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38 protocols using gentamycin sulfate

1

Preparation and Inoculation of EEDV Virus

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A frozen stock of EEDV containing 1 × 106 viral copies/mL was prepared through homogenization of skin tissue collected from naturally infected lake trout as described by Shavalier (2017). For this study, the infectious inoculum was prepared by combining 1.6 mL EEDV stock with 1.4 mL sample diluent (pH 7.525 ± 0.025) containing 458 mL Minimal Essential Medium (MEM; Invitrogen, Thermo Fisher Scientific, Waltham, MA, USA), 7 mL 1 M tris buffer, 1 mL gentamycin sulfate (Sigma-Aldrich), 5 mL penicillin/streptomycin (Invitrogen), and 5 mL Amphotericin B (Thermo Fisher Scientific), resulting in a final working virus concentration of 4.5 × 105 viral copies/mL.
Fish were anesthetized as described above and then injected intracoelomically (IC) with 100 µL/fish of either sample diluent (NC group) or EEDV infectious inoculum (EEDV group). After injection, fish were returned to their respective tanks and monitored daily. Throughout the study, moribund fish were euthanized using an overdose dose of MS-222 (0.25 mg/mL, buffered with sodium bicarbonate at dose of 0.5 mg/mL), after which a gross necropsy was performed. Percent cumulative mortality was calculated by dividing total mortalities through each study period by the starting number of fish in each group (infected and control).
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2

Macrophage Infection Assay Protocol

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Both RAW264.7 macrophages and THP-1 cells were seeded at 1 × 105 cells per well of a 24-well plate 48 h prior to infection. THP-1 cells were differentiated for 24 h in the presence of 200 nM phorbol 12-myristate 13-acetate (PMA) to activate macrophages. After activation, the medium was removed, and the cells washed prior to infection to remove dead or non-adherent cells and left for a further 24 h. RAW264.7 macrophages were treated with 100 ng/ml lipopolysaccharide to induce an activated state 24 h after seeding. Infections for both cell types were carried out in RPMI media supplemented with 3% FCS and L-glutamate. Infections were carried out at an MOI of 10. After 1 h the bacteria that had not been internalized were killed by adding 50 µg/ml gentamycin sulfate (Sigma-Aldrich) and the infection allowed to proceed.
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3

Isoprenoid Biosynthesis Precursor Assay

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Albumax I and RPMI-1640 were purchased from Fisher Scientific® (Leicestershire, UK). All solvents used were HPLC-grade or higher quality and purchased from Sigma-Aldrich (St. Louis, Missouri USA). Radiolabeled isoprenic precursors [1-(n)-3H] geranylgeranyl pyrophosphate triammonium salt {[1-(n)-3H]-GGPP; 14 Ci/mmol}, [1-(n)-3H] phytol (20 Ci/mmol), and {[1-(n)-3H] phytyl-PP ([3H]-phytyl-PP; 20 Ci/mmol) were obtained from Amersham-Pharmacia Biotech (Buckinghamshire, UK). Adenosyl-L-methionine, S-[methyl-3H] ([3H]-SAM, 82 Ci/mmol) and [1-(n)-3H] FPP triammonium salt ([3H]-FPP 23 Ci/mmol) were purchased from Perkin Elmer® (Waltham, Massachusetts, EUA). PK, α-tocopherol, γ-tocopherol, phytol, phytyl-PP, GGPP, UQ-8, UQ-9 and MK-4 pure standards were purchased from Sigma-Aldrich. Saponin, hypoxanthine, gentamycin sulfate, D-sorbitol, glucose, 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid (HEPES) and another reagent not cited here were also purchased from Sigma-Aldrich.
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4

