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13 protocols using af4012

1

Immunofluorescence Analysis of GSDMD and Immune Cells in Tumor Tissues

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TC-1-GSDMD-NT cells on the slides were collected and treated with 4% paraformaldehyde containing 0.1% Triton X-100 for 10 min, followed by three washes with PBS. Then, the cells were blocked with 2% BSA in PBS for 1 h and incubated with rabbit polyclonal anti-GSDMD antibody (Affinity, AF4012; 1:100 in 2% BSA) for 2 h at RT, followed by three washes with PBS. Next, the samples were incubated with FITC-conjugated secondary antibody (1:2,000 in 1% BSA, Proteintech) for 2 h at RT. After washing five times with PBS, the nuclei were stained with DAPI (ab104139, Abcam) for 10 min. All of the samples were examined by confocal microscopy. Tumor tissues were collected and fixed in formalin, embedded in paraffin, and sectioned. After deparaffinization and hydration, the slides were immersed in EDTA antigen retrieval buffer. Then, the slides were incubated with anti-CD4 antibody (Biolegend) and anti-Foxp3 antibody (Biolegend) or rabbit polyclonal anti-GSDMD antibody (Affinity, AF4012, 1:100) overnight at 4 °C. Next, Cy3-conjugated secondary antibody (Servicebio, GB21303; 1:2,000 in 2% BSA) was added, followed by incubation at room temperature for 1 h. Then, the slides were incubated with DAPI (ab104139, Abcam) at RT for 10 min. All of the sections were examined by fluorescence microscopy.
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2

Immunocytofluorescence Staining Protocol

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Immunocytofluorescense staining was performed according to a previously described method.11 Briefly, cells were fixed in 4% paraformaldehyde and permeabilized with 0.1% Triton X-100 at room temperature for 10 min. Next, the cells were incubated with 5% Bovine Serum Albumin (BSA) at room temperature for 1 h, followed by incubation with anti-CD90 (1:200; SC-53456, Santa Cruz), anti-TRPV4 (1:200; ab39260, Abcam), anti-GSDMD (1:200; AF4012, Affinity), anti-Caspase-1 (1:200; AF5418, Affinity), and anti-IL-1β (1:200; AF5103, Affinity) at 4 °C overnight. After thoroughly washed, the cells were then incubated with fluorescein isothiocyanate-conjugated or tetramethylrhodamine isothiocyanate-conjugated secondary antibodies (1:200; Zhongshan Golden Bridge Biotechnology, Beijing, China) in the dark at room temperature for 1 h. Nuclei were counterstained with DAPI (P0131, Beyotime, China). Confocal microscopic images were processed with LSM 5 Release 4.2 software after acquisition by a laser-scanning microscope (LSM510; Zeiss, Germany). The positively stained cells were counted in five different slides from each sample.
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3

Lung Tissue Protein Analysis

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The inferior lobe of the lung tissues was homogenized in RIPA lysis buffer (Thermo Fisher Scientific, Inc.). After that, 30 μg protein was separated in 10% SDS-PAGE. Proteins were then transferred to PVDF membranes (Millipore). Then, the PVDF membranes were blocked with 5% non-fat dry milk for 1 h at room temperature and then incubated with primary antibodies against p-P65 (1 : 1000, AF2006, Affinity); P65 (1 : 1000, AF5006, Affinity); p-IKBα (1 : 1000, AF2002, Affinity); IKBα (1 : 1000, AF5002, Affinity); NLRP3 (1 : 1000, DF7438, Affinity), ASC (1 : 2000, sc-514414, Santa Cruz Biotechnology, INC), Caspase-1 p20 (1 : 2000, AF4005, Affinity), Pro-GSDMD (1 : 1000, AF4012, Affinity), GSDMD p30 (1 : 1000, DF12275, Affinity), IL-18 (1 : 1000, DF6252, Affinity), IL-1β (1 : 1000, AF5103, Affinity), and β-actin (1 : 5000, AF7018, Affinity) at 4°C overnight. Then, the membranes were then incubated with the appropriate secondary antibodies at room temperature for 2 h. β-actin was selected as the loading control. Finally, the protein bands were caught by using a Chemiluminescence image analysis system (Tanon, Shanghai, China) and analyzed with the Image J software (National Institutes of Health, USA).
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4

