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16 protocols using mem vitamin

1

Infection Assay of E. coli K1 in HBMECs

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HBMECs were cultured in RPMI 1640 medium (Thermo Scientific, Waltham, MA, USA) supplemented with 10% fetal bovine serum (FBS, Hyclone, Marlborough, MA, USA), 10% Nu-serum (BD Biosciences, Franklin Lakes, NJ, USA), 2 mM glutamine, 1% MEM nonessential amino acids (Wako, Osaka, Japan), 1 × MEM vitamin (Sigma, Irvine, UK), 100 U/mL penicillin, 100 μg/mL streptomycin, and 1 mM sodium pyruvate (Thermo Scientific). E. coli K1 strains were resuscitated from −80 °C, cultured overnight, and then subcultured in fresh BHI medium at a dilution of 1:100 until strains were grown to the exponential phase at an OD600 of 0.6. Bacteria were collected by centrifugation and resuspended in RPMI 1640 medium containing 10% FBS. HBMECs infected at a multiplicity of infection (MOI) of 100 were incubated for 1.5 h in a cell incubator. The HBMECs were then washed with phosphate-buffered saline (PBS) to remove unbound bacteria and incubated with new medium containing gentamicin (100 mg/mL) for 1 h to kill extracellular E. coli. HBMECs were washed, lysed with 0.5% triton X-100, and plated on Luria broth (LB) agar plates for the determination of CFUs. A binding assay was performed similarly to the invasion assay except that the gentamicin treatment step was omitted. All experiments were conducted in duplicate and performed at least in triplicates.
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2

Cardiomyocyte Differentiation and Transfection

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Hearts were dissected from E8.5–9.5 mouse embryos, washed in PBS without Ca2+, and digested using 0.04% Trypsin and 0.05% Collagenase IV. After incubation at 37 °C for 20 min (E8.5 embryonic hearts) or 30 min (E9.5 embryonic hearts), cells were gently pipetted and transferred to DMEM containing 10% fetal bovine serum for termination. Cells were plated on matrigel (1:60, BD) coated plates in the in vitro CMs culture medium (IVCC), with 4 ng/mL zbFGF. The in vitro CMs culture medium (IVCC) is composed of DMEM/F12 (Gibco) medium with 2% B27 (Gibco), 1% N2 (Gibco), 1% Glutamax (Gibco), 1% non-essential amino acids (NEAA; Gibco), 100 units/mL penicillin and 100 µg/mL streptomycin (Gibco). 50 µg/mL 2-phospho-l-ascorbic acid (Vitamin C, Sigma), 0.001% Progesterone (Sigma), 1% MEM Vitamin (Sigma, M6875), 0.1% trace element B (Corning), and 0.1% trace element C (Corning).
After 24 h culture, CMs were transfected with 50 nmol/L miRNA mimics (miRNA-1-3p, miR-541-5p and NC-miRNA (GenePharma) using Lipofectamine® 2000 (Thermo Fisher) following the manufacturer’s instructions. The same transfection protocol was used for SEVC4–10, mouse Yolk sac dissociated cells, human iPSC derived ECs and mESCs.
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3

Isolation and Stimulation of PBMCs

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At the time of recruitment (baseline visit), peripheral blood mononuclear cells (PBMCs) were isolated from heparinized blood with Ficoll using density centrifugation. After isolation, PBMC numbers were adjusted to a concentration of 106 viable cells/mL in complete culture medium. For cell culture, Roswell Park Memorial Institute 1640 medium supplemented with 25 mmol/L HEPES (Gibco, Invitrogen, Darmstadt, Germany) was used. Furthermore, 100 IU/mL penicillin, 100 µg/mL streptomycin, 50 µmol/L β‐mercaptoethanol, 1% l‐glutamine (200 mmol/L), 1% MEM Vitamin, 1% nonessential amino acids, 1% sodium pyruvate, and 10% fetal bovine serum were added (complete culture medium); these reagents were purchased from Sigma‐Aldrich (Steinheim, Germany). The PBMCs were cultured in complete culture medium for 24 hours at 37°C and 5% CO2, whereby parts of them were challenged in vitro with 10 µg/mL PHA (Sigma‐Aldrich) or with RV (RV1b). The growth of RV1b and the description of the RV1b infection itself have been published previously in detail elsewhere.1Human IFNβ and interleukin 10 (IL‐10) was detected in the cell‐culture supernatants by using IFNβ ELISA kit from PeproTech (Hamburg, Germany) and IL‐10 OptEIA™ sandwich ELISA kit from BD Bioscience (Heidelberg, Germany), respectively, according to the manufacturer's protocol.
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4

PBMC Isolation and Stimulation for Asthma Study

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Heparinized blood was collected from children with and without asthma at the Baseline Visit of the PreDicta study. Immediately after, PBMCs were isolated with Ficoll using density centrifugation. Afterward, one part of the PBMCs was used for extraction of total mRNA by using QIAzol Lysis Reagent (Qiagen, Hilden, Germany), according to the manufacturer’s protocol and subsequent gene expression analysis, as described below. The remaining cells were cultured at a concentration of 1 × 106 cells/ml for 48 h in Roswell Park Memorial Institute (RPMI) 1640 medium supplemented with 25 mmol/L of HEPES, 100 IU/ml of penicillin, 100 µg/ml of streptomycin, 1% l-glutamine (200 mmol/L) (all from Anprotec, Bruckberg, Germany), 50 µmol/L of β-mercaptoethanol, 1% MEM Vitamin (all from Sigma-Aldrich, Steinheim, Germany), 1% non-essential amino acids, 1% sodium pyruvate (all from Gibco®, Thermo Fisher Scientific, Waltham, MA, USA), and 10% fetal bovine serum (FBS) (Biochrom GmbH, Berlin, Germany) at 37°C and 5% CO2 and stimulated with 10 µg/ml phytohemagglutinin (PHA) (Sigma-Aldrich, Steinheim, Germany).
Human IL-3 was detected in the cell-culture supernatants by using the IL-3 DuoSet ELISA kit from R&D (Wiesbaden, Germany) according to the manufacturer’s protocol.
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5

