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Dme f12

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DME/F12 is a cell culture medium formulated for the growth and maintenance of various cell lines. It is a combination of Dulbecco's Modified Eagle's Medium (DMEM) and Ham's F-12 Nutrient Mixture. This medium provides a balanced set of nutrients, vitamins, and other components essential for cell proliferation and survival in in vitro cell culture applications.

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12 protocols using dme f12

1

Cell Line Culture and Inhibitor Assays

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Twenty-four cell lines were purchased from American Type Culture Collection (ATCC). All cell lines were cultured in RPMI-1640; except H1581 cells were cultured in Dulbecco's Modified Eagle's Medium (DMEM) and Ham's F12 Nutrient Mixture (DME/F12; Invitrogen, Carlsbad, CA, USA). Human bronchial epithelial BEAS2B cells were cultured in supplemented keratinocyte growth medium (KGM) bullet kit medium (Lonza, Walkersville, MD, USA). AZD4547 and crizotinib were purchased from Sellekchem (Houston, TX, USA). BAY1163877 was a gift from Bayer Healthcare AG (Wuppertal, Germany)
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2

Medulloblastoma tumor subtype identification

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The SD-CSC and SI-CSC tumor subtype designation methods were reported previously (18 (link)). Briefly, freshly dissociated single cells were isolated from spontaneous medulloblastomas and plated at a low density (3,000 cells in 3 mL) in either TSC [modified DME/F-12 supplemented with B27 (Invitrogen) and penicillin/streptomycin] or NSC (TSC plus 20 ng/mL EGF and 10 ng/mL bFGF) medium in triplicates in 6-well plates, and secondary sphere formation was scored 5–7 days later. Tumors that formed secondary spheres only in NSC but not TSC medium were designated growth factor–dependent/SI-CSC subtype. Those that formed spheres in either NSC or TSC medium were designated as growth factor–independent/SD-CSC subtype. Those that did not form secondary spheres in either TSC or NSC medium were designated as no growth/SD-CSC subtype based on additional analyses (18 (link)).
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3

Assessing Oxidative Stress in SH-SY5Y Cells

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Human neuroblastoma SH-SY5Y cell line was obtained from the Chinese Academy of Science (Shanghai, China), seeded into a 6-well plate with DME/F12 (1:1) (Invitrogen, USA) supplemented with 10% FBS (Gibco, USA), 1%NEAA (Invitrogen, USA), 1% sodium pyruvate (Invitrogen, USA), 1%Gluta-max (35,050,061, Invitrogen, USA), 1%NEAA (Invitrogen, USA), and 1%penicillin/streptomycin (Beyotime, China), and cultured at 37°C in a humid atmosphere of 5% CO2-incubator. The SH-SY5Y cells were pretreated with or without IronQ for 24 hours. Subsequently, the media were removed, and the cells were further cultured in their original media supplemented with 100 μM H2O2 (except for control) for an additional 12 hours. Then, the cells were assessed using a ROS detection kit (Beyotime, China) following the manufacturer’s instructions. Fluorescence intensity was quantified by flow cytometry (BD FACSCanto II, BD Biosciences, USA) at an excitation wavelength of 488 nm and an emission wavelength of 525 nm.
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4

Generation of Doxycycline-Inducible Cell Lines

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RPE1 cells were grown in DME/F-12 supplemented with 10% fetal bovine serum, penicillin/streptomycin, and l-glutamine (Invitrogen, Carlsbad, CA) and maintained at 37°C and 5% CO2. Plasmid transfections were conducted using FuGENE HD (Promega, Madison, WI) as recommended by the manufacturer.
To generate clonal doxycycline-inducible cell lines to express untagged forms of the bacterial phosphatase SigD, we used a transcription activator–like effector nuclease (TALEN)–mediated targeting system that incorporates transgenes at the AAVS1 locus (Qian et al., 2014 (link)). In each case, the cassette (SigD followed by an internal ribosome entry site and red fluorescent protein [RFP]) was electroporated into human RPE1 cells together with the two AAVS1-specific TALEN plasmids at a ratio of 8:1:1, and the cells were treated with puromycin (1 μg/ml) for ∼3 wk. After puromycin selection, cells were sorted based on RFP expression after a 12-h induction with 10 ng/ml doxycycline. Cells stably expressing low levels of wild-type (WT) and mutant forms of EHS-1EH-GFP and GFP-C2 (C2 domain from bovine lactadherin) were generated in the sorted SigDWT or SigDC460S cell lines by retroviral infection followed by selection with blasticidin.
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5

Melanoma Cell Line Maintenance and Manipulation

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The melanoma cell lines (Malme3M, Malme3MR) were grown in Dulbecco’s Modified Eagle’s Medium/Ham’s Nutrient Mixture F-12 (DME/F12, Invitrogen). For all cell lines, media was supplemented with 10 % heat-inactivated fetal bovine serum (FBS, Invitrogen) and 1% penicillin/streptomycin (GIBCO). CD133+ cells isolated from Malme3MR, SNU387R cells were maintained in serum-free DMEM/F12 (Gibco-BRL, USA) supplemented with 20 ng/ml epidermal growth factor (EGF) (Sigma, USA), 10 ng/ml basic fibroblast growth factor (bFGF) (Sigma, USA), and 20 ng/ml leukemia inhibitor factor (LIF) (Sigma, USA). Malme3MR and SNU387R cells were established from their parental Malme3M and SNU387 respectively by continuous exposure to celastrol (Kim et al., 2010 (link)). SNU387R-AS-CAGE and Mame3MR-AS-CAGE cells stably express anti-sense cDNA. Malme3MR-miR-200b cells stably express miR-200b (Kim et al., 2013 (link)).
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6

