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5 protocols using p perk

1

Investigating ER Stress Pathways in PEDV Infection

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The ER stress inhibitor 4-phenylbutyrate (4-PBA) and a pancaspase inhibitor were obtained from MCE (Shanghai, China). All inhibitors were solubilized in dimethyl sulfoxide (DMSO; Solarbio, Beijing, China). Inhibitors were diluted, added to culture medium, and cultivated for an hour before infection. Antibodies against Bax, Bcl-2, caspase-3, caspase-9 and CHOP were purchased from Cell Signaling Technology (Danvers, MA, USA). Primary antibodies against GRP78, PERK, p-PERK, eIF2, p-eIF2, IRE1, p-IRE1, JNK, p-JNK and β-actin were purchased from ABclonal (Wuhan, China). An antibody against IRX1 was purchased from ABmart (Shanghai, China), and antibodies against Flag-tagged, GFP-tagged and PE-conjugated anti-mouse IgG were purchased from TRAN (Beijing, China). A polyclonal antibody directed against the PEDV (CH/SXYL/2016) N protein and PEDV Nsp9 protein was prepared in our laboratory.
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2

Western Blotting of UPR Proteins

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To analyze the levels of UPR‐associated proteins, Western blotting was conducted, as previously described.17 Briefly, frozen aortae and lungs were crushed to a fine powder in liquid nitrogen using a mortar and pestle, and then dissolved in radioimmunoprecipitation assay buffer containing protease and phosphatase inhibitors (Millipore Sigma) at 4°C. The cleared lysates were then suspended in SDS–PAGE sample buffer, separated by 4% to 12% NuPAGE, and blotted onto PVDF membranes. The membranes were then probed with primary antibodies against p‐PERK (Abclonal, #AP0886), p‐IRE1α (Thermo Fisher Scientific, #PA1‐16927), IRE1α (Cell Signaling Technology, #3294), ATF6α (Abcam, ab122897), p‐eIF2α (Cell Signaling Technology, #9721), p‐JNK (Cell Signaling Technology, #9255), CHOP (Cell Signaling Technology, #2895S), BiP (Cell Signaling Technology, #3183S), and cleaved caspase‐3 (Cell Signaling Technology, 9664), followed by incubation with the appropriate horseradish peroxidase–conjugated secondary antibodies (1: 5000 dilution). Membranes were developed with a chemiluminescent substrate and imaged using the KwikQuant Imager system (Kindle Biosciences, LLC). Target protein band densities were quantified and normalized to those of GAPDH, beta‐actin, or beta‐tubulin, as indicated. Band intensity data are expressed relative to the control group (Young/ND).
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3

Western Blot Analysis of Skeletal Muscle and Treated Cells

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Western blotting was performed as previously described [34 (link)]. In brief, skeletal muscle and treated cells were lysed in ice-cold RIPA buffer with PMSF protease inhibitor (Beyotime). The supernatant was obtained by centrifugation, and the concentration of protein was determined by a BCA assay kit (Beyotime). Equal amounts of proteins from different groups were loaded and separated on 6–15% SDS–PAGE gels, transferred onto nitrocellulose membranes (Pall Corporation) and blocked for 2 h at 37 °C with 5% milk-TBST. Membranes were incubated either overnight at 4 °C with primary antibodies against: SelK (Abcam, 1: 500), MyoD (Abclonal, 1:1000), MyoG (Abclonal, 1:1000), MyHC (Abclonal, 1:1000), GRP78 (Abclonal, 1:1000), ATF6 (Abclonal, 1:1000), phospho-IRE1 (p-IRE1, Abclonal, 1:500), phospho-PERK (p-PERK, Abclonal, 1:500), phospho-eIF-2α (p-eIF-2α, Abclonal, 1:1000), CHOP (Abclonal, 1:1000), LC3B (Abclonal, 1:1000), p62 (Abclonal, 1:1000), cleaved Caspase3 (cle-Cas3, Abclonal, 1:1000), Bcl2, Bax (My lab, 1:400) and GAPDH (Servicebio, 1:1000). Then, the membranes were washed with TBST three times and incubated with HRP-conjugated secondary antibodies (ImnunoWay, 1: 8000) at temperature for 1 h. The bands were visualized by using an ECL kit (Kangweishiji Biotechnology) and an Azure imaging Biosystem C300.
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4

Western Blot Assay Protocol for Diverse Proteins

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Western blot assays were performed as described previously18 (link). Due to the diversity of the target proteins to be tested, the membrane was usually cropped into 2–4 parts based on the molecular weight of the target proteins and then the corresponding antibody hybridization was performed. The primary antibodies used in this study included p-PERK (1:1000, Abclonal, AP0886), PERK (1:1000, Cell Signaling Technology, 2683), p-NRF2 (1:1000, Affinity, DF7519), NRF2 (1:1000, Cell Signaling Technology, 12721), p-STAT3 (1:1000, Cell Signaling Technology, 9139), STAT3 (1:1000, Cell Signaling Technology, 9145), p-c-Jun (1:1000, Cell Signaling Technology, 3270), c-Jun (1:1000, Cell Signaling Technology, 9165), MyoD (1:200, Santa Cruz Biotechnology, sc-377460), connexin 43 (1:2000, Proteintech, 26980-1-AP), CYP11A1 (1:1000, Cell Signaling Technology, 14217), CYP19A1 (1:1000, Abcam, ab18995), StAR (1:1000, Cell Signaling Technology, 8449s), and β-actin (1:5000, Proteintech, 20536-1-AP). The data were obtained from triplicates of each independent experiment. Raw data for each blot were shown in the Supplementary file.
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5

Western Blot Analysis of Endoplasmic Reticulum Stress

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Cells and tissues were lysed in radioimmunoprecipitation assay (RIPA) lysis buffer (Solarbio, Beijing, China). Samples were then cleared by centrifugation (12,000 rpm, 15 min, 4  °C). Equal amount of proteins (10–20 μg) were separated by SDS-PAGE and transferred to polyvinylidene difluoride (PVDF) membranes (Millipore, Billerica, MA, USA). The following primary antibodies were used: iPLA2β (Santa Cruz Biotechnology, Dallas, TX, USA), GRP78 (Santa Cruz Biotechnology, Dallas, TX, USA), calnexin (Abclonal, Wuhan, China), p-IRE1α, ATF6 (Proteintech, Rosemont, IL, USA), ATF4 (Proteintech, Rosemont, IL, USA), p-PERK (Abclonal, Wuhan China), p-eIF2α (Abclonal, Wuhan, China), CHOP, cleaved caspase-3, Bax, p-CaMKII, SERCA2 (Santa Cruz Biotechnology, Dallas, TX, USA), β-actin (MultiSciences, Hangzhou, China), PERK (Abclonal, Wuhan, China), eIF2α (Abclonal, Wuhan, China), CaMKII and GAPDH (MultiSciences, Hangzhou, China). After incubation with the corresponding secondary antibodies conjugated with horseradish peroxidase (HRP) (MultiScience, Hangzhou, China), proteins were detected using a BioRad ChemiDoc MP Imaging system with enhanced chemiluminescence. All other antibodies were purchased from Cell Signaling Technology (Beverly, MA, USA).
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