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8 protocols using hdac8

1

Immunoblot Analysis of Apoptosis Regulators

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Immunoblots were carried out as described by our group [23 ,24 (link)]. Original immunoblots see File S1. Antibodies used for this assay were: BCL-XL (#ab32370), survivin (#ab134170), p21 (#ab109520), BAX (#ab32503), BAK (#ab32371), BIM (#ab32158), HDAC3 (#ab32369), GAPDH (#ab128915) from Abcam, Cambridge, UK; MCL-1 (#sc-819), HDAC8 (#sc-374180), HSP90 (#sc-13119), vinculin (#sc-73614) from Santa Cruz Biotechnology, Heidelberg, Germany; cleaved caspase-3 (#cs9661), PARP1 (#cs9542), BID (#cs2002), HDAC1 (#cs34589), HDAC2 (#cs5113), histone H3 (#cs14269), ac-histone H3 (K9) (#cs9649), ac-histone H3 (K18) (#cs9675), ac-histone H3 (K27) (#cs8173) from Cell Signaling, Leiden, The Netherlands; ac-tubulin (#T7451) from Sigma-Aldrich, Taufkirchen, Germany; ac-histone H3 (#06-599) from Merck Millipore, Burlington, MA, USA; and NOXA (#ALX-804-408) from Enzo Life Sciences, New York, NY, USA. HSP90, GAPDH, and vinculin served as independent housekeeping proteins to normalize protein loading. The protein ladders used were the PageRulerTM pre-stained protein ladder (#26616) and the PageRulerTM Plus pre-stained protein ladder (#26619) from Thermo Fischer Scientific, Waltham, MA, USA.
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2

Prostate Cancer Cell Apoptosis Pathway

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Human prostate LNCaP and Du145 cells were obtained from the American Type Culture Collection (Manassas, VA) and cultured in RPMI supplemented with 10% fetal bovine serum (FBS; Gibco-BRL, MD) and 1% antibiotic-antimycotic solution in a humidified 5% CO2 atmosphere at 37°C. Antibodies against cleaved caspase-3, caspase-7, caspase-8, caspase-9, PARP, Survivin, XIAP, cIAP-2, BID, BAX, DR5, BCL-2 and acetylated p53 (Ac-p53) antibodies were purchased from Cell Signaling Technology (Beverly, MA). Anti-HDAC1, HDAC2, HDAC3, HDAC8, FLAG, p53, and actin antibodies were purchased from Santa Cruz Biotechnology (Dallas, TX). Anti-FLAG and β-actin antibodies were purchased from Sigma-Aldrich (St. Louis, MO). The anti-mouse or anti-rabbit secondary antibodies were purchased from Pierce (Rockford, IL). Delphinidin and TRAIL were obtained from Sigma-Aldrich (Fig. 1A).
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3

Immunoblotting Protocol for Cell Signaling

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For immunoblotting, whole cell protein extracts were prepared with lysis buffer (50 mM Tris-HCl pH 7.4, 150 mM NaCl, 50 mM NaF, 1 mM EDTA, 10-% NP-40, 1% Triton-X and protease inhibitors), subjected to SDS-PAGE (10 or 12%) and blotted onto PVDF membranes (Roth, Karlsruhe, Germany). Primary antibodies against PARP, CDK4, CDK1, cyclin B1, cyclin E, p21, HDAC1, HDAC2, HDAC3, HDAC8, and β-actin were purchased from Santa Cruz Biotechnology (Santa Cruz, CA, US). Anti-p27Kip1, -cyclin D1, -CDK2, -phosphoCDK2 (Thr160), -phosphoCDK4 (Thr172), and -phosphoH2AX (Ser139) were purchased from Cell Signaling Technology (Danvers, MA, US), and anti-p53 from Dako (Glostrup, Denmark). Blots were developed using corresponding horseradish peroxidase- conjugated secondary antibodies (Dako, Jena, Germany) at room temperature for 1 h and the Amersham™ ECL™ prime western blotting detection reagent (GE Healthcare) in accordance with the manufacturer‘s protocol. Chemiluminescence signals were detected by the ChemiDocTouch Imaging System (BioRad Laboratories Inc., Herkules, CA) and images were processed using ImageLab 5.2 Software (BioRad Laboratories Inc.), normalized to their loading controls and expressed as fold-change (Δ) compared to controls.
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4

Cell Signaling Protein Expression Analysis

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The antibodies specific for HDAC1, HDAC2, HDAC3, HDAC8, Cip1/Waf1/p21, p16, CDK2, CDK4, β-Actin, histone H3, and secondary antibodies horseradish peroxidase-linked anti-mouse IgG, anti-rabbit IgG, and anti-goat IgG were purchased from Santa Cruz Biotechnology (Santa Cruz, CA). Antibodies for cyclin D1, cyclin D2, cyclin E, CDK6 and p53 were obtained from Cell Signaling Technology, Inc. (Denver, MA). MG132, Valproic acid (VPA) and other chemicals of analytical grade were purchased from Sigma-Aldrich Corp. (St. Louis, MO).
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5

