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13 protocols using af1015

1

Protein Expression Profiling in Cardiovascular and Immune Cells

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Total proteins were extracted from heart tissues or RAW264.7 cell lysates and supplemented with a cocktail of protease inhibitors and phosphatase inhibitors. Proteins were quantified to an equivalent amount, separated by SDS-PAGE gel, and electro-transferred to a PVDF membrane. Having been blocked in 5% skimmed milk, membranes were incubated with antibodies: anti-LFA-1 (ITGAL, Affinity Biosciences. DF5625, 1:1000), anti-p-JNK (Affinity Biosciences. AF3318, 1:1000), anti-total JNK (Affinity Biosciences. AF6138, 1:1000), anti-p-ERK (Affinity Biosciences. AF1015, 1:1000), anti-total ERK (Affinity Biosciences. AF0155, 1:1000), anti-p-p38(Affinity Biosciences. AF4001, 1:1000), anti-total p38 (Affinity Biosciences. AF6456, 1:1000) and GAPDH. The loading control was GAPDH (Proteintech, 60004-1-lg, 1:10000). Western blot bands were analyzed with the ChemiDicTM XRS + Imaging System (Bio-Rad Laboratories, Hercules, CA, USA), and the densities were quantified with Multi Gauge Software of Science Lab 2006 (FUJIFILM Corporation, Tokyo, Japan).
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2

Protein Expression Analysis by Immunoblot

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Total cell lysates were obtained from cells using 1× RIPA buffer (Beyotime, P0013B, Nanjing, China), according to the manufacturer's instructions. The samples were separated by SDS-PAGE and transferred to PVDF membranes. An immunoblot assay was employed for protein expression analysis. The following primary antibodies were purchased from Affinity Biosciences, OH, USA: an ERK1/2 antibody (AF0155), a phospho-ERK1/2 antibody (Thr202/Tyr204) (AF1015), a CDC42 antibody (DF6322), an AMPK alpha antibody (AF6423) a PI3-kinase p85-alpha antibody (AF6241), and a β-tubulin antibody (GS2006). The following antibodies were purchased from ProteinTech group, Inc., USA: a GAPDH antibody (60004-1), a CDK6 antibody (14052-1), and an IGF-1R-specific antibody (20254-1).
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3

Signaling Pathways Regulating Endothelin

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Endothelin receptor type A (ETRA) antagonist BQ123 and endothelin receptor type B (ETRB) antagonist BQ788 were purchased from Sigma (St. Louis, MO, USA). ET-1 (human, porcine) was purchased from Tocris Bioscience (Minneapolis, MN, USA). The NOX4 inhibitor GLX351322, secreted phospholipase (sPLA2) inhibitor varespladib, cytosolic PLA2α (cPLA2α) inhibitor CAY10650, ROS inhibitor N-Acetyl-D-cysteine (NAC), Src antagonist Src inhibitor 1, extracellular signal-regulated kinase (ERK) antagonist PD98059, and protein kinase B (Akt) antagonist LY294002 were purchased from Med Chem Express (Monmouth Junction, NJ, USA). Anti-NOX4 and anti-GATA4 antibodies were obtained from Abcam (ab133303, ab85163, ab117529, and ab84593, respectively; Cambridge, UK). The anti-Src antibody was from Millipore (04-889; Burlington, MA, USA). Anti-NOX2 antibody was obtained from Bioss (bs-3889R; Beijing, China). Anti-Akt, phospho-Akt (S473), and β-actin antibodies were acquired from Bioworld Technology (BS1008, BS4006, and AP0060, respectively; Nan Jing, China). Anti-ERK1/2, phospho-ERK1/2 (Thr202/Tyr204), cPLA2, and phosho-cPLA2 (Ser505) antibodies were obtained from Affinity (AF0155, AF1015, AF6329, and AF3329, respectively; Chang Zhou, China).
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Western Blot Profiling of Protein Expression

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Proteins were extracted by mixing RIPA lysate (R0010, Solarbio) and PMSF (P0100, Solarbio). The concentrations of proteins were assayed by the BCA kit (PC0020, Solarbio). According to different molecular weights, 5% concentrated gel and 8% separation gel concentrations were used in the SDS-PAGE. After transferred to a PVDF membrane, the proteins were blocked by prepared 5% (M/V) BSA (Biosharp, BS043, China) in TBST buffer for 1 h and incubated overnight at 4 °C with the following primary antibodies: α-SMA (1: 500), COL-I (1: 500, AF0134, Affinity), TGF-β1 (1: 1000, AF1027, Affinity), proliferating cell nuclear antigen (PCNA) (1: 500, A12427, Abclonal, China), p-MEK1/2 (1: 500, AP0209, Abclonal), MEK1/2 (1: 500, A4868, Abclonal), p-ERK1/2 (1: 500, AF1015, Affinity), ERK1/2 (1: 500, AF6240, Affinity) and GAPDH (1: 10000, 60004-1-Ig, Proteintech, China). Next, the membrane was incubated with goat anti-mouse IgG (1: 3000, SE131, Solarbio) or goat anti-rabbit IgG (1: 3000, SE134, Solarbio) secondary antibody for 40 min at 37 °C. At last, the specific protein bands were visualized with Western ECL Substrate (D1010, Solarbio).
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5