Protein Quantification and Western Blotting

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Protein concentration was determined with a bicinchoninic acid (BCA) protein quantification kit (ThermoFisher Scientific, Rockford, IL, USA) following to the manufacturer’s instructions. After preparation of the gels, the sample was slowly added to the lane. After electrophoresis, the proteins were transferred and blocked. After blocking, the polyvinylidene difluoride (PVDF) membranes were incubated overnight with the primary antibodies anti-caspase-11 (ab180673; Abcam, Cambridge, UK), anti-GSDMD (AF4012; Affinity, Jiangsu, China), anti-caspase-1 (ab1872; Abcam), anti-NLRP3 (ab214185; Abcam), or anti-IL-1β (ab9722; Abcam). Subsequently, the membranes were incubated with the secondary antibody. Then, the membranes were exposed with a gel imager (Gel Doc2000; Bio-Rad, Hercules, CA, USA).
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5

Protein Extraction and Western Blotting

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Radio immunoprecipitation assay (RIPA) lysis buffer (EpiZyme, Shanghai, China) was used to extract total protein from aortic tissues and HUVECs. The protein concentration was measured using the BCA detection method. Subsequently, the equivalent amount of protein was separated by 12.5% SDS‐PAGE, then wet transferred to PVDF membranes (Millipore, Boston, MA, USA) and blocked with 5% non‐fat milk for 1 h at 37°C, followed by incubated overnight at 4°C with the rabbit anti‐NLRP3 antibody (1:1000, ab263899, Abcam, MA, USA), rabbit anti‐cleaved caspase‐1 p20 antibody (1:2000, AF4005, Affinity, OH, USA), rabbit anti‐cleaved‐IL‐1β antibody (1:2000, AF4006, Affinity, OH, USA), rabbit anti‐GSDMD antibody (1:2000, AF4012, Affinity, OH, USA) or anti‐β‐actin antibody (1:1000, #4967, Cell Signaling Technology, USA). β‐actin served as the housekeeping protein control. After washing with TBST three times, the membranes were incubated with the relevant HRP‐conjugated secondary antibody at 37°C for 1 h. The chemiluminescence detection kits (Meilunbio, Dalian, China) were used to visualize protein bands. Finally, ImageJ software was used for densitometric analysis.
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6

Perihematomal Protein Analysis by Western Blot

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The Western blot was conducted as previously described.7 (link) Briefly, protein samples were obtained from the perihematomal area and BV2 cells using RIPA lysis buffer. Then, protein lysate was centrifuged for 20 min at 12,000 g at 4°C. After centrifuging, the supernatant protein solution was collected. After loading an equal amount of protein onto the gel, the electrophoresis procedure was initiated. The proteins were then transferred to PVDF membranes and blocked with a solution containing 5% bovine serum albumin (BSA) for 1 h at room temperature. After blocking, membranes were incubated with primary antibodies at 4°C overnight. The following primary antibodies were used: Dectin-1 (1:1000; ab140039, Abcam), NLRP3 (1:1000; ab263899, Abcam), ASC (1:2000; sc-33958, Santa Cruz Biotechnology), phospho-SYK (1:1000; AF3315, Affinity Biosciences), IL-18 (1:1000; 60070-1-Ig, Proteintech), GSDMD-N (1:1000; AF4012, Affinity Biosciences), caspase-1 (1:1000; 22915-1-AP, Proteintech), β-actin (1:1000; AF5003, Beyotime Biotechnology), and IL-1β (1:1000; 26048-1-AP, Proteintech). After washing three times with TBST, the membranes were incubated with secondary antibody at room temperature for 1 h and then washed a further three times. Finally, a Bio-Rad Molecular Imager was used to detect protein signals, which were quantified by Image J.
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7

