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6 protocols using bi2536

1

Cell Culture and Treatments for CRISPR Experiments

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All cell lines were cultured in a 5% CO2 humidified atmosphere at 37°C. HEK293T (female, human embryonic kidney epithelial), hTERT RPE-1 (female, human epithelial cells immortalized with hTERT), and A375 cells (female, human malignant melanoma epithelial) are from ATCC. hTERT RPE-1 and A375 stably expressing Cas9 were from D Durocher (Hart et al., 2015 (link); Zimmermann et al., 2018 (link)). All references to RPE-1 and A375 cells herein refer to hTERT RPE-1 or A375 stably expressing Cas9. RPE-1, HEK293T, and A375 were grown in Dulbecco’s modified Eagle’s medium (Gibco) supplemented with 10% (v/v) fetal bovine serum (FBS; Gibco) and 2 mM Glutamax (Gibco). PLK4 inhibitor centrinone B (Tocris) was used as described. Nutlin-3a (Cayman Chemical) was used at 600 nM. The CDK1, PLK1, and Aurora A kinase inhibitors RO-3306 (Selleck Chemicals), BI-2536 (ChemieTek), and MLN8237 (Selleck Chemicals) were used at 10 μM, 100 nM, and 200 nM, respectively. MG132 (Selleck Chemicals) was used at 10 μM. G418 (WISENT Bioproducts) was used at 600 μg/mL for cell selection and 200 μg/mL for routine culture. All cell lines used have been authenticated by STR profiling and tested negative for mycoplasma contamination.
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2

Synchronized Cell Cycle Dynamics

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HTERT-RPE1 cells stably expressing GFP-centrin1 were cultured in F12/DME (1:1) medium supplemented with 10% FBS and 1% Penicillin-Streptomycin. Cells were synchronized by mitotic shake-off or in G1/S-phase with 2.5mM thymidine (Sigma). To arrest cells in mitosis 1.6µm Nocodazole (Sigma) was used. Click-iT EdU assay (Invitrogen) was used to determine cells that had entered S-Phase. DNA damage was induced with a 1 hour 0.5µM Doxorubicin treatment. Plk1 activity was inhibited with 200nM BI2536 (ChemieTek); APC/C activity was inhibited with 12µM proTAME (R&D Systems), Cdk2 activity was inhibited with 10µm Roscovitine (AG Scientific). The siRNA oligo duplex used to target human p53 was an ON-TARGETplus siRNA (J-003329-14, Dharmacon). A final concentration of 50nM siRNA was transfected using RNAiMAX (Life Technologies) according to manufacturers instructions. Fresh media was added 4 hours after transfection. Protocols for cell collection, siRNA transfection, drug treatments, and fixation times are shown diagrammatically at the top of corresponding figures and described in the text and figure legends.
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3

Identifying Anti-Neoplastic Drug Candidates

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A number of anti-neoplastic drugs were tested for their ability to inhibit growth of MM cells: the tyrosine kinase inhibitors (TKI) bosutinib, dasatinib, imatinib, sorafenib, sunitinib, and nilotinib, the ErbB-receptor inhibitors lapatinib, erlotinib, and gefitinib, the Aurora-kinase inhibitor VX-680, the HSP90 inhibitor 17AAG, the PLK-1 inhibitor BI2536, the pan-BCL-2 antagonist obatoclax, and the HDAC-inhibitor vorinostat were purchased from Chemietek (Indianapolis, IN, USA). The PI3 kinase/mTOR inhibitor BEZ235 was obtained from Selleck Chemicals (Houston, TX, USA). Stock solutions of drugs were prepared by dissolving in dimethylsulfoxide, DMSO (Merck, Darmstadt, Germany). RPMI 1640 medium and fetal calf serum (FCS) were purchased from PAA Laboratories (Pasching, Austria), and 3H-thymidine from PerkinElmer (Waltham, MA, USA). FITC-labeled CD34 monoclonal antibody (mAb) 581, PE-labeled CD34 mAb 581, FITC-labeled CD138 mAb MI15, PE-labeled CD138 mAb DL-101, PerCP-labeled CD45 mAb 2D1, APC-labeled CD38 mAb HIT2, PE-labeled and Alexa Fluor® 647-labeled active caspase-3 mAb C92-605 were purchased from BD Biosciences (San Jose, CA, USA). The PerCP-labeled CD20 mAb 2H7 and the APC-labeled CD27 mAb O323 were obtained from Biolegend (San Diego, CA, USA), and an Annexin V/FITC kit from eBioscience (San Diego, CA, USA).
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4

