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7 protocols using gentamycin

1

Cell Line Culturing Protocols

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DK-MG cells were obtained from DSMZ (Cat. no. ACC-277) and cultured in RPMI 1640 (GIBCO, Life Technologies, Cat. no. 11875-093) medium supplemented with 1% Penicillin/Streptomycin (Life Technologies, Cat. no. 15140-122), 0.2% Gentamycin (Biowest, Cat. no. L0011-100) and 10% FBS (PAA, Cat. no. A15-104) under standard cell culture conditions (5% CO2, 16% O2, 37°C). Clonal selection was performed by serial dilution in a 96-well plate format.
U87-MG cells were obtained from ATCC (Cat. no. HTB-14™) and cultured in MEM (GIBCO, Life Technologies, Cat. no. 11095-080) medium supplemented with 1% Penicillin/Streptomycin (Life Technologies, Cat. no. 15140-122), 0.2% Gentamycin (Biowest, Cat. no. L0011-100) and 10% FBS (PAA, Cat. no. A15-104) under standard cell culture conditions (5% CO2, 16% O2, 37°C).
NCI-H460 cells were obtained from ATCC (Cat. no. HTB-177™) and cultured in RPMI 1640 (GIBCO, Life Technologies, Cat. no. 11875-093) medium supplemented with 1% Penicillin/Streptomycin (Life Technologies, Cat. no. 15140-122), 0.2% Gentamycin (Biowest, Cat. no. L0011-100) and 10% FBS (PAA, Cat. no. A15-104) under standard cell culture conditions (5% CO2, 16% O2, 37°C).
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2

Collecting and Preserving Tumor Biopsies

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Tumour samples were obtained from 18 patients diagnosed with BC and 25 diagnosed with PC, treated at the Polish Mother's Memorial Hospital Research Institute in Lodz or the Medical Centre in Pabianice and the Pirogow Hospital in Lodz respectively (Supplementary Table S1). All procedures were performed in accordance with the protocol approved by the Bioethical Committee of the Regional Medical Chamber in Lodz (Approval No. 3/12 of February 8, 2012). Patients signed informed consent form and their data were processed and stored according to the principles expressed in the Declaration of Helsinki. Each sample was collected by a surgeon in aseptic conditions and transferred into Hank's Balanced Salt Solution (HBSS; Gibco) supplemented with penicillin/streptomycin (1%; Biowest) and gentamycin (0.2%; Biowest). Tissue sections were handled no later than 3–4 h following their resection.
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T-Cell Proliferation Assay with Inhibitors

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Mouse or human T cells were labeled with CellTrace Violet (Thermo Fisher Scientific), plated in 96‐well plates, and activated with mouse‐ or human‐specific CD3/CD28‐Dynabeads (Thermo Fisher Scientific). Mouse T‐cell medium consisted of RPMI1640 + GlutaMAX (GIBCO), 10% fetal bovine serum (GIBCO), 10 μg/ml Gentamycin (GIBCO), 10 mM HEPES (BioConcept), 1 mM Sodium Pyruvate (GIBCO), 1× MEM‐NEAA (GIBCO), and 50 μM beta‐mercaptoethanol (GIBCO). Human T‐cell medium consisted of RPMI1640 + GlutaMAX, 8% human serum (Biowest, France), and 10 μg/ml Gentamycin. Where specified, small molecule inhibitors (see below), neutralizing antibodies (Appendix Table S3), and myeloid cells (neutrophils, monocytes, or macrophages) were added within 1 h after plating of T cells. Small molecule inhibitors were Acetylsalicylic acid (Sigma), Adenosine receptor 2A inhibitor (SCH58261; Cayman Chemicals), Galunisertib (LY2157299; Cayman Chemicals), L‐NMMA (Sigma), NorNOHA (Merck‐Millipore), MMP inhibitor (GM6001; Merck‐Millipore), and SB431542 (Cayman Chemicals). Cells were harvested after 3 days of co‐culture and stained with anti‐TCRβ or anti‐CD3‐specific antibodies (Appendix Table S3) and analyzed on a LSR Fortessa FACS machine. T cells with CellTrace Violet intensity below freshly stained controls were scored as proliferated T cells.
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Cell Culture Materials and Reagents

