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13 protocols using pkf118 310

1

Wnt/β-Catenin Pathway Modulation in IoN

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To investigate the impact of Wnt/β-catenin-mediated pathways on IoN pathophysiology, PKF 118-310 (a Frizzled-independent Wnt pathway antagonist that prevents the nuclear translocation of β-catenin) was injected in the close vicinity of the right IoN using an intraoral transmucosal injection technique as previously described.5 Each injection consisted of 50 µL of either PKF 118-310 (50 μM; Sigma-Aldrich, Saint-Quentin Fallavier, France) or vehicle (NaCl 0.9%). Rats were pretreated 24 h before surgery (three injections spaced 6 h apart), with the last injection occurring during the surgical procedure (one half of injection volume deposited on the exposed nerve and the other half injected transmucosally after suture of the oral mucosa). Evaluation of resulting molecular alterations and/or BNB permeability was performed 3 h after last perineural injection. After sacrifice, IoN samples were harvested and immediately frozen in liquid nitrogen then stored at −80℃, except for BNB permeability assessment (see “Evaluation of BNB permeability” section).
All the procedures described above were performed by the same investigator (NM) so as to ensure the homogeneity and comparability of resulting data.
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2

Dual Luciferase Assay for Wnt Signaling

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HEK293T or Mel888 cells were transfected in a 12-well plate with 500 ng (3 μg for Mel888) of pGL 4.35 (Promega) and different GAL4 constructs (GAL4, TCF7-GAL4 and ΔβCat-TCF7-GAL4), and 25 ng of RL-TK (75 ng for Mel888). After 24 h the cells were lysed with Passive Lysis Buffer and light intensity was measured on a Victor multilabel plate reader (PerkinElmer) using the Promega Dual-Luciferase® Reporter Assay System (catalog number: E1910) according to the manufacturer’s instructions. For each well, firefly luciferase activity was normalized to Renilla activity. In the experiments with PKF 118-310 the results were normalized to either GAL4 or the mutant Lambda B1 reporter because of interference of PKF with Renilla luciferase activity. Previously, other drugs have also been reported to interfere with luciferase activity54 . The used inhibitors were CHIR-99021 (Selleck Chem—S1263) and PKF 118-310 (Sigma-Aldrich—K4394). The Mel888 cells were kindly provided by the lab of prof. L. Larue. The SPI1 luciferase reporter genes were kindly provided by the lab of prof. O. Bernard.
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3

Novel SAHA-Based Epigenetic Modulation

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Suberoylanilide hydroxamic acid (SAHA) or Vorinostat (Cayman, Germany), Lysotracker Red DND-99 (Invitrogen, Germany), B27 supplement 1:50 (Invitrogen, UK), Anti-E-cadherin (Cell signaling, Danvers, MA, USA), Anti-Snail (Cell signaling, Danvers, MA, USA), Anti-β-actin (Santa Cruz Biotech, CA, USA) primary antibodies and Tetrachloroauric acid (HAuCl4‚3H2O)(Acros organics, USA) were purchased. Sodium borohydride (NaBH4), L-ascorbic acid, Cetyltrimethylammonium bromide (CTAB), Sodium thiosulfate, Silver nitrate (AgNO3), RPMI-Medium (Biosera, France), Fetal bovine serum (FBS)(Gibco, USA), Penicillin/streptomycin (Biowest, France). TWEEN20, Dimethyl sulfoxide (DMSO), and formaldehyde were all purchased from Merck (Merck, Germany). PKF118-310, 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyl tetrazolium bromide (MTT), 4′,6-diamidino-2-phenylindole (DAPI), Fluorescein isothiocyanate (FITC), and Human Epidermal Growth Factor were purchased from Sigma Aldrich. Human plasma was obtained from the Blood Transfusion Organization (IRAN) and then aliquoted and stored at −80°C. SAHA was dissolved in deionized water (pH 12, 5 mg/mL) and PKF was dissolved in deionized water (5mg/mL) as stock solutions and were used for further experiments.
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4

