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15 protocols using anti p53 fl393

1

Comprehensive Western Blot Analysis of Cell Signaling

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Western blot analyses were performed as previously described [50 , 51 ]. Briefly, the cells were washed twice with PBS and lysed via sonication in lysis buffer (50 mM Tris-HCl, pH 7.5; 1% NP-40; 1 mM Na3VO4; 150 mM NaCl; 20 mM Na4P2O7; 100 mM NaF; 1% Na-deoxycholate; 0.1% SDS; 1 mM EDTA; phosphatase inhibitor cocktail (Sigma) and protease inhibitor cocktail (Sigma)). The samples were separated on 6–15% SDS-PAGE gels, transferred to nitrocellulose membranes (Protran BA83, Whatman) and immunostained. The following primary antibodies and dilutions were used: Anti-p21 [C-19] 1:200 (Santa Cruz, #sc-397), anti-p53 [FL-393] 1:200 (Santa Cruz, #sc-6243), Anti-p16 (M-156) 1:200 (Santa Cruz, #sc-1207), anti-pRb 1:500 (BD-Pharmingen), anti-phospho-pRb (Ser807/811) 1:1000 (Cell Signaling), anti-phospho-histone H2A.X (Ser139) 1:1000 (Millipore 05–636) and monoclonal anti-α-tubulin 1:1000 (Sigma 9026). Horseradish peroxidase-labeled rabbit anti-mouse (Amersham, diluted 1:3000) and goat anti-rabbit (Abcam, #6721, diluted 1:3000) secondary antibodies were used. The proteins were visualized using an ECL detection system (Amersham Biosciences).
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2

Western Blot Analysis of Protein Levels

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Standard western blot assays were used to analyze the levels of protein [14 , 37 (link)]. Anti-p53 (FL393, 1:2 000 dilution, Santa Cruz), anti-MDM2 (2A10, 1:1 000), anti-Flag (F7425,1:10 000 dilution, Sigma), anti-BAG5(ARP61996-P050, 1:1 000 dilution, Aviva Systems Biology, San Diego, CA, USA), anti-HA (sc-7392, 1:2 000 dilution, Santa Cruz), anti-CHIP (sc-66830, 1:1 000 dilution, Santa Cruz), anti-cleaved-Caspase 3 (D175, 1:1 000 dilution, Cell Signaling, Danvers, MA, USA) and anti-β-actin(A5316, 1:20 000 dilution, Sigma) antibodies were used to determine the levels of p53, MDM2, Flag-BAG5, BAG5, HA-BAG5, CHIP, cleaved caspase 3 and β-actin, respectively.
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3

Western Blot Analysis of p53 Signaling

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For WCEs, tissues were lysed with RIPA buffer (50 mMTris–Cl, pH 7.5, 150 mMNaCl, 1% NP-40, 0.5% Na deoxycholate, 0.1% SDS, 1 mM EDTA) supplemented with a cocktail of protease inhibitors (Roche, Basilea, CH, Switzerland).
For Western blot, all SDS–PAGE were transferred onto PVDF membranes (Millipore, Burlington, MA, USA). Membranes were developed using the enhanced chemiluminescence (ECL Amersham, Little Chalfont, UK and Cyanagen, Bologna, Italy) by the chemiluminescence imaging system Alliance 2.7 (Uvitec, Cambridge, UK) and quantified by the software Alliance V_1607.
The following primary antibodies were used: anti-p53 FL-393 1:1000 (#sc- 6243 Santa Cruz Biotechnology Inc., Dallas, TX, USA), anti-p53 1C12 1:1000 (#2524 Cell Signaling Technology Inc, Danvers, MA, USA), anti-p21 F-5 1:1500 (#sc- 6246 Santa Cruz Biotechnology Inc., Dallas, TX, USA), α-GAPDH 1:8000 (#GA1R, ThermoFisher, Waltham, MA, USA), HRP α-goat 1:8000 (#Sc-2768 Santa Cruz Biotechnology Inc., Dallas, TX, USA), HRP α-mouse 1:5000 (Bio-Rad, Hercules, CA, USA), anti-Bax N-20 1:1000 (#sc-493 Santa Cruz Biotechnology Inc., Dallas, TX, USA), anti-Mdm2 mix of clone Ab1 1:1000 (#OP46, Merck KGaA, Darmstadt, Germany) and 2A10 1:1000 for human Mdm2 (#MABE281, Merck KGaA, Darmstadt, Germany).
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4

