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28 protocols using minimum essential medium (mem)

1

Bovine Herpesvirus-1 Isolation and Titration

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Nasal swabs were collected from each buffalo at d0, d2, d4, d7, d10, d15, d30, and d63 pc, placed in transport fluid Minimum Essential Medium (Euroclone, Milan, Italy), and used for BuHV-1 isolation and titration assays. Serial dilutions ranging from 10–1–10–9 of supernatants from each nasal swabbing were inoculated in a volume of 0.1 mL into three wells of a 24-well plastic plate containing monolayers of MDBK cell cultures grown in MEM. The cells were provided by Biobanking of Veterinary Resources (BVR), Brescia, Italy, and identified with the code BS CL63. After 60-min incubation at 37 °C in a 5% CO2 atmosphere, 1 mL of MEM enriched with 2% FCS (BioWhittaker Inc., Walkersville, MD, USA) was added to each well. The positive control was prepared from MDBK cell cultures infected with the wt 799,787 MT strain of BuHV-1. MDBK cell cultures free of BuHV-1 were used as a negative control.
The plates were incubated for 7 days at 37 °C in a 5% CO2 atmosphere and observed daily for the appearance of cytopathic effect (CPE). BuHV-1 titre was determined as previously described [17 (link)] and expressed as TCID50/mL. The BuHV-1 recovered from each positive sample was identified by PCR [1 (link)].
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2

Evaluating Tumor Development in Mice

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B16/F10 melanoma (CRL-6475) and Lewis lung carcinoma (LLC-1, CRL-1642) cell lines were purchased from the American Tissue Culture Collection (Manassas,VA) and confirmed to be mycoplasma free. The cells were maintained in Minimum Essential Medium (Euroclone) supplemented with 10% (v/v) foetal bovine serum, 1% (v/v) penicillin–streptomycin solution, 2 mM L-glutamine, 100 μM non-essential amino acids, 1 mM sodium pyruvate and 10 mM HEPES (all from Life Technologies, Paisley, UK) in a humidified 5% CO2 atmosphere at 37 °C. C57BL/6 WT, C57BL/6.C1qa−/−, C57BL/6.C3−/− or C57BL/6.C5−/− were injected intramuscularly into the left flank of the mice with viable B16/F10 cells (2 × 106) and tumour development was monitored daily. Both male and female mice (8–12 weeks of age) were used. In each experiment the mice were sex- and age-matched. Tumour size was measured every other day for the first week and then daily with calliper by determining two orthogonal axis, and the volume was calculated using the following formula: (π/6)·α2·β, with α the shorter and β the longer axis65 (link). Measurements were performed by a blinded researcher. According to our protocol (D.L.116/92), mice were culled before they developed any signs of distress. When the animals were killed, tumours, spleens and lungs were collected for analyses.
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3

Bovine Herpesvirus-1 Isolation and Titration

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Nasal swabs were collected from each buffalo at d0, d2, d4, d7, d10, d15, d30, and d63 pc, placed in transport fluid Minimum Essential Medium (Euroclone, Milan, Italy), and used for BuHV-1 isolation and titration assays. Serial dilutions ranging from 10–1–10–9 of supernatants from each nasal swabbing were inoculated in a volume of 0.1 mL into three wells of a 24-well plastic plate containing monolayers of MDBK cell cultures grown in MEM. The cells were provided by Biobanking of Veterinary Resources (BVR), Brescia, Italy, and identified with the code BS CL63. After 60-min incubation at 37 °C in a 5% CO2 atmosphere, 1 mL of MEM enriched with 2% FCS (BioWhittaker Inc., Walkersville, MD, USA) was added to each well. The positive control was prepared from MDBK cell cultures infected with the wt 799,787 MT strain of BuHV-1. MDBK cell cultures free of BuHV-1 were used as a negative control.
The plates were incubated for 7 days at 37 °C in a 5% CO2 atmosphere and observed daily for the appearance of cytopathic effect (CPE). BuHV-1 titre was determined as previously described [17 (link)] and expressed as TCID50/mL. The BuHV-1 recovered from each positive sample was identified by PCR [1 (link)].
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4

