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25 protocols using cell culture flasks

1

Aflatoxin, Curcumin, and PCB Exposure Protocols

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Cell culture flasks and multi-well plates were purchased from Sarstedt (Verona, Italy). Williams’ Medium E, L-alanyl-l-glutamine, penicillin/streptomycin, and fetal bovine serum (FBS) were acquired from Biochrom (Biospa, Milan, Italy).
Aflatoxin B1, curcumin (≥94% purity, ≥80% curcumin, C), curcumin from Curcuma longa (≥65%, purity, CL), and dimethyl sulfoxide (DMSO) were obtained from Sigma-Aldrich (St. Louis, MO, USA). Polychlorinated biphenyl 126 (99%, PCB126) and aflatoxin M1 (AFM1) were purchased from Lab Service analytica (Bologna, Italy), aflatoxicol from DBA Italia (Milano, Italy), and 13C17-Aflatoxin B1 from Orsell (Modena, Italy). All other chemicals used in the study are commercially available and of molecular biology grade. Solvents used for metabolites quantification were all of LC-MS grade.
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2

Inducing Infertility in C. elegans

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Synchronous larvae were washed twice in M9 buffer, counted and adjusted to 10 larvae per 10 μl. Nematodes were raised in cell culture flasks (Sarstedt, Nürmbrecht, Germany) or OP50 spread NGM plates. OP50-NGM was given as a standardized food source with a volume 4.4-fold of the larvae containing M9 solution used. L1 larvae were maintained under continuous shaking at 20°C, reaching adulthood within 3 days.
PX627 were treated with 1 mM indole-3-acetic acid (auxin, Alfa Aesar, Haverhill, MA, USA) to induce infertility during the L3 stage [12 (link), 13 (link)]. Wild-type N2 nematodes were treated with 100 μM 5-fluoro-2´-deoxyuridine (FUdR) or M9 control after reaching young adulthood. PX627 were also treated with M9 control 48 h prior to the assessment on day-2. The day upon which the nematodes reached young adulthood was defined as day 1. To ensure ad libitum food supply until day 10, at day-2 and day-6, old OP50-NGM was discarded after sedimentation of gravid nematodes and fresh OP50-NGM, with effectors incorporated, was given. For the measurements on day-2, FUdR- and auxin-treated young controls and untreated nematodes were co-assessed, whereas at day-10, only sterilized and unfertilized animals could be assessed.
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3

Micronutrient Effects on Amyloid Aggregation

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Post-bleaching generated larvae were washed twice in M9-buffer and the number of larvae in 10 µL were adjusted to 10 larvae. Afterward, the synchronized larvae were raised in cell culture flasks (Sarstedt, Nümbrecht, Germany) in either an amount of 1000 or 5000 nematodes, depending on the experiments. OP50-NGM was added to the flasks as a standardized source of food. The larvae were maintained under shaking at 20 °C until they reached young adulthood within 3 days. The micronutrients were dissolved in advance in M9 buffer. For each micronutrient observed in this study, we generated a series of concentrations as follows. Folic acid (Fol) 50 µM, magnesium orotate (MgOr) 0.1 mM (together ID63worm) and Fol 50 µM, MgOr 0.1 mM and vitamin B6 (Vit B6) 100 µM (together ID64worm). After reaching adulthood (48 h before the experiment), the micronutrients were added to the flasks. Pure M9-buffer was used as a control. Then, 24 h before the experiment amyloid aggregation was proceeded by upshifting young adult GMC101 from 20 °C to 25 °C.
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4

Astrocyte Differentiation from iPSC-Derived NES Cells

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Human astrocytes were differentiated from neuroepithelial-like stem (NES) cells, produced from human induced pluripotent stem cells (iPSCs, Cntrl9 II cell line) [24 (link)]. To generate astrocytes, NES cells were cultured in Advanced DMEM/F12 (Thermo Fisher, 12634–010) supplemented with 1% penicillin–streptomycin (Thermo Fisher, 15140–122), 1% L-glutamine (Thermo Fisher, 25030–024), 1 × B27 (Thermo Fisher, 11530536) and 1 × non-essential amino acids (Thermo Fisher, 11140050). The following factors were added to the medium right before use: 8 ng/ml bFGF (Thermo Fisher, 13256029), 10 ng/ml heregulin beta-1 (Sigma, SRP3055), 10 ng/ml activing A (Peprotech, 120-14E), 200 ng/ml IGF-1 (Sigma, SRP3069). From week three of differentiation, 20 ng/ml of CNTF (Thermo Fisher, PHC7015) was also included. A full medium change was performed every other day for the duration of the differentiation. Cells were cultured in cell culture flasks (Sarstedt) coated with 100 µg/ml poly-L-ornithine (Sigma, P3655) and 50 µg/ml laminin (Sigma, L2020), and seeded for experiments at 5 000 cells/cm2. Trypsin–EDTA 4% (Thermo Scientific, 10779413) was used for passaging the cells and the cells were differentiated for 28 days, prior to the start of experiments.
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5

Culturing Murine Monocytic RAW264.7 Cells

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RAW264.7 cells (murine monocytic cell line; ATCC) were cultured in DMEM, supplemented with 10 % heat-inactivated foetal calf serum (Bio West) and 100 U/ml penicillin and 10 μg/ml streptomycin (PAA). The cells were cultivated in cell culture flasks (75 cm2; Sarstedt) at humidified atmosphere (95 %), 5 % CO2 and 37 °C temperature. The cells were split every 2–3 days in a ratio of 1:30.
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6