Investigating Signaling Pathway Inhibitors in MCL

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Cells and clinical information from MCL patients described in this manuscript (Additional file 4: Table S2) were collected and published with the written informed consent of each patient under The University of Texas MD Anderson Cancer Center IRB-approved clinical protocol LAB08-0190 for use of human tissues.
The following agents were tested: Wnt inhibitors XAV939 (Selleck Chemicals, Houston, TX), iCRT14 (R&D Systems, Minneapolis, MN), CCT036477, PKF118-310 (Sigma-Aldrich, St. Louis, MO), IWP2, IWR1-endo, and IWR1-exo (Santa Cruz Biotechnologies, Santa Cruz, CA); Hedgehog inhibitors GANT61 (R&D Systems, Minneapolis, MN), LDE225 and Cyclopamine (both from Selleck Chemicals, Houston, TX); Notch inhibitor RO4929097 (Selleck Chemicals, Houston, TX).
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5

Human Gastric Adenocarcinoma Cell Culture

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AGS (human gastric adenocarcinoma, ATCC, Rockville, MD) were grown in Ham’s F12 medium (Invitrogen, Carlsbad, CA) supplemented with 10% fetal calf serum (FCS; Euroclone, Devon, UK), and 10 U/ml penicillin-streptomycin (Invitrogen). Growth experiments were performed with medium with 5% FCS.
Chemical inhibitors PI-103 (Merck), AKT-i-1,2/AKT inhibitor VIII (Merck), PD0325901 (Sigma-Aldrich), PKF118-310 (Sigma-Aldrich), BIRB 0796 (Axon), and CT99021 (Axon) dissolved in DMSO at stock concentrations of 20 mM, except PI103 which was dissolved in DMSO at a stock concentration of 10 mM.
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6

Comprehensive Pharmacological Toolkit for Cell Biology

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PD0325901 (mirdametinib), PRT062607 (P505-15) HCl, R788 (fostamatinib), wortmannin (KY 12420), afuresertib (GSK2110183), AY-22989 (Rapamycin), and JNK-IN-8 were purchased from Selleck Chemical. PKF118-310 was purchased from Sigma-Aldrich. Torin 1 and ST2825 were purchased from Calbiochem/Merck Millipore and ChemScence, respectively.
Stable isotope-labeled nucleosides, G (13C10, 98%; 15N5, 96–98%), U (13C9, 98%; 15N2, 96–98%), A (13C10, 98%; 15N5, 96–98%), C (13C9, 98%; 15N3, 96–98%), and dG (13C10, 98%; 15N5, 96–98%) were purchased from Cambridge Isotope Laboratories for the quantification of nucleosides by LC-MS/MS. The EdU used in the in vivo proliferation assay was purchased from Tokyo Chemical Industry Co.
DSR-139970 (Cpd7), a TLR7 inhibitor, was kindly provided by Sumitomo Pharma Co., Ltd. CU-CPT9a, a specific TLR8 inhibitor, and R848 were purchased from InvivoGen. SRBC used in the phagocytic assay were obtained from Cosmo Bio Co.
RNA9.2s (20mer, UsGsUsCsCsUsUsCsAsAsUsGsUsCsCsUsUsCsAsA), ssRNA40 (GsCsCsCsGsUsCsUsGsUsUsGsUsGsUsGsAsCsUsC), PolyU (19mer, UsUsUsUsUsUsUsUsUsUsUsUsUsUsUsUsUsUsU), and ODN1668 (20mer, dTsdCsdCsdAsdTsdGsdAsdCsdGsdTsdTsdCsdCsTdsdGsdAsdTsdGsdCsdT), in which “s” depicts a phosphothioate linkage, were synthesized by FASMAC.
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7

Malignant Pleural Mesothelioma Cell Line Authentication and Treatment

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Cell lines were from ATCC (MSTO (MSTO-211H), H28, H2804 and H2052) and were either used within 6 months of culturing or submitted for cell line authentication within 6 months of use through cell line short tandem repeat (STR) profiling (Molecular Diagnostics Laboratory, Dana-Farber Cancer Institute). Primary-derived cell lines were obtained from primary MPM tissue as described.17 (link) Human HEK-293T/17 cells were used for production of lentiviruses and human mesothelial LP9.TERT cells18 (link) (kindly provided by Dr. M.R. Ramsey, BWH) were compared to MPM cell lines. In some experiments, cells were treated with KDM4A inhibitors, including PKF118–310 (Sigma–Aldrich), ML324 (Selleckchem) or treated with the cytotoxic chemotherapeutic cisplatin (Santa Cruz Biotech.), the folate anti-metabolite pemetrexed (Selleckchem), the WEE1 inhibitor adavosertib (MK-1775, Selleckchem), the CHK1 inhibitor prexasertib (Selleckchem) or the BH3 mimetics venetoclax (Selleckchem), navitoclax (Selleckchem) and S63845 (Active Biochem Ltd, Hong Kong). Concentrations of viable cells were determined by trypan blue (Sigma–Aldrich, St. Louis, MO) exclusion and cell growth was measured over time with the CellTiter-Glo Luminescent Cell Viability Assay Kit (Promega).
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8

