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30 protocols using penicillin streptomycin amphotericin b

1

Isolation of Adipose-Derived Stem Cells from Transgenic Mice

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C57BL/6-Tg(CAG-EGFP) mice were purchased from Japan SLC Inc. (Shizuoka, Japan). ADSCs were isolated from the subcutaneous adipose tissue of 8- to 12-week-old C57BL/6-Tg(CAG-EGFP) mice as described previously [27 (link)]. Briefly, we obtained the adipose tissue from the subcutaneous fat pad around the ilium of the mouse and incubated the tissue in phosphate-buffered saline (PBS) containing antibiotic-antimycotic solution (Sigma-Aldrich, St. Louis, MO). We minced the fat pad into fine pieces and then incubated the pieces in Dulbecco's modified Eagle's medium (DMEM) (Sigma-Aldrich) containing 1 mg/ml collagenase II (Sigma-Aldrich) and 1% Penicillin-Streptomycin-Amphotericin B (Sigma-Aldrich) at 37°C for 30 min. The digested tissue was filtered through a sterile 70 μm nylon mesh (BD FALCON, Corning, NY), the filtrate was centrifuged at 1800 rpm for 5 min, and the supernatant was discarded. We resuspended the pellet in a 10 ml culture medium. This process was repeated twice. We seeded ADSCs onto culture dishes with growth medium (DMEM containing 10% fetal bovine serum (FBS) (Sigma-Aldrich) and 1% Penicillin-Streptomycin-Amphotericin B suspension). We dissociated the cells with TrypLE™ Select (Thermo Fisher Scientific, Waltham, MA).
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2

Isolation and Differentiation of Murine Keratinocytes

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Primary murine keratinocytes were isolated from BALB/c neonatal mice as previously described31 (link). Primary murine keratinocytes were cultured in a supplemented minimal essential medium (Gibco, Thermo Fisher Scientific Inc., Waltham, MA, USA) with 8% fetal bovine serum (FBS, Atlanta Biologicals, Flowery Branch, GA, USA) and 1% antibiotic (Penicillin Streptomycin Amphotericin B, Sigma), with 0.05 mM Ca2+ concentration. A total of 1×106 cells were seeded in each well of six well plates. Twenty-four hours after seeding, the siRNA mix (Opti-Mem serum free media (GIBCO), 75 pmol of siRNA (Dharmacon), and HiPerfect transfection reagent (Qiagen)) was added to cells. For SBSN, the siRNA used were Dharmacon, SMARTpool; siGENOME Sbsn siRNA M-054578-01-0005 and Control (mouse) SMARTpool; and siGENOME Non-Targeting siRNA Pool #1. Each condition was done in triplicates. To induce keratinocyte differentiation, a final concentration of 0.12 mM Ca2+ was used. RNA was harvested 48 hours after siRNA transfection. Total RNA from cells was extracted using RNeasy kit (Qiagen) according to manufacturer instructions. A total of 100 ng was used to prepare the libraries utilizing a Neoprep Library kit (Illumina). RNA sequencing was performed in the NIAMS Genome Core Facility at the National Institutes of Health.
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3

Isolation of Human Adipose-Derived Stem Cells

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Subcutaneous adipose tissue was collected from six elderly patients (mean age ± SD 69 ± 1 year) during total hip arthroplasty. The tissue samples were placed in sterile Hank’s Balanced Salt Solution (HBSS) (Sigma Aldrich, Germany) and the hASCs were isolated under aseptic conditions, according to a previously described protocol.7 (link),18 (link),44 (link) Isolated cells from each donor, were then pooled into one stock and after first passage the MSCs were used for vibration application. In brief, after washing with HBSS supplemented with 1% antibiotic-antimitotic solution (Penicillin/Streptomycin/Amphotericin B, Sigma Aldrich, Germany), the tissue was cut into pieces with surgical scissors, digested with 1 mg/mL collagenase type I (Sigma Aldrich, Germany), and incubated for 30 min at 37 °C. Tissue homogenate was centrifuged at 1200×g for 10 min and the supernatant was removed. The pellet containing cells was resuspended in culture medium and placed in a cell culture flask.
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4

