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10 protocols using p jun

1

Western Blot Analysis of Cellular Signaling

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For total protein extraction, cells were disrupted in RIPA (Applygen, Beijing, China) lysis buffer containing a Protease and Phosphatase Inhibitor Cocktail (Beyotime, Shanghai, China) at 4 °C for 30 min. The cell lysates were centrifuged at 12,000 × g for 10 min at 4 °C and the supernatants were collected. The BCA Protein Assay Kit (Beyotime, Shanghai, China) was used to quantify the protein concentrations of each sample. Protein aliquots were separated on 10% SDS-PAGE and proteins were transferred to polyvinylidenedifluoride (PVDF) membranes (Millipore, Billerica, USA). The blots were then blocked in 5% fat-free milk for 1 h at room temperature and incubated with primary antibodies at the recommended dilutions with gentle agitation overnight at 4 °C. The primary antibodies included SPHK1, ATF3, p-NF-κB-p65, NF-κB-p65, p-STAT3, STAT3, p-p38-MAPPK, p38-MAPPK, p-ERK1/2, ERK1/2, p-JNK, JNK, p-JUN and JUN (Cell Signaling Technology, Danvers, USA), PTX3 and GAPDH (Proteintech, Rosemont, USA). After washing, the blots were incubated with the corresponding HRP-linked secondary antibody (Cell Signaling, Danvers, USA). Stained bands were visualized with a Tanon 5200 Automatic Imaging System (Tanon, Shanghai, China) using a hypersensitive ECL solution (Applygen, Beijing, China).
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2

Western Blot Protein Detection Protocol

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Whole-cell lysates for western blotting were prepared as described [4 (link)], and protein lysates were resolved by 10% SDS-PAGE and transferred to polyvinylidene difluoride (PVDF) membranes (Invitrogen, Carlsbad, CA, http://www.invitrogen.com). Membranes were blocked with 5% non-fat milk for 1 h at room temperature and subsequently incubated overnight at 4°C with primary antibodies at the following dilutions: JUN, p-JUN, FOS, p-FOS, JUNB 1:500 (60A8, D47G9, 9F6, D82C12, C37F9, respectively; all from Cell Signaling Technology, Danvers, MA, http://www.cellsignal.com); Mn-SOD2 1:500 (06-984; Millipore, Billerica, MA, http://www.millipore.com); p21 and p53 1:200 (sc-756, sc-99, respectively; Santa Cruz); β-actin 1:5000 (8226, Abcam, Cambridge, MA, http://www.abcam.com); p16 1:500 (554079; BD Pharmingen, San Jose, CA, http://www.bdbiosciences.com); PKD/PKCμ, Phospho-PKD/PKCμ (Ser916), Phospho-PKD/KCμ (Ser744/748) 1:1000 (2052, 2051, and 2054, respectively; Cell Signaling Technology), were used for SER 910 and 938/942 detection respectively; SRF 1:500 (NBP1-61263; Novus Biologicals, Littleton, CO, http://www.novusbio.com). Signals were detected using the appropriate peroxidase-conjugated secondary antibody (Dako, Glostrup, Denmark, http://www.dako.com). Western blots were scanned and quantified by densitometry using ImageJ software (NIH, Bethesda, MD, www.nih.gov).
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3

Immunohistochemistry and Western Blotting Protocols

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The following antibodies were used in this study for immunohistochemistry: JUN (Abcam, catalog number ab40766: 1:250), β-III tubulin (the antigen recognized by the TUJ1 antibody) (Sigma Aldrich, catalog number: SDL3D10: 1:1,000), Neurofilament (Developmental Studies Hybridoma Bank, catalog number 2H3: 1:50), AP2α (Developmental Studies Hybridoma Bank, catalog number 3B5 concentrate: 1:50). Fluorescent secondary antibodies directed to the appropriate species were used (Jackson Immuno Research, 1:500).
The following antibodies were used for western blotting: pJUN (Cell Signaling Technology, catalog number D47G9: 1:1,000), JUN (Cell Signaling Technology, catalog number 9165: 1:1,000), JNKP (Cell Signaling Technology, catalog number 9251: 1:500), AKT473 (Cell Signaling Technology, catalog number 4060: 1:1,000), AKT (Cell Signaling Technology, catalog number 4691: 1:1000), GADPH (Synaptic Systems, catalog number 247 002: 1:1,000) and goat anti-rabbit:HRP (Cell Signaling Technology, catalog number 7074: 1:25,000).
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4