Western Blot Analysis of Inflammatory Markers

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The samples added lysis buffer were incubated on ice for 15 min and centrifuged at 12,000 r/min. The supernatant was then gotten. After measuring the protein concentration in the samples via the bicinchoninic acid method, the samples were mixed with sodium dodecyl sulfate loading buffer and boiled for 15 min. Equal amounts of proteins were separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and transferred to a polyvinylidene fluoride membrane. Blocking with 5% skimmed milk solution or 5% bovine serum albumin solution, the membrane was cut into suitable strips and incubated with primary antibodies of MIF (88186, Cell Signaling Tech, Boston, Massachusetts, USA), NLRP3 (DF7438, Affinity Biosciences, Jiangsu, China), ASC (DF6304, Affinity Biosciences, Jiangsu, China), P-p65 (AF2006, Affinity Biosciences, Jiangsu, China), p65 (AF5006, Affinity Biosciences, Jiangsu, China), Caspase-1 (p45, p20) (22915-1-AP, Protein Tech, Wuhan, China), GAPDH (60004-1-Ig, Protein Tech, Wuhan, China), GSDMD and its N-terminal fragment (AF4012, Affinity Biosciences, Jiangsu, China) at 4 °C overnight. The strips of membrane were washed by 1× TBST solution and then incubated secondary antibodies. The bands of proteins were developed by an electrochemiluminescence imaging system (Tanon-5200, Shanghai, China).
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8

Western Blot Analysis of NLRP3 Inflammasome

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The protein from tissue or cultured cell was extracted using RIPA buffer (R0010, Solarbio, China). Lysates were obtained by centrifugation at 4°C with 12000 rpm for 15 min. Protein levels were quantified with a BCA protein assay kit (Beyotime Biotechnology, China). Then, total protein was separated via SDS-PAGE and transferred to polyvinylidene fluoride (PVDF) membranes (Lot#K5NA8025F, Millipore, USA). Block membranes with 5% skim milk TBS-T for 1.5 h. Incubate them overnight at 4°C with primary antibodies against NLRP3 (1 : 1000, ET1610-93, Huabio), ASC (1 : 1000, DF6304, Affinity), caspase-1 (1 : 1000, ET1608-69, Huabio), IL-1β (1 : 1000, AF5103, Affinity), GSDMD (1 : 1000, AF4012, Affinity), and GAPDH (1 : 1000, 181602, Abcam). The membranes were then washed with TBS-T, followed by incubation with secondary antibodies at room temperature for 1.5 h. After washing 3 times with TBS-T, blot signals were visualized by chemiluminescent kit (Millipore, USA).
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9

Western Blot Analysis of NLRP3 Inflammasome

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The total protein of MCs was extracted with RIPA lysis buffer. The protein samples were subjected to SDS-PAGE (8%–10%) separation and bound to the polyvinylidene difluoride membrane. Then the protein bands were blocked with 5% skim milk and incubated with a primary antibody against NLRP3 (A5652, 1;1,000, ABclonal Technology, Woburn, MA, USA), ASC (bs-6741R, 1:1,000, Bioss, Woburn, MA, USA), caspase-1 (GB11383, 1:1,000, Servicebio, Wuhan, China), TXNIP (14715, 1:1,000, Cell Signaling Technology, Danvers, MA, USA), GSDMD (AF4012, 1:1,000, Affinity Biosciences, Cincinnati, OH, USA), GAPDH (20770-1-AP, 1:1000, Proteintech, Wuhan, China), N-GSDMD (ab215203,1:1000, Abcam, Cambridge, MA, USA), and cleaved-caspase1 (sc-398715, 1:200, Santa Cruz, Dallas, TX, USA) overnight at 4°C. The horseradish peroxidase-labeled secondary antibody and ECL detection kit were used to detect the target proteins. The ratio of the gray value of the target protein to the corresponding GAPDH was the relative expression of the target protein.
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10

Immunofluorescence Analysis of Cartilage Proteins

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Immunofluorescence was performed as per standard protocols. The suitably treated chondrocytes were fixed with 4% PFA for 30 min and permeabilized in 0. 3% Triton X-100 at RT for 30 min. Tissue sections were treated with xylene and alcohol gradient, and heated in citric acid for antigen retrieval. After incubating with 10% serum for 1 h at RT to block non-specific binding, the cells or tissue sections were incubated overnight with primary antibodies against collagen II (1:200, Abcam, ab34712), MMP13 (1:200, Proteintech, 18165-1-AP), NLRP3 (1:200, Affinity, DF7438), GSDMD (1:100, Affinity, AF4012), p-IκBα (1:200, Affinity, AF2002) and p-p65 (1:1000, CST, 3033) at 4 °C. The following day, the cells or tissue sections were incubated with fluorochrome-conjugated rabbit or mouse secondary antibodies (1:300, Invitrogen, A-11008 anti-rabbit or A-11001 anti-mouse), and mounted with DAPI medium (Solarbio). The samples were observed under a fluorescence microscope (Olympus IX73), and the fluorescence intensity of the positively stained cells or tissue area was measured using Image J.
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