Murine RAW 264.7 Cell LPS Stimulation Assay

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Murine RAW 264.7 cells (ATCC TIB-71) cultured in Dulbecco’s Modified Eagle’s Medium supplemented with 10% fetal calf serum, 1% penicillin-streptomycin-amphotericin B, and 1% l-glutamine (all reagents from Biological Industries) were collected using a cell scraper and stimulated with LPS (from Escherichia coli 0127:B8, Sigma Aldrich) following a modified protocol (63 ). Briefly, 2e05 cells were stimulated with 100 ng/mL LPS ± 0.5 μM dexamethasone per well (Sigma Aldrich) in 12-well cell culture plates. Cells were collected in Tri-Reagent (Sigma Aldrich) 18 h after LPS stimulation and RNA was isolated using miRNeasy kit (Qiagen). For the size selection, 1 μg of total RNA was used and cDNA was synthesized from 500 pg of size-selected RNA using qScript microRNA cDNA Synthesis Kit (Quanta Biosciences) and following standard protocol (for further details, see SI Appendix, Expanded Methods). Data presented in the report is derived from three independent experiments (two of them with dexamethasone treatment) with two to four technical replicates in each group.
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5

Cell Line Growth Optimization Protocol

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Ten cell lines from different organs and animal species were chosen in this study (Table 1). Cell culture medium for HEK-293T, MDCK, Paki, Pabr, Palu, and PK15 cells was Gibco™ Dulbecco’s Modified Eagle Medium (DMEM) (Thermo Fisher) with 10% FBS (Biological Industries), 1.5 g NaHCO3, 1 mM sodium pyruvate (Thermo Fisher), and 1× penicillin–streptomycin–amphotericin B solution (Biological Industries). Cell culture medium for Vero, Caco-2, and Fcwf-4 cells was Minimum Essential Medium Eagle (MEM) (Sigma-Aldrich, St. Louis, MO, USA) with 10% FBS, 1.5 g NaHCO3, 1 mM sodium pyruvate, 0.01% NEAA (Thermo Fisher), and 1× penicillin–streptomycin–amphotericin B solution. Cell culture medium for IEC-6 was DMEM with 5% FBS, 0.1 U/mL 95% bovine insulin (Sigma-Aldrich), 1.5g NaHCO3, 1 mM sodium pyruvate, and 1× penicillin–streptomycin–amphotericin B solution. Eleven cells were divided into four groups according to their growth rate. HEK-293T, Paki, PK15, and MDCK cells belonged to the first group and grew to 70% confluence for one day. Vero, Pabr, Caco-2, and IEC-6 cells belonged to the second group and grew to 70% confluence for two days. Palu and Fcwf-4 cells belonged to the third group and grew to 70% confluence for three days. MFK cells needed four days to grow to 70% confluence and belonged to the fourth group.
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6

Characterization of SCA2 and ALS Cell Lines

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Published control and patient-derived SCA2 fibroblasts, induced pluripotent stem cells (iPSCs), and neural stem cells (NSCs) differentiated from iPSCs were cultured as previously described.27 (link) Human lymphoblastoid cell lines were obtained from patients with ALS (Coriell, Camden, NJ) or controls, and cultured as previously described.13 (link) SK-N-MC neuroblastoma cells (ATCC, Manassas, VA) were maintained in Dulbecco modified Eagle medium with high glucose, supplemented with 10% fetal bovine serum and 1% penicillin/streptomycin/amphotericin B (Sigma, St Louis, MO). SK-N-MC cells were screened regularly for mycoplasma contamination using Hoechst DNA staining method (Sigma). Primary mouse cortical neurons were prepared as previously described.28 (link) Cells were transfected using Lipofectamine 2000 (Life Technologies, Grand Island, NY) according to the manufacturer’s protocol.
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7

