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36 protocols using gentamicin

1

Screening of Antibiotic Resistant Mutants in P. aeruginosa

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Cells of P. aeruginosa PAO1 or mutants (107 to 109 CFU) were grown in L medium (1.0% polypeptone, 0.5% yeast extract, and 0.5% NaCl, pH 7.0) and spread onto L agar plates (1.0% polypeptone, 0.5% yeast extract, 0.5% NaCl, and 1.5% agar, pH 7.0) containing 1 × , 2 × , 4 × MIC for one of the following seven antimicrobial agents: carbenicillin, imipenem, Amikacin, gentamicin, ciprofloxacin, levofloxacin, and erythromycin. We obtained many colonies that appeared on the plates after an incubation at 37 ℃ for 24–36 h. After single-colony isolation, the drug resistance patterns of the mutants were investigated. Amikacin (Wako, cat. 014-24941), carbenicillin (Wako, cat. 037-23693), ciprofloxacin (Wako, cat. 032-18731), gentamicin (Wako, cat. 079-02973), imipenem (Wako, cat. 098-07283), levofloxacin (Fluka, cat. 28266) were purchased from indicated manufactures.
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2

Autoinducer Analog-1 and Antimicrobial Agents

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The autoinducer analog-1 used in this study was N-(piperidin-4-yl)-dodecanamide [18 (link)]. Biapenem was purchased from Meiji Seika Pharma Co. Ltd. (Tokyo, Japan). Gentamicin was purchased from the Wako Pure Chemical Corporation (Osaka, Japan). Levofloxacin was purchased from Sigma-Aldrich (St. Louis, MO, USA). Tobramycin was purchased from LKT Laboratories Inc. (St. Paul, MN, USA).
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3

Synthesis and Procurement of Antibiotics

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Cefiderocol, ceftolozane, and avibactam were synthesized at the research laboratories of Shionogi & Co., Ltd. (Osaka, Japan). Commercial-grade antibiotics were obtained as follows: ceftazidime, tazobactam, amikacin, and aztreonam from Chem-Impex International, Inc. (Wood Dale, IL); cefepime and metronidazole from U.S. Pharmacopeia (Rockville, MD); meropenem, colistin, and gentamicin from Wako Pure Chemical Industries, Ltd. (Osaka, Japan); and ciprofloxacin and piperacillin from LKT Laboratories, Inc. (St. Paul, MN).
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4

Generation of Transgenic Tg Frogs

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To produce Tg frogs, we used the I-SceI meganuclease- [18] (link) and transposon-mediated gene trap [19] (link). Fertilized eggs were injected with I-SceI meganuclease (NEB) and the I-SceI-cleaved plasmid encoding Z-AR and V5, and the Tol II mRNA [19] (link) and the prrT2ARG plasmid encoding Z-AR and GFP, respectively, using a NANOJECT II injection apparatus (Drummond). Tg embryos were cultured in 0.1×MMR with 6% Ficoll PM400 (GE Healthcare) and 50 µg/ml gentamicin (Wako), developed to St. 20 at 18°C, and then transferred to water at room temperature. The tadpoles were continuously reared in water with or without T (50 ng/ml; 150 nM). To confirm the exogenous Z-AR integration into genomic DNA, we extracted DNA from the tail tip of all Tg frogs just after metamorphosis, using the AllPrep DNA/RNA Micro Kit (QIAGEN). The PCR primers used were: forward, 5′-GCGGTTTTTCCAACTTACCA-3′ and reverse, 5′-CGAGACCGAGGAGAGGGTTA-3′).
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5

Antibiotics Growth Inhibition Assay

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We used the following antibiotics: from Sigma (St. Louis, MO, USA), gentamicin and metronidazole; from Wako (Osaka, Japan), ampicillin and clindamycin. Freshly cultured P. gulae in the exponential phase of growth were employed so that antibiotics reactions could be observed for 24 h. Bacterial growth was measured on an SH-1000 Lab microplate reader (Corona Electric, Ibaraki, Japan) at 595 nm.
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6

Culturing Luteal Cells From Ovarian Tissue

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Early and mid luteal tissues were enzymatically dissociated, and luteal cells were cultured as previously described [25 (link), 27 (link)]. The luteal cells were
suspended in a culture medium, consisting of DMEM and Ham’s F-12 medium (Life Technologies Corp., Grand Island, NY, U.S.A.; No. 12634-010), supplemented with 5% calf serum (Life Technologies Corporation; No. 16170-078) and 20
µg/ml gentamicin (Wako Pure Chemical Industries, Osaka, Japan; No. 078-06061). Cell viability was determined to be greater than 85% by trypan blue exclusion. Cells in the cell suspension
consisted of approximately 70% small luteal cells, 20% large luteal cells, 10% endothelial cells or fibrocytes, and no erythrocytes [25 (link)].
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7