Isolation and Cytokine Analysis of PBMCs from Asthmatic Children

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Heparinized blood was collected from children with and without asthma at the Baseline Visit of the PreDicta study and subsequently PBMCs were isolated with Ficoll using density centrifugation. Afterwards one part of the PBMCs were used for extraction of total mRNA by using QIAzol Lysis Reagent (Qiagen, Hilden, Germany), according to the manufacturer’s protocol, and subsequently gene expression analysis as described below. In the Key resources table the primer sequences are reported. The remaining cells were cultured in a concentration of 1 x 106 cells/ml for 48 h in RPMI 1640 medium supplemented with 25 mmol/L HEPES, 100 IU/mL penicillin, 100 μg/mL streptomycin, 1% L-glutamine (200 mmol/L) (all anprotec, Bruckberg, Germany), 50 μmol/L β-mercaptoethanol, 1% MEM Vitamin (all Sigma-Aldrich, Steinheim, Germany), 1% non-essential amino acids, 1% sodium pyruvate (all Gibco®, Thermo Fisher Scientific, Waltham, USA), and 10% FBS (Biochrom GmbH, Berlin, Germany) at 37°C and 5% CO2 and stimulated with 10 μg/mL Phytoheamagluttinin (PHA) (Sigma-Aldrich, Steinheim, Germany).
Human IL-3 was detected in the cell-culture supernatants by using IL-3 DuoSet ELISA kit from R&D (Wiesbaden, Germany) according to the manufacturer’s protocol.
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6

Isolation and Preparation of Murine Immune Cells

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The homogenized femur, soft tissue, spleen and lymph nodes were ground through a 70 μm grid size cell strainer (BD, Switzerland) before being centrifuged at 270 g at room temperature. The pellet was subsequently re-suspended in 1 mL complete RPMI (cRPMI: RPMI 1640 (Sigma, Switzerland), penicillin (1 U mL -1 , Sigma, Switzerland), streptomycin (1 μg mL -1 , Sigma, Switzerland), kanamycin (0.1 μg mL -1 , Gibco, Switzerland), MEM vitamin, L-glutamine (2 mM, Sigma, Switzerland), Na-pyruvate (1 mM, Sigma, Switzerland), non-essential amino acids and heat inactivated fetal calf serum (10%, Sigma, Switzerland). The cell density was assessed using a Sysmex KX1 cell counter and adjusted with cRPMI to the following values mL -1 : femur, 1.5 × 10 6 ; soft tissue, 2 × 10 6 ; spleen, 1 × 10 6 , lymph nodes, 1 × 10 6 .
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7

Culturing Patient Skin Fibroblasts

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Patient and control cultured skin fibroblasts were grown in minimum essential medium (MEM) (Gibco) or Dulbecco's Modified Eagle Medium supplemented with 10% foetal bovine serum (Gibco), 1× MEM vitamins (Sigma), 1× non-essential amino acids (Sigma), 50 U/ml penicillin, 50 μg/ml streptomycin (Sigma), 100 mm sodium pyruvate solution (Sigma), 0.05 mg/ml uridine aqueous solution and 2 mm L-glutamine (Sigma).
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8

Culturing Mouse SCC Cells

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Mouse SCC cells were grown at 37 °C, 5% (v/v) CO2, in Glasgow minimum essential medium (MEM) (Sigma-Aldrich) supplemented with 10% (v/v) foetal bovine serum, 1× MEM nonessential amino acids (both Life Technologies), 2 mM L-glutamine, 1 mM sodium pyruvate and 1× MEM vitamins (all Sigma-Aldrich) (complete medium). Cell lines were routinely tested for mycoplasma and used within three months of recovery from frozen.
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9

Isolation and Culture of Omental Mesothelial Cells

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Mesothelial cells that were isolated from normal omental tissues of women who underwent surgery for benign conditions have been previously described (55 (link)). Mesothelial cells were cultured in RPMI 1640 medium supplemented with 20% FBS, 100 units/mL penicillin, 100μg/mL streptomycin (GenDEPOT), 0.5 mM sodium pyruvate, 1× minimum essential medium (MEM) nonessential amino acids, 1× MEM vitamins (Sigma-Aldrich).
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10

E. coli Growth Media and Conditions

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E. coli strains used in this study are listed in Table S2. E. coli was grown at 37°C in lysogeny broth (LB, Invitrogen) or in M9 minimal medium (M9 minimal salts with 47.76 mM Na2HPO4, 22.04 mM KH2PO4, 8.56 mM NaCl and 18.69 mM NH4Cl), 100 μM CaCl2, 2 mM MgSO4, 50x MEM amino acids (Sigma-Aldrich), 100X MEM vitamins (Sigma-Aldrich) and 1 mM L-proline). Antibiotics and inducers were added as required at the following final concentrations: carbenicillin, 100 μg/mL; chloramphenicol, 5 μg/mL; kanamycin, 50 μg/mL; arabinose, 0.8% (w/v); glucose, 0.8% (w/v); DAP (2,6-diaminopimelic) which is essential for growth of E. coli λpir (Ferrières et al., 2010 (link)), 300 μM; IPTG (isopropyl β-D-1-thiogalactopyranoside), 50 μM.
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