Western Blot Analysis of Signaling Proteins

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The cells were lysed with RIPA buffer, the concentration of proteins were determined by Bicinchoninic Acid detection kit (KeyGen Biotech Co., Ltd.). Immunoblots were performed with samples that contained total protein (30 µg), which had been separated by 12% SDS-PAGE gel and then transferred onto polyvinylidene difluoride membranes (EMD Millipore, Billerica, MA, USA). The membranes were incubated with primary antibodies against phosphorylated (p)-ERK1/2 (1:1,000; AF1015; Affinity Biosciences, Cincinnati, OH, USA), total (t)-ERK (1:1,000; AF6240; Affinity Biosciences), p-AKT (1:1,000; AF0016; Affinity Biosciences), t-AKT (1:1,000; AF4718; Affinity Biosciences), B-cell lymphoma (BCL)-2 (1:1,000; AF6139; Affinity Biosciences), BCL2 associated X (Bax; AF0120; 1:1,000; Affinity Biosciences) and GAPDH (1:1,000; AF7021; Affinity Biosciences), followed by incubation with a secondary antibody of goat anti-rabbit IgG-horseradish peroxidase (1:5,000; sc-2004; Santa Cruz Biotechnology, Inc., Dallas, TX, USA). Blots were developed using an enhanced chemiluminescence detection reagent (EMD Millipore). GAPDH was used as an internal loading control.
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6

Protein Expression Analysis in Lymphoma Cells

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Total protein was extracted from HMy2.CIR and DLBCL cells using ice-cold RIPA lysis buffer (Solarbio, Beijing, China) supplemented with proteinase inhibitors (Beyotime, China). Next, protein concentration was assessed using the BCA protein assay kit (Beyotime, China). Equal amounts (25 μg) of protein extracts were separated with 10% sodium dodecyl sulfate–polyacrylamide gel electrophoresis and transferred onto polyvinylidene fluoride (PVDF) membranes (Millipore, Burlington, MA, USA). The PVDF membranes were blocked with 5% nonfat milk for 2 h at room temperature, following incubation with the primary antibodies against HK2 (1:1,000, BF0283, Affinity), ERK1/2 (1:2,500, AF0155, Affinity), phospho-ERK1/2 (Thr202/Tyr204) (1:1,000, AF1015, Affinity), Bax (1:2,000, ab182733, Abcam), Bcl-2 (1:1,000, AF6139, Affinity), caspase-3 (1:500, ab13847, Abcam), E-cadherin (1:2,000, 20874-1-AP, ProteinTech), N-cadherin (1:1,000, AF6139, Affinity), and GAPDH (1:5,000, AF7021, Affinity) at 4°C overnight. After washing three times with TBST, the membranes were incubated with an anti-rabbit or anti-mouse HRP-conjugated secondary antibody for 1 h. Finally, bands were detected using an enhanced chemiluminescence (Beyotime, China) system and analyzed using ImageJ (v1.8.0, National Institutes of Health, USA).
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7

Western Blot Analysis of Heart Tissue Proteins

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Protein lysates were harvested from heart tissues. The proteins were separated using sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred onto polyvinylidene difluoride (PVDF, MilliporeSigma, Burlington, MA, USA) membranes. After being blocked with 5% non-at milk, the membranes were incubated with the following primary antibodies: anti-IFIT3 (1:1,000; A3924, ABclonal), anti-JNK (1:1,000; AF6318, Affinity, Changzhou, China), anti-p-JNK (1:1,000; AF3318, Affinity), p38 (1:1,000; AF6456, Affinity), p-p38 (1:1,000; AF4001, Affinity), ERK (1:1,000; AF0155, Affinity), p-ERK (1:1,000; AF1015, Affinity), collagen I (1:1,000; AF0134, Affinity), collagen III (1:1,000; AF0136, Affinity), α-SMA (1:1,000; AF1032, Affinity), and anti-β-actin (1:1,000; sc-47778, Santa Cruz Biotechnology, Dallas, TX, USA) at 4°C overnight. Next, the membranes were incubated with horseradish peroxidase (HRP) goat anti-rabbit IgG and HRP goat anti-mouse IgG (1:5,000; A0208/A0216, Beyotime) at 37°C for 45 min. Finally, the protein bands were visualized by using enhanced chemiluminescence liquid (ECL, Beyotime), and the OD values were analyzed by a Gel-Pro Analyzer (Liuyi, Beijing, China).
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8