Isolation of Human Adipose-Derived MSCs

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All cell handling procedures described herein were performed in accordance with the ethical standards laid down in the 1964 Declaration of Helsinki and its later amendments and were approved by the Local Bioethics Committee of Wroclaw Medical University (registry number KB-177/2014). Written, informed consent for using tissue samples for research purposes was obtained from each and every patient prior to surgery.
Human mesenchymal stem/stromal cells were isolated from subcutaneous adipose tissue. Patients' fat biopsies (patient age ranged from 22 to 77 years) were obtained during total hip/knee arthroplasty or other open procedures connected with fracture reduction and fixation. Samples were placed in Hanks' balanced salt solution (HBSS) (Sigma-Aldrich, Germany) and transferred to the laboratory. According to a standard protocol [32 (link)], tissue samples were washed two times in HBSS with 1% antibiotic solution (Penicillin/Streptomycin/Amphotericin b, Sigma-Aldrich, Germany) and separated using surgical scissors. The minced tissue was digested in collagenase type I solution (1 mg/mL, Sigma-Aldrich, Germany) for 40 minutes at 37°C. After centrifugation (1200 ×g, 10 min) the supernatant was discarded and the pellet containing the cells was resuspended in culture medium and placed in a cell culture flask.
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8

Isolation of Adipose-Derived Stromal Cells

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Human subcutaneous adipose tissue was obtained from patients undergoing elective lipoaspiration with informed consent (The University of Texas MD Anderson Cancer Center Institutional Review Board registrations IRB00001035, IRB00003657, IRB00004920, and IRB00006075). Adipose tissue was washed thoroughly, minced, and incubated with Ringers lactate containing a combination of collagenase I and II and a neutral protease (Matrase TM Reagent, InGeneron Inc. Houston TX) in a Tissue Processing Unit (Transpose RTTM System, InGeneron Inc. Houston TX) for 30 minutes at 40°C. Subsequently, the cell suspension was filtered through a 100-μm filter, washed twice, and then centrifuged at 600 rpm for 5 minutes. The adipose stromal vascular fraction was resuspended in αMEM with 20% FBS, L-glutamine, and penicillin-streptomycin-amphotericin B (Sigma-Aldrich) at 37°C in 5% CO2. Red blood cells in the supernatant and nonadherent cells were removed after 48 hours. For all experiments shown, human subcutaneous adipose tissue-derived cells were used prior to passage 6.
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9

Culturing Amniotic Fluid Cells

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Collected amniotic fluid, at a 0.1–5 mL volume, was transferred from syringes to tubes under sterile conditions of a laminar chamber. The content of the syringes was inspected macroscopically for contamination, such as residual blood. Then, the tubes were centrifuged at 350×g for 10 min, the supernatant was discarded, and the precipitate was suspended in Dulbecco’s Modified Essential Medium (DMEM/Ham’s F12, Sigma, Germany) supplemented with 20% fetal bovine serum (FBS, Sigma, Germany), 10 ng bFGF (Sigma, Germany), and 1% antibiotic solution (penicillin/streptomycin, amphotericin B, Sigma, Germany). The viability of the cells was determined by the trypan blue test. Then, the cells were transferred to 35 mm Petri dishes. The dishes were incubated at 37°C with 5% CO2 and constant humidity. The culture medium was replaced every 48 h. The cells were cultured until they reached confluence and then transferred to new Petri dishes.
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10

Cytotoxicity Assessment of Compounds on MDA-MB-231 Cells

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To determine the cytotoxic potential of the selected compounds, the human epithelial breast cancer cell line MDA-MB-231 (American Type Culture Collection (ATCC), Manassas, VA, USA) was used. The cells were cultured in DMEM (Dulbecco’s modified essential media) (cat. No. 30-2002, ATCC, Manassas, VA, USA) with 10% fetal bovine serum (FBS) (cat. No. F7524, Sigma-Aldrich Co. LLC, St. Louis, MO, USA), 1 mM L-glutamine (cat. No. G7513, Sigma-Aldrich Co. LLC, St. Louis, MO, USA) and penicillin/streptomycin/amphotericin B (100 units/mL: 10 mg/mL: 25 μg/mL) (cat. No. A5955, Sigma-Aldrich Co. LLC, St. Louis, MO, USA) at 37 °C, 5% CO2 and optimal humidity.
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