Northern and Western Blotting of MEG3 and p53

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For Northern blotting, total RNAs were isolated using TRIzol reagent according to the manufacture's instruction (Life Technology). Northern blotting was performed to detect MEG3 transcripts using the NorthernMax kit from Life Technology. Ten µg total RNA for each sample was loaded with dye containing ethidium bromide on 1.5% agarose gel. After electrophoresis, resolved RNAs were transferred to a Nytran membrane using a TurboBlotter from GE Healthcare (Pittsburgh, PA). The membrane was hybridized with MEG3 cDNA probe labeled with [α-32P]dCTP using the Ready-To-Go DNA Labeling Beads from GE Healthcare. After washing, the membrane was exposed to a storage phosphor screen and analyzed by GE Storm 860 phosphor imager. The membrane was then stripped and re-probed to detect GAPDH as the internal control.
For Western blotting, total protein was isolated by lysis of cells with RIPA buffer containing protease inhibitor cocktail from Sigma Aldrich (P8340). Ten µg of total protein was resolved by 10% SDS-PAGE. After transfer to a PVDF membrane, the blot was probed with anti-p53 (FL393, Santa Cruz Biotechnology, Santa Cruz, CA) or anti-β-actin antibody (C4, Santa Cruz Biotechnology). P53 and β-actin were detected using Pierce ECL Plus Western blotting substrate (LifeTechnology) on a C-DiGit blot scanner (LI-COR Biotechnology, Lincoln, NE).
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5

Cell Death Signaling Pathway Assays

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Chemicals used are listed as follows: etoposide (Sigma), diamide (Sigma), tert-butyl hydroperoxide (Sigma), diphenyleneiodonium (Sigma), N-acetyl-L-cysteine (Sigma), ferrostatin-1 (Sigma), necrostatin-1 (Sigma), GSK'872 (EMD Millipore), deferoxamine (Sigma), and Tiron (Sigma). Antibodies used are listed as follows: anti-FLAG (M2, Sigma), anti-p53 (FL393, Santa Cruz Biotechnology), anti-p63 (4A4, Santa Cruz Biotechnology), anti-GCLC (HPA036359, Sigma), anti-IDH2 (ab55271, Abcam), anti-RIP1 (610458, BD Biosciences), and anti-β-Actin (A1978, Sigma). Cell lysates were resolved by NuPAGE gels (Invitrogen), transferred onto PVDF membrane (Immobilon-P, Millipore). Antibody detection was accomplished using enhanced chemiluminescence method (Western Lightning, PerkinElmer) and LAS-3000 Imaging system (FUJIFILM).
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6

Mouse C2C12 Myoblast Characterization

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Mouse C2C12 myoblastic cells were purchased from the European Collection of Animal Cell Cultures (ECACC). Reagents were purchased from Sigma Chemical Co. (St. Louis, MO, USA). Primary antibodies against AKT (C-20), calnexin (H-70), CAMKII (M-176), ERK1 (K-23), ERK2 (C-14), GAPDH (FL-335), IGF-1 receptor β (C-20), Myf5 (c-20), MyHC (H-300), MyoD (C-20), myogenin (D-10), pERK1/2 (E-4), anti-p53 (FL-393), p70S6 (C-18), pp70S6 (sc-7984), SOD2 (FL-222), peroxidase-conjugated secondary antibodies for Western blot analysis and rhodamine-conjugated antibodies for Immunofluorescence analysis were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Primary antibodies phospho-AKT (Ser473) (D9E) XP and phospho-AMPK alpha (Thr172) (40H9) were purchased from Cell Signaling Technology (Danvers, MA, USA). Antibody against Phalloidin (Alexa Fluor 488 Phalloidin, molecular probes-Invitrogen) was purchased by Life Technologies (Carlsbad, California, USA).
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7