Oocyte Isolation and Manipulation Protocol

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For oocyte isolation 8–12-week-old CD1, BDF1, FVB or H2B-EGFP [69 (link)] mice were stimulated by 5 IU of pregnant mare's serum gonadotropin (PMSG) 46 hours before experiment and killed by cervical dislocation. Oocytes were collected into the M2 medium and cultured either in Opti-MEM medium (Life Technologies) supplemented with 10% FCS in 5% CO2 atmosphere or in M2 at 37°C. Meiotic maturation was prevented by 2.5 μM milrinone (Sigma-Aldrich). BI2536 (ChemieTek or Axon Medchem BV), reversine (Cayman Chemical or Merck Millipore), MG132 (Calbiochem or Sigma-Aldrich) and flavopiridol (Sigma Aldrich) were used at 100 nM, 1 μM, 1 μM, and 1 μM respectively.
We microinjected oocytes[70 (link)] with 2 pl mEGFP-PLK1, 1 pl EGFP-CENP-C[31 (link)], 4pl 3mCherry-CENP-C[31 (link)], 0.2 pl H2B-mCherry[31 (link)], 1.5 pl EGFP-MAP4[29 (link)], 1 pl securin-EGFP[71 (link)], 0.5 pl cyclin B1-EGFP[72 (link)], and 1 pl mEGFP-EMI1, from 1 μg/μl mRNA stocks. For nuclear envelope permeability measurement, H2B-EGFP oocytes were microinjected with 5 pl of 2 mg/ml 70-kDa dextran conjugated with tetramethylrhodamine (TAMRA) (Sigma Aldrich, D-1819).
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5

Characterization of Glioblastoma Cell Lines

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The U87MG parental, U87MG EGFRvIII, U178MG tet-EGFRvIII cell lines, and transformed mouse Ink4a/Arf(−/−) astrocytes, Ink4a/Arf(−/−) EGFRvIII cells, Ink4a/Arf(−/−) EGFRvIII Gefitinib/Erlotinib resistant cells, and Ink4a/Arf(−/−) PDGF-β cells have been previously described [29 (link), 31 (link), 42 (link)]. U87MG parental H2B-GFP and U87MG EGFRvIII H2B-GFP cells were constructed by infecting U87MG parental and U87MG EGFRvIII cells with a H2B-GFP construct [43 (link)] generously provided by Dr. David Pellman (Dana Farber Cancer Institute, Boston). TMZ (AK Scientific, Mountain View, CA) and BI2536 (ChemieTek, Indianapolis, IN) were dissolved in DMSO (Sigma Aldrich, St. Louis, MO). Doxycycline (Clontech, Mountain View, CA) was dissolved in deionized water. Cells were cultured in DMEM medium (Gibco) supplemented with 10% fetal bovine serum (FBS, Gibco), 1% Pen-Strep (Gibco) and 1% GlutaMax (Gibco) unless otherwise specified. Tetracycline free serum (Clontech, Mountain View, CA) was used for experiments involving Doxycycline.
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6

Cell Line Culturing and Treatment

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All cell lines were cultured in a 5% CO2 humidified atmosphere at 37°C. HEK293T (female, human embryonic kidney epithelial) cells are from ATCC. hTERT-RPE1 (female, human epithelial cells immortalized with hTERT) and A375 cells (female, human malignant melanoma epithelial) stably expressing Cas9 were a kind gift from D. Durocher. All references to RPE-1 and A375 cells herein refer to hTERT-RPE1 or A375 stably expressing Cas9. hTERT-RPE1, HEK293T and A375 were grown in Dulbecco's Modified Eagle's Medium (DMEM; Gibco) supplemented with 10% (v/v) fetal bovine serum (FBS; Gibco) and 2 mM Glutamax (Gibco). PLK4 inhibitor centrinone B (Tocris) was used as described. Nutlin-3a (Cayman Chemical) was used at 600 nM. The CDK1, PLK1 and Aurora A kinase inhibitors RO-3306 (Enzo Life Sciences), BI-2536 (ChemieTek) and MLN8237 (Selleck Chemicals) were used at 10 µM, 100 nM and 200 nM, respectively. MG132 (Selleck Chemicals) was used at 10 µM. G418 (WISENT Bioproducts) was used at 600 µg/mL for cell selection and 200 µg/mL for routine culture.
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