Molecular Mechanisms of Salinomycin and Doxorubicin-Induced Apoptosis

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Salinomycin, doxorubicin and PKF 118-310 were purchased from Sigma-Aldrich (St. Louis, MO, USA). Total-FOXO3a (t-FOXO3a), phospho-FOXO3a (Thr32; p-FOXO3a), total-AKT (t-AKT), phospho-AKT (Ser473; p-AKT), E-cadherin, Vimentin, β-catenin and TCF4 primary antibodies for western blotting, immunoprecipitation or immunofluorescence were obtained from Cell Signaling (Danvers, MA, USA). GAPDH primary antibodies were obtained from Kangchen Biotechnology (Sichuan, China). The HRP-conjugated secondary antibodies, goat-anti-mouse second antibody and goat-anti-rabbit second antibody, were purchased from Beijing ZhongShan Biotechnology Company (Beijing, China). Propidium iodide (PI) and anti-rabbit Alexa Fluor 488 (AF488) secondary antibody were both purchased from Invitrogen (Carlsbad, CA, USA).
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9

Cellular Signaling Pathway Analysis

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Chemical reagents included bovine serum albumin (BSA) (Sigma-Aldrich, B2518), 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) (Sigma-Aldrich, M5655), trypan blue (Sigma-Aldrich, T6146), propidium iodide (PI) (Sigma-Aldrich, P4864), GSKJ4 (Sigma-Aldrich, SML0101), PD98059 (Sigma-Aldrich, P215), PKF118-310 (Sigma-Aldrich, K4394), MG132 (Alexis 133407-82-6), and H89 (Sigma-Aldrich, #B1427). Antibodies obtained from Santa Cruz Biotechnology: anti-nuclear factor kappa-light-chain-enhancer of activated B cells (NF-κB) p65(A) (sc-109), anti-Ub (P4D1) (sc-8017), anti-α-tubulin (B-7) (sc-5286). Antibodies purchased from Cell Signaling Technology: anti-CREB (#9198S), anti-p44/42 mitogen-activated protein kinase (MAPK) (ERK1/2) (#9102), anti-p-CREB (Ser133, #9198), anti-phospho-p44/42 MAPK (ERK1/2) (Thr202/Tyr204) (#9101). Anti-vinculin (ab13007) and anti-H4 (ab10158) were bought from Abcam. Other antibodies used were anti-β-actin AC-74 (Sigma-Aldrich, A2228) and anti-H3K27me3 (Diagenode, C15410195). Conjugate horseradish peroxidase (HRP) goat anti-rabbit (GtxRb-003-DHRPX) and goat anti-mouse (GtxMu-003-EHRPX.0.05) (Immunoreagents Inc.) were employed for immunoblotting detection.
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10

Inhibition of Muscle Contraction and Wnt Signaling

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Around 10 mM hydroxyurea (Sigma-Aldrich, #H8627) was dissolved in FASW; the solution was renewed twice a day. Muscle contraction was inhibited as follows: with 1 or 5 µM blebbistatin (Sigma-Aldrich, #B0560) diluted from a 34 mM stock solution in DMSO, or with 8 mM BDM (2,3-Butanedione monoxime; Sigma-Aldrich, #B0753) in FASW, or with 400 µM menthol (Sigma-Aldrich, #M2772) diluted from a 1M stock solution in ethanol. The β-catenin/Tcf interaction inhibitor PKF118-310 (Lepourcelet et al., 2004 (link); Sigma Aldrich, #K4394) was used at a final concentration of 0.7–0.8 µM, diluted from a 15 mM stock solution in DMSO.
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