Comprehensive RNA Expression Analysis

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Total RNA, extracted with the Quick-RNA MiniPrep (Zymo Research) and retrotranscribed with SuperScript VILO (Thermo Fisher Scientific) or miScript II RT (QIAGEN), was analyzed by real-time qRT-PCR with SYBR Green PowerUP (Thermo Fisher Scientific) or SYBR Green PCR Master Mix (QIAGEN). For miRNAs 384 array, RNA retrotranscribed using the TaqMan MicroRNA RT Kit was analyzed using the TaqMan Human MicroRNA Array A (Thermo Fisher Scientific). Primers sequences are reported in Table S4. Western blot analysis was carried out using anti-p53 (fl-393; Santa Cruz) and anti-GAPDH (sc-32233) antibodies.
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8

ChIP Assay of p53 in Irradiated Mice

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Chromatin immunoprecipitation (ChIP) assay was performed using ChIP-IT High Sensitivity kit (#53040, Active Motif) according to the manufacturer’s protocol. Liver tissues from whole body irradiated mice were minced into small pieces and cross-linked with 1% formaldehyde for 10 min. Nuclear extracts were sonicated and immunoprecipitated with anti-p53 (FL393, #sc-6243, Santa Cruz) or control rabbit IgG (#sc-2027, Santa Cruz) overnight at 4 °C. Antibody-bound DNA fragments were purified and quantified by real-time PCR (primers listed in Supplementary Table 1). Ct values were normalized to input DNA Ct values and displayed relative to wild-type non-specific IgG samples.
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9

Immunoblotting Assay for Protein Quantification

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The cell and tissue protein were prepared with 1% NP-40 cell lysis buffer (50 mM Tris HCl [pH 8.0], 120 mM NaCl, 1% NP-40) containing 1 mM dithiothreitol, and phosphatase inhibitor cocktails I and II (Sigma). The protein was subjected to sodium dodecyl sulfate polyacrylamide gel electrophoresis for further analysis. The following lists the primary antibody information: anti-SKP2 (H435, Santa Cruz Biotechnology), anti-p53 (FL-393, Santa Cruz Biotechnology), anti-cleaved caspase 3 (ab2302, Abcam, Cambridge, MA), anticytochrome C (ab13575, Abcam), anti-Bax (N-20, Santa Cruz Biotechnology), anti–cleaved poly(ADP-ribose) polymerase (PARP; 9545, Cell Signaling Technology, Beverly, MA), antiactin (I-19, Santa Cruz Biotechnology), anti-Flag (F7425, Sigma-Aldrich), anti–c-Myc (9E10, Santa Cruz Biotechnology), anti-p21 (ab18209, Abcam), anti-Puma (ab9643, Abcam), and anti-Mdm2 (SMP14, Santa Cruz Biotechnology). The quantified relative ratios of remaining SKP2 were obtained by densitometry using Image J software, and the data at 0 hour was set to 1.
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10

Protein Expression Analysis by Western Blot

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Standard western blot assays were used to analyze protein expression in cells. The following antibodies were used for assays: anti-Flag-M2 (F1804, Sigma; 1:20,000 dilution), anti-β-Actin (A5441, Sigma; 1:10,000 dilution), anti-Myc (9E10, Roche, Indianapolis, IN; 1:1000 dilution), anti-HA (3F10, Roche; 1:1000 dilution), anti-Rac1 (23A8, Millipore, Billerica, MA; 1:5000 dilution), anti-p-PAK (Ser199/204) (09–258, Millipore; 1:1000 dilution), anti-PAK (07–1451, Millipore; 1: 1000 dilution), anti-p53 (FL393, Santa Cruz, Dallas, TX; 1:2000 dilution), anti-Tiam1 (sc-872, Santa Cruz; 1:2000 dilution), anti-VAV1 (sc-8039, Santa Cruz; 1:1000 dilution). The anti-GLS2 antibody (1: 1000 dilution) was prepared as previously described (Hu et al., 2010 (link)). To increase the sensitivity of the GLS2 antibody, endogenous GLS2 in cells was pulled down by IP and detected by western blot assays. The band intensity was quantified by digitalization of the X-ray film and analyzed with the ImageJ software.
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