Antibody-mediated Listeria monocytogenes Infection

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RAW264.7 cells were seeded on 24-well culture plates (Asahi Glass, Tokyo, Japan) at 1 × 106 cell/well in DMEM supplemented with 10% (v/v) FBS. Cells were treated with 100 μg of the antibody and infected simultaneously with L. monocytogenes at multiplicity of infection (MOI) 10. After incubation for 30 min, the extracellular bacteria were eliminated with 50 μg/ml gentamicin (Wako). The intracellular bacteria were enumerated by serial dilution and spread on tryptic soy agar (TSA) plates. For adhesion assay, RAW264.7 cells were seeded and incubated with the antibody and L. monocytogenes at MOI 10 as described above. NMuLi cells were seeded at 5 × 105 cell/well and incubated with the antibody and L. monocytogenes at MOI 100. After incubation for 15 min, the non-adhesive bacterial cells were washed with PBS for 5 times. The adhesive bacterial cells were enumerated on TSA plates. For combination of antibodies, 50 μg of each antibody were mixed to obtain a final amount of 100 μg.
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8

Cancer Cell Line Culture Protocols

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The esophageal cancer cell line KYSE30 (94072011; European Collection of Authenticated Cell Cultures, Salisbury, UK) was cultured in a 1:1 mixture of Ham’s F12 medium (Wako Pure Chemical Industries, Tokyo, Japan) and RPMI 1640 medium (Wako Pure Chemical Industries) supplemented with 10% heat-inactivated fetal bovine serum (FBS; Biosera, Nuaillé, France) and 1% ampicillin and streptomycin (Thermo Fisher Scientific, Waltham, MA, USA). The human colon cancer cell line HCT116 (CCL-247; American Type Culture Collection, Manassas, VA, USA) was cultured in RPMI 1640 medium (Wako Pure Chemical Industries) supplemented with 10% FBS and 1% ampicillin and streptomycin (Thermo Fisher Scientific). Murine colon adenocarcinoma cell line MC38 (ENH204-FP; Kerafast, Boston, MA, USA) was cultured in Dulbecco’s modified Eagle medium with high glucose (Wako Pure Chemical Industries) supplemented with 10% FBS, 1 mM sodium pyruvate (Thermo Fisher Scientific), 100 μM non-essential amino acids (Thermo Fisher Scientific), 50 μg/mL gentamicin (Wako Pure Chemical Industries), 10 μM 4-(2-hydroxyethyl)-1-piperazineëthanesulfonic acid (Thermo Fisher Scientific), and 1% penicillin-streptomycin-amphotericin B (Wako Pure Chemical Industries). Cells were cultured in an atmosphere of 5% carbon dioxide (CO2) at 37°C. All experiments using cells in this study were performed for fewer than 20 passages after thawing.
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9

Isolation and Culture of Luteal Cells

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Early and mid-luteal tissues were enzymatically dissociated and the luteal cells were cultured as described previously [15 (link)]. After enzymatic dissociation, the luteal cells were suspended in culture medium, DMEM and Ham’s F-12 medium (D/F medium; Life Technologies, Grand Island, NY, USA; Catalog No. 12634-010) containing 5% calf serum (CS; Life Technologies; Catalog No. 16170-078) and 20 μg/ml gentamicin (Wako pure Chemical Industries, Osaka, Japan; Catalog No. 078-06061) to attach cells to culture plate. Cell viability was greater than 85% as assessed by trypan blue exclusion. The cells in the cell suspension consisted of about 70% small luteal cells, 20% large luteal cells, 10% endothelial cells or fibrocytes and no erythrocytes [15 (link)].
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10

Host Cell Infection Protocols for C. jejuni and S. Enteritidis

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HeLa cell (RCB #0007) was provided by the RIKEN BRC through the National BioResource Project of the MEXT/AMED, Japan, and cultured for three days in Dulbecco’s-modified Eagle’s medium, high glucose (DMEM; Sigma-Aldrich, #D6429) supplemented with 10% fetal bovine serum (FBS; Ausgene) and 50-µg/ml gentamicin (Wako, #078-06061) [DMEM (+)] at 37°C in 5% CO2. Additionally, the human intestinal epithelial cell line, Caco-2 cells, was cultured in DMEM (+) for four days.
For the infection experiments, the medium was changed to DMEM without FBS and gentamicin [DMEM (−)]. The cells were infected at a multiplicity of infection of 100−200:1 in C. jejuni infection or 10−20:1 in S. Enteritidis infection, and infected cells were incubated at 37°C in 5% CO2.
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