Spinal Cord Lesioning in Zebrafish

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Tg(elavl3:EGFP)knu3 or Tg(-3.5dbx1a:EGFP)zd3 4dpf (days post fertilization) embryos were raised in E2 medium + 0.2mM Phenothiourea (Sigma) + 10mg/L Gentamycin Sulfate (Amresco), treated with 10mM BrdU (Sigma) for 24hours then immediately lesioned at 5dpf as described previously (Bhatt et al., 2004 (link); Briona and Dorsky, 2013 ) and transferred back into E2-PTU-Gentamycin Sulfate media. Briefly, microinjection glass pipettes were broken, beveled and used as a scalpel. Fish were anesthetized with 0.016% Tricaine (Sigma), braced with microforceps, and lesioned by driving a glass scalpel through the spinal cord at the level of the anal pore, and moved dorsally to sever the entire spinal cord. Sham treated animals were anesthetized and braced as described, and touched with the glass scalpel on the dorsal flank at the level of the anal pore without breaking the skin.
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5

Insect Cell Line Cultivation

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Spodoptera frugiperda and Trichoplusia ni insect cell lines, Sf-9 and BTI-TN-5B1-4 (also called High-five), respectively, (Invitrogen, Carlsbad, USA) were used. Sf-9 cells were maintained in TNM-FH medium (Sigma Aldrich, St. Louis, USA) containing 10 % fetal bovine serum (FBS, Invitrogen), 0.1 % Pluronic F-68 solution (Sigma Aldrich), and 10 µg/mL gentamycin sulfate (Sigma Aldrich) (complete TMN-FH medium). High-five cells were cultured in Express-five serum-free medium (SFM) (Invitrogen) supplemented with 16 mM of l-glutamine (Invitrogen), and 10 µg/mL gentamycin (complete Express-five SFM medium). Cell cultures were carried out at 27 °C either as a monolayer or in suspension in shaker flasks, according to the manufacturer’s instructions.
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6

Rhamnolipid and Antibiotic Preparation

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Chemicals and reagents including rhamnolipids mixture R90 (AGAE Technologies) and 4-(Dimethylamino)pyridine (DMAP) were purchased from Sigma–Aldrich (Munich, Germany). Reagents used for coupling reactions including N-(3-Dimethylaminopropyl)-N′-ethylcarbodiimide hydrochloride (EDCI) were purchased from ACROS Organics (Morris Plains, NJ, United States). Unless otherwise stated, all media components were purchased either from Oxoid (Cambridge, United Kingdom) or Becton Dickinson (Sparks, MD, United States).
Gentamycin sulfate and chloramphenicol were purchased from Sigma–Aldrich (Munich, Germany), tetracycline hydrochloride from USB Co. (Cleveland, OH, United States) and cycloheximide from SERVA (Heidelberg, Germany). The stock solutions of antibiotics were prepared as follows: gentamycin 30 g L-1 in water, tetracycline 15 g L-1 in ethanol, chloramphenicol 50 g L-1 in ethanol, and cycloheximide 70 g L-1 in water and were kept at -20°C.
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7

Culturing OP9 and OP9-DL1 Stromal Cells

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OP9 and OP9-DL1 stromal cells were cultured in RPMI 1640 (Solarbio, Cat#31800) containing 2.05 mM L-glutamine, 23.8 mM sodium bicarbonate, 25 mM N-2-hydroxyethylpiperazine-N-2-ethane sulfonic acid (HEPES), 0.188 mM penicillin G sodium salt, and 0.0686 mM streptomycin sulfate, supplemented with 10% fetal bovine serum (FBS). For coculture experiments, OP9 or OP9-DL1 stromal cells were preseeded in a 96-well plate at a density of 1,000 cells/well 1 day earlier. Sorted progenitors were plated on the stromal cells and cultured with RPMI 1640 or Opti-MEM (GibcoTM, Cat#31985070) with 10% FBS, 50 μg/ml gentamycin sulfate (Sigma-Aldrich, Cat#345814), and 55 μM 2-mercaptoethanol (Sigma-Aldrich, Cat#M7522). SCF (20 ng/ml, Novus, Cat#NBP2-35150), Flt3L (20 ng/ml, Novus, Cat#427-FL-005), IL-7 (20 ng/ml, Novus, Cat#NBP2-35136), IL-33 (20 ng/ml, Novus, Cat#NBP2-35124), or IL-18 (20 ng/ml, Sino Biological, Cat#50073-MNCE) was added to the medium when specified. Half of the medium was removed and was replaced by fresh medium every 4–5 days. All cells were cultured at 37°C and 5% CO2.
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8