Hydrogen Peroxide Stress on Human Fibroblasts

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Human primary fibroblasts MRC-5, derived from fetal human lung primary culture (ECACC, Salisbury, UK), were grown in modified Eagle’s medium (MEM) (Euroclone, Pero, Milano, Italy) supplemented with 10% fetal bovine serum (Euroclone, Pero, Milano, Italy), 100 units/mL penicillin and streptomycin 10 µg/mL (Biological Industries, Israel), 1% L-Glutamine and 1% non-essential amino acids (Euroclone, Italy), at 37 °C in 95% air and 5% CO2 incubator. According to the previous experimental design, sub confluent cells, at maximum PD 30, were treated with H2O2 (10 vol–3%), in a complete medium, at the final concentration of 100 and 200 μM for 1 h at 37 °C and then trypsinized and seeded at different concentration depending on the protocols [21 (link)]. Cells examined after treatment with H2O2 were compared to parallel cultured control cells grown in the medium without H2O2.
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5

Culturing Cell Lines for Research

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The parental MCF-7 (breast cancer), MDA-MB-231 (triple-negative breast cancer), U-87 MG (glioblastoma), A549 (non-small cell lung cancer), and PANC-1 (pancreatic cancer) cell lines and HDFs (human dermal fibroblasts) were obtained from the American Type Culture Collection (ATCC, Manassas, VA, USA). MCF-7 and A549 cells were cultured as an attached monolayer and maintained in RPMI 1640 medium (EuroClone, Milan, Italy) supplemented with 10% (v/v) heat-inactivated fetal bovine serum (FBS) (EuroClone, Milan, Italy), 1% penicillin-streptomycin (EuroClone, Milan, Italy), and 2 mM L-glutamine. MDA-MB-231 cells were cultured as an attached monolayer and maintained in MEM (EuroClone, Boston, MA, USA) supplemented with 10% (v/v) heat-inactivated fetal bovine serum (FBS) (EuroClone, Milan, Italy), 1% penicillin-streptomycin (EuroClone, Milan, Italy), and 2 mM L-glutamine. U-87, PANC-1 and HDFs were cultured as an attached monolayer and maintained in DMEM (EuroClone, Milan, Italy) supplemented with 10% (v/v) heat-inactivated FBS (EuroClone, Milan, Italy), 1% penicillin-streptomycin (EuroClone, Milan, Italy), and 2 mM L-glutamine. All cells were incubated at 37 °C in a 5% CO2 tissue culture incubator (MEMmert, Schwabach, Germany).
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6

In Vitro Evaluation of BoHV-1 and BuHV-1 Viruses

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Madin–Darby Bovine Kidney (MDBK) cells were cultured in Minimum Essential Medium (MEM; Euroclone, Milan, Italy) supplemented with 10% fetal bovine serum (Euroclone, Milan, Italy) at 37 °C. The cells were provided by the Biobanking of Veterinary Resources (BVR, Brescia, Italy) and identified using the code BS CL63. Two viruses were selected for the present study. The Schönböken strain of BoHV-1 (kindly provided by Prof. Martin Beer, Friedrich-Loeffler Institute, Greifswald, Germany) was used for in vitro tests. The wt-BuHV-1 strain [18 ]; GenBank accession No. KF679678.1] was used for in vitro challenge infections. The viruses were grown in MDBK cells at a 1.5 × 108 median tissue culture infection dose (TCID50/mL) calculated using the Reed and Muench method [19 ]. All in vitro experiments using BuHV-1 and BoHV-1 viruses were performed in a biosafety level-2 laboratory.
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7