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Cell culture materials were obtained from Greiner Bio-One International GmbH (Frickenhausen, Germany). If not otherwise indicated, cell culture solutions and supplements (L-glutamine, HEPES ((4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid), penicillin, streptomycin, amphotericin B) and DPBS (Dulbecco´s Phosphate Buffered Saline) were obtained from Biochrom AG (Berlin, Germany). L-15 medium was purchased from Lonza Group AG (Visp, Switzerland) and Schneider´s Drosophila Medium (SDM) from Fisher Scientific GmbH (Schwerte, Germany). Sigma Aldrich (Taufkirchen, Germany) was used the supplier for chemicals such as galactose, lactalbumin hydrolysate, tetracycline, cell culture grade water (for medium preparation) and FCS (Fetal Calf Serum). Gentamycin was obtained from Biowest (Nuaillé, France). Ultrapure water for buffer preparation was produced by a Millipore unit (Synergy Water Purification System, Merck KGaA, Darmstadt, Germany). Collagenase type II from Clostridium histolyticum (CLS II, #C2-28, Lot Number 47N17872A, 280 U/mg) was purchased from Biochrom AG. MTT (3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide) reagent was received from Alfa Aesar (Ward Hill, Massachusetts, USA).
Sterile filters (0.2 µm cellulose acetate) were purchased from VWR International (Darmstadt, Germany) and cell strainers from pluriSelect Life Science (Leipzig, Germany).
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In Vitro Cell Line Cultivation

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Studies were performed using in vitro models of mouse bone marrow cells (MBMC), mouse endothelial cells (MAEC cell line), bovine kidney cells (MDBK cell line), and mouse fibroblasts (3T3A31 cell line). Cell lines were obtained from the Bank of Cell Lines of Human and Animal Tissues of the RE Kavetsky Institute of Experimental Pathology, Oncology and Radiobiology of the NAS of Ukraine.
МАЕС, MDBK and 3Т3A31 cell lines were cultivated in the DMEM medium (Biowest, France) with 10% fetal bovine serum (FBS) (Biowest, France) and 40 μg/ml gentamycin (Sigma, USA). Mouse bone marrow cells were cultured in RPMI1640 medium (Biowest, France) with 10% FBS and 40 μg/ml gentamycin. Cells were cultivated in the cultural plastic laboratory glassware (SPL, Korea) in the humidified atmosphere under 5% СО2 and 37°С (СО2-incubator, Heal Force, China). Medium exchange and cell culture passage were carried out using the standard method [19 ]. The cells passage was made in Versene solution (Vetline agroscience, Ukraine), after the cells achieved 70% monolayer. The exponentially growing cells were used in the experiments.
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6

AD293 Cell Culture and Imaging

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AD293 cells were obtained from Agilent Technologies (United States). Cells were cultured in complete Dulbecco’s modified Eagle’s medium (Biowest, France) supplemented with 10% fetal bovine serum (FBS) (PAA, The Cell Culture Company, Austria), Penicillin-Streptomycin (Life Technologies, USA), Gentamycin (Biowest), Fungizone Antimycotic (Life Technologies), Primocin and Normocin (Invivogen, USA). Serum free conditions means a culturing in complete medium lacking FBS supplementation. Cultures were incubated at 37°C in humidified atmosphere and 5% CO2 and passaged with Trypsin/EDTA (0.05%; Life Technologies). Cells were observed with Biostation CT (Nikon, Japan) and cell counting was performed with ImageJ (http://imagej.nih.gov/ij/) and CL-Quant Ver3.10 imaging software (Nikon).
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Culturing Glioma Cell Lines

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DK-MG cells were purchased from Leibniz-Institut DSMZ (Braunschweig, Germany, Cat. no. ACC-277) and cultured in RPMI 1640 (GIBCO, Life Technologies, Grand Isle, NY, Cat. no. 11875-093). Obtaining of U87-MGvIII clone 4.12, DK-MGhigh and DK-MGlow lines was described previously [28 (link)].
AD293 cells were purchased from Agilent Technologies (Santa Clara, CA, USA, Cat. no. 240085) and cultured in complete DMEM High Glucose (Biowest, France, Cat. no. L0102-500). Parental cell line was either transfected or transduced with lentiviral vectors carrying appropriate transgenes (prepared as described below) and positively selected using puromycin (5 μg/mL, InvivoGen, Cat. no. ant-pr-1).
The media used for culturing of cell lines were supplemented with 10% FBS (PAA, The Cell Culture Company, Austria, Cat. no. A15-104), 1% penicillin/streptomycin (Life Technologies, Carlsbad, CA, USA; Cat. no. 15140-122), 0.2% Gentamycin (Biowest, France, Cat. no. L0011-100). Cells were cultured under standard cell-culture conditions (5% CO2, 16% O2, 37°C).
Glioma cells were cultured as described previously [28 (link)]. Study was approved and conducted in accordance to the Approval No. RNN/234/17/KE from the Bioethical Committee of the Medical University of Lodz.
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