Stress response in C. elegans

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Synchronous larvae were washed twice in M9 buffer (6 g Na2HPO4, 3 g KH2PO4, 5 g NaCl and 0.25 g MgSO4 × 7 H2O per L), counted and adjusted to 10 larvae per 10 µL. Nematodes were raised in cell culture flasks (Sarstedt, Nümbrecht, Germany) or OP50 spread NGM plates. OP50-NGM was added as a standardized food source with a volume 4.4-fold of the larvae containing M9 solution used. L1 larvae were maintained under shaking at 20 °C, reaching adulthood within 3 days. After reaching young adulthood, 48 h prior to the experiment, nematodes were treated with Ze 450 (100, 500, 1000 µg/mL) dissolved in EtOH 1% and metformin (25, 50, and 100 mM), or paraquat (5 mM; Merck KGaA, Darmstadt, Germany) dissolved in M9. Standard OP50, M9, and EtOH 1% served as controls.
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7

Nematode Stress Response Assay

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Synchronous larvae were washed twice in M9 buffer, counted, and adjusted to 10 larvae per 10 µL. Depending on the experiment and on the number needed, nematodes were either raised in 96-well plates (Greiner Bio-One, Frickenhausen, Germany) or cell culture flasks (Sarstedt, Nürmbrecht, Germany). Concentration of OP50 was adjusted to 1 at optical density OD600 with liquid nematode growth medium (NGM). OP50-NGM was added as a standardized food source with a volume 4.4-fold of the larvae containing M9 solution used. L1 larvae were maintained under continuous shaking at 20 °C and reached adulthood within 3 days.
Effectors were added after reaching young adulthood 48 h prior to the experiment, with a final concentration of 5% or 10% RR, 2.5 mM or 5 mM PQ, and 780 µM PCA. Standard buffer M9 was used simultaneously as a control medium.
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8

Cell Viability and Activation Assays

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All reagents and solvents were used of analytical grade. Dulbecco’s modified eagle medium F-12 (DMEM/F-12), Roswell park memorial institute 1640 (RPMI-1640), methylthiazolyldiphenyl-tetrazolium bromide (MTT), and dimethyl sulfoxide (DMSO), lipopolysaccharide (LPS), were purchased from Sigma–Aldrich Co. (St. Louis, MO, USA). Phorbol 12-myristate 13-acetate (PMA) was obtained from Santa Cruz Biotechnology. Penicilin and streptomycin (AB-AM) were bought from Grisp (Porto, Portugal). Trypsin and ethylenediaminetetraacetic acid (EDTA) were obtained from Gibco/Invitrogen Co. (Carlsbad, CA, USA). Fetal bovine serum (FBS) came from Biochrom and percoll from GE Healthcare (Buckinghamshire, UK). Recombinant human interferon-γ (IFN-γ) was purchased from R&D Systems and recombinant human interleukin-13 (IL-13) from Biotechne. Dibutylphthalate polystyrene xylene (DPX) was bought from VWR-Prolabo (Radnor, PA, USA). THP-1 cells (#88,081,201) and COV434 cells (#07,071,909) were purchased from the European Collection of Authenticated Cell Cultures (ECACC). Cell culture flasks were obtained from Sarstedt (Nümbrecht, Germany) and all other plastic materials used in cell culture were from Falcon (Tewksbury, MA, USA) and Nerbe plus (Winsen, Germany).
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9

Maintaining Leishmania Promastigotes in Culture

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Leishmania strains were maintained in cell culture flasks (Sarstedt) with M199 medium (Sigma Aldrich) supplemented with 2.2 g/L NaHCO3, 10% fetal calf serum (BioChrom AG), 1% L-glutamine, and 0.5% penicillin/streptomycin (Sigma Aldrich). A neutral pH was ensured by the addition of 1 M HEPES-NaOH buffer solution (pH 6.9). The cultures were kept in an incubator at 26 °C and every 3 to 4 d fresh medium was added by diluting the cultures 1:5 to 1:10. The density of promastigotes (flagellated stage of the parasites) was determined by microscopy using a Neubauer improved cell counting chamber (VWR).
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10

Microfluidic Cell Culture Setup

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Cell culture flasks were obtained from Sarstedt (Nümbrecht, Germany). Twelve-well plates and Transwell inserts (art. no. 3460) were bought from Corning Costar (Kennebunk, ME, USA). Multi-syringe infusion pumps KDS 220P by KD Scientific (Holliston, MA, USA) were used in the experimental setup in combination with single-use Inkjet LL syringes with a volume of 5 m L and 20 m L by B. Braun (Melsungen, Germany). PTFE-tubing with an outer diameter of 116 inch and inner diameters of 0.25   m m and 1 m m were purchased from Techlab (Braunschweig, Germany). Fittings, ferrules, and Y-junctions by IDEX Health & Science (Oak Harbor, WA, USA) were used. EVOM2 in combination with an EndOhm-12G chamber electrode by World Precision Instruments (Sarasota, FL, USA) was used for comparative TEER measurements. An incubator and 96-well cell culture test plates (black) were received from Thermo Fisher Scientific (Witham, UK). A fluorescence microplate reader GeniOS from Tecan (Männedorf, Switzerland) was used for fluorescence measurements.
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