Western Blot Analysis of Inflammatory Markers

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Total proteins from cultured hGFs were extracted using radioimmunoprecipitation assay (RIPA) lysis buffer on the ice. The protein concentration was determined via a Nanodrop. Proteins at 10 μL per lane were separated by 4–20% SDS-PAGE (Beyotime, China) and then transferred onto PVDF membranes (Merck, Germany), which were blocked with 5% bovine albumin and then incubated with primary antibodies to MAT2A (1:1000; 55309–1-AP; Proteintech, China), IL-1β (1:1000; BJ11258993; Bioss, China), TNF-α (1:400; GB11188; Servicebio, China), IL-6 (1:1000; 21865–1-AP; Proteintech, China), MCP-1 (1:1500; ab25124; Abcam, USA), P65 (1:1000; 8242S; CST, Germany), Erk (1:1500; GB11560; Servicebio, China), P38 (1:1000;8690S; CST, Germany), JNK (1:1000; AF6318; Affinity, USA), p-P65 (1:1000; 3033S; CST, Germany), p-Erk (1:1000; AF1015; Affinity, USA), p-P38 (1:1000; 4511S; CST, Germany), p-JNK (1:1000;4668S; CST, Germany) and β-ACTIN (1:50000; 66009-l-Ig; Proteintech, China). After the incubation step, membranes were washed again 3 times and incubated with secondary antibodies. Images were provided with ImageQuant LAS 4000 (USA). The intact optical density for the protein band was calculated by the ImageJ software.
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9

Western Blot Analysis of Protein Expression

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Total protein was prepared by extracting the supernatant after lysing tissues or cells with RIPA lysis buffer (Elabscience, E‐BC‐R327) and subsequently adding a loading buffer (wshtbio, ES003). The proteins were resolved using a 12.5% SDS‐PAGE gel (Epizyme, Shanghai, China) and subsequently blotted onto 0.22 μm nitrocellulose membranes (Millipore, America). After incubation with 5% BSA for 1 hour at room temperature, the membrane was incubated with primary antibody overnight at 4°C. The primary antibodies used were as follows: anti‐GAPDH (1:1000; Elabscience, E‐AB‐40337), anti‐CCR6 (1:1000; SinoBiogical, #106771‐T32), anti‐IL‐17A (1:1000; Affinity, DF6127), anti‐CCL20 (1:1000; Affinity, DF2238), anti‐P65 (1:1000, Affinity, AF5006), anti‐Phospho‐P65 (1:1000, Affinity, AF2006), anti‐ERK1/2 (AF0155), anti‐Phospho‐ERK1/2 (1:1000, Affinity, AF1015), anti‐P38 (1:1000, Affinity, AF6456), anti‐Phospho‐P38 (1:1000, Affinity, AF4001), anti‐mTOR (1:1000, CST, 2983 T), anti‐Phospho‐mTOR (1:1000, CST, 5536 T), anti‐AKT (1:1000, CST, 4691 T) and anti‐Phospho‐AKT (1:1000, CST, 4060 T). Then the bands were incubated with the secondary antibodies (1:5000; Elabscience, E‐AB‐1003), which was derived from rabbit and conjugated with HRP. Subsequently, blots were captured with an ECL luminescence system (ClinX, Shanghai, China). The gels were quantified and analysed using ImageJ.
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10

Protein Expression Analysis in Hippocampal Tissue and SH-SY5Y Cells

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The mice were administered 1% pentobarbital sodium and decapitated. Then, bilateral hippocampal tissues were immediately collected. SH-SY5Y cells were collected after exposure. Cells and lysed tissues in RIPA buffer supplemented with protease and phosphatase inhibitors were collected. Protein concentrations were measured with BCA reagent (P0006, Beyotime Biotechnology, China). Protein samples (20 μg) were separated by SDS‒PAGE (10% separation gel) and transferred to a PVDF membrane (Merck and Co., Inc., Whitehouse Station, NJ, United States, Germany). After blocking with TBST containing 5% nonfat milk for 1 h, the membranes were incubated with Gpx4 (ab125066, 1:1000; Abcam), Hmox-1 (ab189491, 1:2000; Abcam), P2rx7 (ab259942, 1:1000, Abcam), phospho-Erk1/2 (AF1015, 1:1000; Affinity Biosciences), Erk1/2 (AF0155, 1:1000; Affinity Biosciences), phospho-p38 (AF4001, 1:1000; Affinity Biosciences), p38 (AF6456, 1:1000; Affinity Biosciences), phospho-Jnk (AF3318, 1:1000; Affinity Biosciences), and Jnk (AF6318, 1:1000; Affinity Biosciences) overnight at 4 °C. The next day, following three washes in TBST, the membranes were incubated with horseradish peroxidase (HRP)-conjugated anti-rabbit IgG (A0208, 1:2000, Beyotime) or anti-mouse IgG (A0216, 1:2000, Beyotime) at room temperature for 1 h. The protein levels were normalized to GAPDH (#5174, 1:1000, Cell Signaling Technology).
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