology), PMSF (100 mM) (BL507A biosharp), Phosphorylase inhibitor (P1081 Beyotime Biotechnology), BCA protein quantitative detection kit (P0012 Beyotime Biotechnology), 5 × protein loading buffer (P0015 Beyotime Biotechnology), SDS–PAGE Gel preparation Kit (BL508A biosharp), Protein Marker (20350ES72 YEASEN), TRIS(1115GR500BIOFROXX), Glycine (1275KG2P5 BIOFROXX).
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6

Western Blot Analysis of CTNNB1

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Total protein of tissue or cells was extracted from a high-efficiency RIPA lysis buffer (Sigma Aldrich) containing 1% protease inhibitor and 1% phosphorylase inhibitor (Beyotime, Shanghai, China). Concentration of the extracted protein was determined using a BCA kit (Thermo Fisher Scientific, Waltham, MA, USA). The proteins were separated by polyacrylamide gel electrophoresis, then transferred to PVDF membranes (Millipore, Billerica, MA), and blocked with 5% BSA for 1 h at room temperature. The membranes were incubated with rabbit anti-mouse primary antibodies against CTNNB1 (1:500, ab68183, Abcam) and GAPDH (1:500, ab8245, Abcam) at 4 °C overnight. The next day, the membranes were further incubated with horseradish peroxidase-labeled goat anti-rabbit IgG (1:20,000, ab205718, Abcam) or goat anti-mouse IgG (1:20,000, ab197767, Abcam) diluent for 1.5 h at room temperature, followed by development using developing solution (NCI4106, Pierce, Rockford, IL, USA). Protein quantification analysis was performed by ImageJ 1.48 u software (2014, Bio-Rad Laboratories, Hercules, CA, USA) with an internal reference GAPDH.
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7

Western Blot Protein Detection

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Cells and tissues were treated with cold RIPA buffer with PMSF (Sigma) and phosphorylase inhibitors (Beyotime). Protein samples were separated by SDS‐PAGE gels and transferred onto PVDF membranes. The membranes were incubated with primary antibodies. Image J (National Institutes of Health, Bethesda, MD, USA) was used to measure the band density.
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8

Western Blot Analysis of NLRP3 and NDV-NP

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DF1 cells were lysed with RIPA buffer supplemented with PMSF and phosphorylase inhibitors (Beyotime, Shanghai, China), and the protein concentration was tested with a Bradford assay (Bio-Rad, Hercules, CA, USA). Denatured protein (30 μg) was electrophoresed in a 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis (SDS-PAGE) gel and transferred to an NC membrane (GE, MA, USA). NC membranes were blocked and incubated with specific rabbit anti-NLRP3 (provided by Professor Zhangyong Ning of South China Agricultural University), anti-NDV-NP antibody, or rabbit anti-GAPDH antibody (Cat: ab181602, Abcam, UK) for 12 h at 4 °C. The primary antibody was removed, and the membrane was incubated with IRDye 800-conjugated anti-rabbit IgG (Cat: 926-32211, LI-COR Biosciences, Lincoln, NE, USA) for 45 min at 25 °C–30 °C. The membranes were visualized using an Odyssey infrared imaging system (LI-COR Biosciences, Lincoln, NE, USA).
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