Fluorescent Membrane Probe Characterization

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1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC), CaCl2, EDTA, gentamycin sulfate, MβCD, 3-(4,5-dimethylthiazol-2-yl)−2,5-diphenyl-tetrazolium bromide (MTT), MgCl2, Na2HPO4, penicillin, phenylmethylsulfonyl fluoride (PMSF), sodium bicarbonate, streptomycin, and Tris were obtained from Sigma Chemical Co. (St. Louis, MO). DMEM/F-12 [Dulbecco’s modified Eagle’s medium/nutrient mixture F-12 (Ham) (1:1)] and fetal calf serum (FCS) were from Gibco/Life Technologies (Grand Island, NY). Bicinchoninic acid (BCA) reagent for protein estimation was from Pierce (Rockford, IL). Lovastatin was obtained from Calbiochem (San Diego, CA). 4-(2-(6-(Dioctylamino)-2-naphthalenyl)ethenyl)-1-(3-sulfopropyl)-pyridinium inner salt (di-8-ANEPPS) was purchased from Molecular Probes (Eugene, OR). The concentration of stock solution of di-8-ANEPPS in methanol was estimated from its molar extinction coefficient (ε) of 37,000 M−1cm−1 at 498 nm46 (link). All other chemicals used were of the highest available purity. Water was purified through a Millipore (Bedford, MA) Milli-Q system and used throughout.
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9

Isolation and Stimulation of Splenocytes

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Splenocytes were isolated from immunized and non-immunized C57BL/6 mice (6 mice/group), 6 weeks post the last immunization, as previously described.30 (link) Briefly, spleens were minced, and red blood cells lysed with ACK lysing buffer (Cambrex Bio Sciences, East Rutherford, NJ, USA). Splenocytes were cultured at 2×106 cells/mL in Dulbecco’s Modified Eagles Medium (DMEM, Sigma, St. Louis, MO, USA) supplemented with 2.2 g/L sodium bicarbonate, 0.05 g/L of HEPES (Sigma, St. Louis, MO, USA), 0.05 g/L L-arginine (Sigma), 100 μg/mL penicillin G (Sigma), 50 μg/ mL gentamycin sulfate (Sigma) 0.005% 2-mercaptoethanol (2-Me, Gibco, Carlsbad, CA, USA), and 10% fetal bovine serum (FBS, Sigma). Assay controls were performed to assess potential for cellular activation, including stimulation with ConA (2 μg/ mL), LPS (200 ng/mL). Splenocytes that did not response to ConA and/or LPS were discarded from the analysis. To access recall to BCG antigens, splenocytes were stimulated with heat-killed BCG at 10:1 (organisms:cells) ratio for 72 h. Supernatants were collected and stored at −20°C for later analysis using the Cytokine Mouse 20-Plex Panel (Life Technologies, Grand Island, NY, USA). The multi-bead assay was analyzed using the Luminex® 100/200TM System according to manufacturer’s instructions.
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10

Xenopus laevis Embryo Cultivation

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Xenopus laevis males and females were purchased from the CNRS Xenopus breeding Center (Rennes, France). Embryos were obtained by in vitro fertilization of eggs collected in 1X MMR (Marc’s Modified Ringers) saline solution [100 mM NaCl, 2 mM KCl, 2 mM CaCl2, 1 mM MgSO4, 5 mM Hepes (pH 7.8), pH 7.4], from a hormonally [hCG (Agripharm), 750 units] stimulated X. laevis female by adding crushed testis isolated from a sacrificed male. Fertilized eggs were dejellied in 3% L-cysteine hydrochloride, pH 7.6 (Sigma-Aldrich), and washed several times with 0.1X MMR. Embryos were then cultured to the required stage in 0,1X MMR in presence of 50 mμ/mL of gentamycin sulfate (Sigma-Aldrich). The embryos were staged according to the Nieuwkoop and Faber table of X. laevis development (Nieuwkoop and Faber, 1994 ).
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