Immunohistochemical Analysis of IgAN Tissue

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Formaldehyde-fixed and paraffin-embedded tissue sections (4 mm thick) were used for immunohistochemistry as previously described (21 (link)). After dehydration, slides in citrate solution were subjected to a microwave antigen retrieval process. Primary antibodies were employed against the JUN (9165s, Cell Signaling Technology, USA), p-JUN (3270s, Cell Signaling Technology, USA), with periodic acid-Schiff (PAS) used instead of primary antibodies as negative controls for staining. Finally, horseradish peroxidase (HRP)-conjugated polymer (Abcam, USA) was used for the visualized detection under light microscopy (Nikon Tokyo, Japan). OD values were analyzed by ImageJ software (Media Cybernetics, USA). All the analyses were repeated no less than three times, and representative images are displayed. The use of renal specimens of IgAN patients was approved by the Ethics Committee of the Second Xiangya Hospital of Central South University according to the Declaration of Helsinki.
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5

Comprehensive Protein Analysis with Simple Western

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For total protein isolation, RIPA buffer (Cell Signaling Technology) containing protease- and phosphatase-inhibitor cocktails (Sigma-Aldrich) was used to lyse Dulbecco's phosphate-buffered saline (DPBS)-washed (Thermo Fisher Scientific) cell pellets on ice for 20 min. To remove debris, lysates were centrifuged at 4 °C and full-speed for 10 min. Afterward, the protein concentration was determined with the Pierce BCA Protein Assay Kit (Thermo Fisher Scientific).
If nothing else indicated, 0.2 mg/ml protein per 12–230 kDa capillary were used in a Simple Western analysis using the Wes instrument (ProteinSimple) as suggested by the manufacturer’s protocol. Antibodies against the following proteins were used in the indicated dilutions: CDH1 (#3195, Cell Signaling Technology, 1:1000 for 0.1 mg/ml protein), CDH2 (NBP1-48,309, Novus Biologicals, 1:100), ERK1/2 (#4695, Cell Signaling Technology, 1:50), HSP90 (sc-7947, Santa Cruz, 1:250 for 0.05 mg/ml and 0.2 mg/ml protein or 1:500 for 0.1 mg/ml protein), JUN (#9165, Cell Signaling Technology, 1:50), p-JUN (#9164, Cell Signaling Technology, 1:5), p-ERK1/2 (#4376, Cell Signaling Technology, 1:15), Vinculin (#13,901, Cell Signaling Technology, 1:30,000).
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6

Optimization of Glioblastoma Stem Cell Analysis

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TMZ and NEF (Synonyms: VX-745) were purchased from MedChemExpress (MCE, https://www.medchemexpress.cn/). TMZ and NEF were dissolved in dimethyl sulfoxide (DMSO) at concentrations of 100 mM and 10 mM, respectively. TMZ and NEF in solvent are stored at − 20 °C and used up within 1 month. The primary antibodies used in this study are listed as follows: β-actin (Cell Signaling Technology, 8480), CD44 (Cell Signaling Technology, 3570), C/EBPβ (Abcam, ab32358), YKL-40 (Cell Signaling Technology, 47,066), SOX2 (Cell Signaling Technology, 3579), γ-H2AX (Cell Signaling Technology, 7631), MDM2 (Abcam, ab259265), JUN (Cell Signaling Technology, 9165), p-JUN (Cell Signaling Technology, 3270), ubiquitin (Cell Signaling Technology, 3933), P38 (Cell Signaling Technology, 8690), p-P38 (Cell Signaling Technology, 4511).
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7

Profiling EGFR Signaling Pathways in Lung Cancer Cells

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All chemicals were purchased from Sigma unless stated otherwise. Antibodies directed to EGFR, ERBB2, ERBB3, ERBB4, MET, p-EGFR (Y-1068), and scrambled shRNA and JUN shRNA were purchased from Santa Cruz Biotechnology. The antibodies to MAPK, pMAPK, AKT, pAKT, PTEN, YES, pYES, FOS, p-FOS, JUN-B, JUN-D, CREB, pCREB, CHK2, pCHK2, p38α, p-p38α, p-JUN, and SRC as well as EGF Receptor (D38B1) XP® rabbit mAb (Sepharose® Bead Conjugate) were obtained from Cell Signaling. HCC827 (exon 19 del, E746-A750) and H3255 (exon 21 substitution, L858R), PC9 (exon 19 del), H4006 (exon 19 del), A431 (WT EGFR) cell lines were obtained from the ATCC and tested for mycoplasma (PCR) every 30 days. These cells were authenticated by ATCC utilizing Short Tandem Repeat (STR) profiling and used within 6 months of purchase. Gefitinib, AS601245, JNK-IN-8, canertinib, and erlotinib were obtained from LC Labs. The CellTiter96® AQeous Non-Radioactive Cell Proliferation Assay (MTS) was purchased from Promega. The receptor and kinase array were obtained from R&D Systems and used according to the manufacturer’s instructions.
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8