Melanoma Cell Lines Characterization

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The human melanoma cell lines A375 and A2058 used in this study were obtained and grown as previously described [32 (link)]. The following reagents and primary antibodies were used: HDAC1, rabbit, Santa Cruz SC-7872; HDAC2, mouse, Santa Cruz SC-9959; HDAC3, rabbit active motif 40968 IB; HDAC4, rabbit, active motif 40969; HDAC5, mouse, Santa Cruz SC-133225; HDAC6, rabbit, Santa Cruz SC-11420; HDAC7, mouse, Santa Cruz SC-74563; HDAC8, mouse, Santa Cruz SC-17778; anti-HDAC9 antibody (ab18970), Abcam; anti-HDAC10 antibody (ab18971), Abcam; anti-HDAC11, ab18973, abcam; anti-ERK (tERK), anti-phospho-ERK (pERK), anti-AKT (tAKT), anti-phospho-AKT-T308 (pAKT-T308), anti-phospho-AKT-S473 (pAKT-S473), anti-caspase 3, anti-cleaved caspase 3, anti-caspase 8, anti-cleaved caspase 8, anticaspase 9, anti-cleaved caspase 9 (Cell Signaling Technology, Danvers, MA, USA), anti-EGFR (tEGFR), anti-Cathepsin-D, anti-VEGF, anti-MMP9, anti-E-cadherin, and anti-GAPDH (Santa Cruz Biotechnology Inc., Santa Cruz, CA, USA). Lipofectamine 2000 reagent was obtained from Invitrogen (Carlsbad, CA, USA, Cat. No 11668-019).
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6

Protein Expression Analysis by Western Blot

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Western blotting was performed as previously described.15 (link) The following primary antibodies were used: antibodies against HDAC8, Epac1, Epac2 and glycogen synthase kinase-3β (GSK-3β) were purchased from Santa Cruz Biotechnology; antibodies against cAMP response element binding protein (CREB), p-CREB, p-PKA substrates, Rap1, p-Akt, Akt, p-GSK-3β, p-β-catenin, p-MKK4, MMK4, p-JNK, JNK, Myc, poly (ADP-ribose) polymerase (PARP), cleaved caspase-3 and cleaved caspase-9 were purchased from Cell Signaling Technology (Beverly, MA, USA); antibodies against TIPRL were purchased from Abcam (Cambridge, UK); an antibody against β-actin was purchased from Sigma-Aldrich. The proteins were visualized with the Enhanced Chemiluminescence (ECL) reagent (Thermo Fisher Scientific, Waltham, MA, USA) and detected using an LAS-3000 luminescent image analyzer (Fuji, Tokyo, Japan). The densities of the visualized bands were quantified using the Multi Gauge v.2.3 software (Fuji). The densities were normalized to corresponding control densities and expressed relative to the control.
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7

Western Blot Analysis of Epigenetic Markers

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20 μg of total cell lysates were subjected to a 10% polyacrylamide sodium dodecyl sulfate - polyacrylamide gel electrophoresis (SDS-PAGE) and blots were transferred onto polyvinylidene difluoride (PVDF) membranes. The membranes with the blots were then incubated with 5% non-fat milk in PBS with Tween-20 for 1 h to prevent non-specific binding before being incubated overnight at 4 °C in specific primary antibodies against HDAC1, HDAC7, HDAC8, E-cadherin, Vimentin, Ac-H3, Ac-H4, H3K4me2, H3K9me2 and Histone H3 (Santa Cruz Biotechnology, CA, USA) followed by incubation in peroxidase - conjugated secondary antibody at room temperature for 1 h, washed with PBST three times, then the protein signals were observed using the UVP BioSpectrum system (Analytic Jena Company).
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8

Western Blot Analysis of Cell Signaling Proteins

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Following the treatment under the indicated conditions, cell extracts were prepared with lysis buffer from cell signaling containing protease inhibitor. The lysates were centrifuged at 20,000× g for 20 min at 4 °C and used for Western blot analysis. Proteins were separated via SDS-PAGE and then transferred to nitrocellulose membranes. The membranes were blocked for 30 min in 5% (w/v) non-fat skim milk in phosphate-buffered saline (PBS) containing 0.05% Tween-20 (PBST). The blocked membranes were incubated with the indicated antibody for 2 h or overnight at 4 °C. After washing with 1× PBST, the membranes were incubated with either anti-mouse or anti-rabbit horseradish peroxidase (HRP)-conjugated antibody (Thermo Scientific, Rockford, IL, USA) for 1 h, and visualized using the FUSION-SOLO imaging system (Vilber Lourmat, ZAC de Lamirault, France). Antibodies against BAX, Bcl-2, p21, p53, PARP-1, caspase-3, caspase-7, caspase-8, caspase-9, HDAC1, HDAC2, HDAC3, and HDAC8 were purchased from Santa Cruz Biotechnology. Antibodies against acetylated-p53 (K373, K381, and K382) and ERα were obtained from Merck Millipore (Darmstadt, Germany). Anti-β-actin antibodies were bought from Sigma-Aldrich (St. Louis, MO, USA).
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