Oxidative Stress Response in Human Fibroblasts

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Human primary fibroblasts MRC-5, derived from embryonic human lung primary culture (ECACC, UK), were grown in modified Eagle’s medium (MEM) (Euroclone, Italy) supplemented with 10% foetal bovine serum (Euroclone, Italy), 10,000 units/ml penicillin and streptomycin 10 mg/ml (Biological Industries, Israel), 1% L-Glutamine and 1% non-essential amminoacids (Euroclone, Italy), at 37°C in 95% air and 5% CO2 incubator.
Cells were sown on plates 48 hrs before treatment at the density of 3×105 cells per culture flask. Subconfluent cells were treated with H2O2 (10vol-3%), in a complete medium, at the final concentration of 100–200 µM for 1 hr at 37°C in 95% air and 5% CO2 incubator. Cells examined after treatment with H2O2 were compared to parallel cultured control cells grown in the medium without H2O2.
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8

Oxidative Stress in Fetal Lung Fibroblasts

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MRC-5 cells (fetal human lung primary fibroblasts; ECACC, UK) were grown in modified Eagle’s medium (MEM) (Euroclone) supplemented with 10% FBS, 10,000 units/ml penicillin and 10 mg/ml streptomycin (Biological Industries), 1% L-Glutamine, and 1% non-essential aminoacids, and were maintained at 37 °C in a humidified incubator with 5% CO2. For experiments, cells were grown either in 25 cm2 flasks or on sterilized coverslips inside 35 mm Petri dishes and treated daily with 10 μM H2O2 (10 vol, 3%). The cells were split and passaged when they reached confluency. Thus, treatments were performed on diving cell cultures. The cells were analyzed at regular time intervals over a period of 20 days, and cells treated with H2O2 were compared to parallel control cells grown under the same conditions, but in medium without H2O2. H2O2-containing (treated) or plain (control) medium was replaced daily. Although cells were treated for many consecutive days, all data analysis was performed on cells that had been split ~50 hours before, which corresponds to the time when the cell population appears to undergo doubling (see Fig. 3B).
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9

Cell Culture Protocol for HeLa, HEK293T, and ARPE19

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Cells were cultured in the following media: HeLa (ATCC) in MEM (Cat# ECB2071L, Euroclone); HEK293T (ATCC) in DMEM high glucose (Cat# ECM0728L, Euroclone); ARPE19 (ATCC) in DMEM-F12 (Cat# 11320–033, Thermo Fisher Scientific). All media were supplemented with 10% inactivated FBS (Cat# ECS0180L, Euroclone), 2 mM glutamine (Cat# ECB3000D, Euroclone), penicillin (100 IU/mL), and streptomycin (100 μg/mL) (Cat# ECB3001D, Euroclone) and maintained at 37 °C and 5% CO2. HeLa cells stably expressing TFEB-GFP were previously described19 (link).
All cell lines were tested and validated for the absence of mycoplasma.
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10

Culturing Human Liver and Neuroblastoma Cells

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Human hepatocellular liver carcinoma (HepG2) cell line and human neuroblastoma cell line, SH-SY5Y, were purchased from the American Type Culture Collection (ATCC, Manassas, VA, USA) and maintained at 37 °C in a humidified atmosphere (95% air and 5% carbon dioxide), and they were periodically screened for contamination. HepG2 cells were cultured in Eagle’s Minimum Essential Medium (MEM, Euroclone S.p.A., Pero, MI, Italy), supplemented with 10% Fetal Bovine Serum (FBS, Euroclone S.p.A., Pero, MI, Italy), 1% L-glutamine (Euroclone S.p.A., Pero, MI, Italy), 100 U/mL penicillin/streptomycin (Euroclone S.p.A., Pero, MI, Italy), 1% Non-Essential Amino Acids (NEAA, Euroclone S.p.A., Pero, MI, Italy). SH-SY5Y cells were grown in a 1:1 mixture of Dulbecco’s modified Eagle’s medium (DMEM)—high glucose (Euroclone S.p.A., Pero, MI, Italy) and Ham’s F12 Medium (Euroclone S.p.A., Pero, MI, Italy) supplemented with 10% FBS, 1% L-glutamine and 100 U/mL penicillin/streptomycin. For cell assays, cells were trypsinized using Trypsin-EDTA 1X in PBS (Euroclone S.p.A., Pero, MI, Italy).
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