Antibody and Inhibitor Sources for Cell Signaling

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The antibodies to MAP1LC3B (#3868), actin (#3700), c-CASP8 (#8592 and #9496), C-CASP9 (#9505 and #9509), BAD (#9268), BBC3 (#4976), BAX (#2772), BCL2L1 (#2764), BCL2 (#2872), C-CASP3 (#9664), JNK (#9252), p-JNK (#9255), ERK (#4695), p-ERK (#4370), p38 (#8690), p-p38 (#4511), JUN (#9165), and p-JUN (#3270) were obtained from Cell Signaling Technology (Danvers, MA, USA). Monoclonal anti-HMGB1 neutralizing antibody (clone 2G7) was a gift from Dr. Kevin Tracey. Monoclonal anti-TFAM neutralizing antibody (clone F-6; #sc-166965) was obtained from Santa Cruz Biotechnology (Dallas, Texas, USA). Monoclonal anti-AGER neutralizing antibody (clone 697023; #MAB11795) was obtained from R&D System (Minneapolis, MN, USA). Spautin-1 (#S7888), 3-methyladenine (#S2767), LY294002 (#S1105), chloroquine (#S4157), bafilomycin A1 (#S1413), oxaliplatin (#S1224), Z-VAD-FMK (#S7023), necrostatin-1 (#S8037), necrosulfonamide (#S8251), ferrostatin-1 (#S7234), liproxstatin-1 (#S7699), SP600125 (#S1460), SB203580 (#S1076), SB239063 (#S7741), SCH772984 (#S7101), and LY3214996 (#S8534) were obtained from Selleck Chemicals (Houston, TX, USA). 5-fluorouracil (#F6627), TRAIL (#T5694), Mito-TEMPO (#SML0737), and CC-401 (#SML1613) were obtained from Sigma (St. Louis, MO, USA).
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9

Piper betle Stem Bioactivity Analysis

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The stems of Piper betle were collected in Pingtung County, Taiwan in July 2008, which were cultivated by local farmer and bornyl cis-4-hydroxycinnamate identified by Chi-I Chang, National Pingtung University of Science and Technology. Rabbit anti-human MMP-2, MMP-9, uPA, TIMP-1, TIMP-2, FAK, PI3K, p-PI3K, Akt, p-Akt, mTOR, p-mTOR, JNK, p-JNK, Jun, p-Jun, p38, p-p38, ERK, and p-ERK were obtained from Cell Signaling Technology (Danvers, MA, USA). GRB2, Rac, PKC, Ras, RhoA, MEKK3, MEKK7, N-cadherin, E-cadherin, Snail, and Lamin A2 antibodies were obtained from Epitomics (Burlingame, CA, USA). Dimethyl sulfoxide (DMSO), protease inhibitor cocktail, and rabbit anti-human β-actin antibodies were purchased from Sigma (St. Louis, MO, USA). PVDF (polyvinylidene difluoride) membranes and goat anti-rabbit and horseradish peroxidase-conjugated IgG were purchased from Millipore (Bellerica, MA, USA). Chemiluminescent horseradish peroxidase (HRP) substrate was purchased from Pierce (Rockford, IL, USA).
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10

Protein Isolation and Immunoblotting

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Protein isolation and immunoblotting were performed as described previously [19 (link)]. In brief, cells were rinsed twice with 1X PBS, shaken on ice for ten minutes with radio-immunoprecipitation assay (RIPA) lysis buffer supplemented with a cocktail of phosphatase inhibitors (10 mM sodium fluoride, 2 mM sodium orthovanadate, and 2 mM disodium beta-glycerophosphate) to lyse. Cell lysates were centrifuged at 13,000 RPM for 5 minutes and the resulting supernatant collected. Equal protein amounts for each sample were separated by SDS-PAGE and transferred onto a nitrocellulose membrane. Primary antibodies against JNK, p-JNK, c-Jun, and p-Jun were obtained from Cell Signaling Technology (Danvers, MA). MuRF1/Trim63, Atrogin-1/Fbox32 were purchased from Santa Cruz Biotechnology (Dallas, TX, USA). MyHC and beta-actin primary antibodies were obtained from Developmental Studies Hybridoma Bank (Iowa City, IA, USA). Beta-actin was used as a loading control. All primary antibodies were used at a dilution of 1:1000.
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