Isolation and Culture of Lung Cells

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Lung tissue was enzymatically dissociated by incubation in 2mg/ml collagenase (Sigma, Poole, UK) in serum free phenol red free Dulbecco's Modified Eagle Medium: Nutrient Mixture F-12 (DME-F12, Life Technologies Ltd, Paisley, UK) medium for 2–24 hours at 37°C, with occasional agitation. Cells released were washed in DME-F12 medium containing 10% foetal bovine serum, plated in the same medium and cultured on tissue culture treated plastic at 37°C and 5% CO2. Adherent cells were seen after 24 hours. Cells were used between passages 1 and 3. 621-101 cells are a TSC2-null cell line derived from a renal angiomyolipoma of a LAM patient and were a gift from Elizabeth Henske [19 (link)]. These cells were maintained in DME-F12 with 10% FCS. Normal Human Lung Fibroblasts (NHLFs) were purchased from Lonza (Slough, UK) and were maintained in DME-F12 with 10% FCS.
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7

Isolation and Culture of LAM-Associated Fibroblasts

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Fibroblast-like cells, now termed LAM-associated fibroblasts (LAFs), were obtained from collagenase-digested fresh LAM lung tissue, cultured in Dulbecco's Modified Eagle's Medium: Nutrient Mixture F-12 (DME-F12; Life Technologies Ltd, Paisley, UK) and were used between passages 3 and 6. LAFs do not have TSC mutations, and they express full-length tuberin protein and suppressible mTOR activity in the absence of serum, consistent with wild-type cells, as previously described. 10 621-101 Cells were derived from the renal angiomyolipoma of a patient with sporadic LAM, have inactivation of both alleles of TSC2, express estrogen receptors a and b, 29 and were a gift from Elizabeth P. Henske (Brigham and Women's Hospital, Harvard Medical School, Boston, MA). These cells were maintained in DME-F12 with 10% fetal calf serum. TSC2 À/À and TSC2 þ/þ murine embryonic fibroblasts (MEFs) were a gift from David Kwaitkowski (Brigham and Women's Hospital, Harvard Medical School, Boston, MA) and were derived as described by Onda et al. 30 Normal human lung fibroblasts from premenopausal female donors were purchased from Lonza (Slough, UK) and Promocell (Heidelberg, Germany) and were maintained in DME-F12 with 10% fetal calf serum.
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8

Isolation and Culture of Rat Adipose-Derived Stem Cells

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Briefly, the inguinal fat pad was removed from the abdominal cavity of rats anesthetized with diethyl ether. The adipose tissue was digested at 37 °C for 70 min using type I collagenase (Sigma, USA). After centrifugation at 170 × g for 10 min, the cells were resuspended in the lower layer using DME/F12 (HyClone, USA), and then filtered through a 70 μm mesh. The collected cells were cultured in a 37 °C, 5% CO2 incubator in DME/F12 containing 10% FBS (Gibco, USA). After 48 h, the medium was changed for the first time. When the cells reached confluence, the adherent cells were detached with trypsin/ethylenediaminetetraacetic acid (EDTA) (Sigma, USA) and reseeded for expansion13 (link). When the ADSCs reached the third generation, Res at a concentration of 20 μM was added and cells were preincubated for 24 h for subsequent experiments.
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9

Derivation and Passaging of Intestinal Organoids

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Intestinal organoids were derived for genome-engineered hESCs as described previously (Forster et al., 2014 ). Briefly, genome-engineered hESCs were injected subcutaneously into NOD-SCID mice (Taconic). Teratomas (<2 cm) formed within 6–8 wk were isolated and disaggregated into a single-cell suspension, and ∼5 × 104 cells were embedded in 50 μl Matrigel (Corning 354234) in a well of a 24-well plate. Cells were incubated at 37°C for 15 min, and after the Matrigel solidified, growth medium (see below) was added to the well. Organoids formed over the period of a week before cultures were passaged by 30 min dissociation in Dispase (5 U/ml; Stemcell Technologies) and gravity sedimentation of newly forming organoids (3 × 2 min at 40 × g in 12.5 ml of DMEF12 (Gibco 11320-033) with 0.5% bovine serum albumin (BSA) (Sigma; A4503)). Single cells were aspirated with the supernatant of each wash to mechanically enrich for the faster-sedimenting organoids. This procedure resulted in almost homogeneous organoid cultures after three passages over three 1-wk intervals. Subsequent passages were done by mechanical shearing with a P1000 pipette after 5 min exposure to 2 mM EDTA, 0.5% BSA in PBS.
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10

Isolation and Characterization of Murine Bone Marrow-Derived Mesenchymal Stem Cells

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BMSCs from the eGFP mice were extracted using the whole bone marrow apposition method. The eGFP mice were anesthetized intraperitoneally with 3% pentobarbital (30 mg/kg). Bilateral femurs and tibias were dissected after removing surrounding tissues and muscles, and rinsed with phosphate- buffered saline (PBS, Solarbio, China) for three times. Both ends of the bone were cut using tissue scissors, and following procedures were successively performed: (i) the bone marrow cavity was flushed three times using a 1 mL syringe; (ii) the culture medium containing bone marrow was collected; (iii) he supernatant was discard after centrifugation; (iv) the cell pellet was resuspended in DME/F-12 (Gibco, US); and (v) the resuspended cells were used to inoculate T25 culture flasks (Corning, US) to form a single cell layer. The cells were incubated at 37°C in a 5% CO2 cell incubator and then the medium was replaced with fresh medium 4 h later, and every three days thereafter. Cells would be passaged when they reached a confluency of 80%, and the 3rd to 5th passaged cells(P3-P5) were used in subsequent experiments. BMSCs were inoculated on six-well plates (Corning, US) and the expression of their important markers CD90, CD34, and CD44 (BOSTER, China) were identified by immunofluorescence techniques.
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