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20 protocols using m3761

1

Antibiotic-Mediated Microbiome Depletion

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To allow an efficient colonization of the donor microbiota by initially depleting native microbiota, all recipients were administered an antibiotic cocktail of ampicillin (1 g/L; #A0166, Sigma-Aldrich, USA), vancomycin (500 mg/L; #PHR1732, Sigma-Aldrich, USA) neomycin (1 g/L; #N6386, Sigma-Aldrich, USA), and metronidazole (1 g/L; #M3761, Sigma-Aldrich, USA) (AVNM), as described previously (48 (link)), for a total of 9 days in drinking water. This antibiotic cocktail regimen has been shown to be effective in reducing up to 90% of the native bacterial community and depletes most groups of microbes (e.g., gram positive, gram negative and anaerobes) in male and female mice (49 (link)–51 (link)).
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2

Metronidazole Treatment of Zebrafish Embryos

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Metronidazole (Mtz) treatments were largely conducted as previously described (Pisharath and Parsons, 2009 (link)). Working solutions of 10 mM Metronidazole (Mtz, Sigma M3761) were prepared in E3 media containing 0.2% dimethyl sulfoxide (DMSO). Treatment began at 8 hpf on dechorionated embryos incubated at 28.5°C in either Mtz or vehicle control consisting of 0.2% DMSO in E3 media. To prevent light-induced degradation of Mtz, all vehicle and Mtz-treated embryos were protected from light until the endpoint stage was reached (Curado et al., 2007 (link); Pisharath et al., 2007 (link)).
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3

Methytronitazene-Mediated Cell Ablation

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Mtz (Sigma, M3761) was used at a 2 mM concentration dissolved in egg water containing 0.5% DMSO for all of the cell ablation experiments conducted in this study. Before treatment with 2 mM Mtz or control 0.5% DMSO, embryos were manually dechorionated with forceps and then incubated with freshly prepared 2 mM Mtz or 0.5% DMSO in egg water. To wash away the Mtz, fish embryos/larvae were washed twice in dishes containing egg water. About 5% of the treated animals developed severe gross anatomical abnormalities. Only animals that appeared morphologically unaffected were analysed.
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4

Microbiome Modulation in Autoimmune Arthritis

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Naive NOD scid gamma (NSG) mice were either treated with antibiotics: ampicillin (1 g/L, A9393, Sigma-Aldrich), neomycin (1 g/L, N1876, Sigma-Aldrich), metronidazole (1 g/L, M3761, Sigma-Aldrich), and vancomycin (0.5 g/L, V2002, Sigma-Aldrich); or kept on autoclaved water for three weeks. Splenocytes were isolated from arthritic K/BxN mice or NOD controls, pooled, and transferred i.v. (60 million cells/mouse) into control, antibiotics-treated mice or NSG mice reconstituted with gut microbiota from K/BxN or KRN mice as described below.
For bacterial reconstitution, NSG mice were treated with antibiotics for two weeks and changed onto autoclaved water for 24 h before bacterial reconstitution. Feces from arthritic K/BxN or control (naive KRN) mice were collected fresh, homogenized, diluted in PBS and gavaged to NSG mice (0.06 mg feces/mouse) 7 days prior and on the day of cell transfer.
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5

Metronidazole-Induced Demyelination and Celecoxib Treatment

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In this study, metronidazole (Mtz; M3761, Sigma, St. Louis, MO, USA) was used to induce demyelination.15 (link),17 (link) Briefly, 20 Tg (mbp:nfsB-egfp) adults and 100 larvae were continuously induced with 5 mM Mtz-0.2% dimethyl sulfoxide (DMSO; V900090, Sigma)-system water or E3 medium in the dark for 4 days. The same number of adults and larvae were incubated in 0.2% DMSO-system water or E3 medium as controls. Celecoxib was administered following Mtz induction. Celecoxib was dissolved in DMSO to prepare a stock solution at a concentration of 200 mM. Adults and larvae were then treated with celecoxib at different concentrations for 6 and 3 days, respectively. The control adults and larvae were incubated with 0.2% DMSO for 6 and 3 days, respectively. Both the Mtz induction experiments and the celecoxib treatment experiments were repeated 3 times.
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6

Induction and Measurement of Antigen-Induced Arthritis

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AIA was induced as previously described41 (link),42 (link). Briefly, mice were immunized subcutaneously at the base of the tail with 200 μg methylated bovine serum albumin (mBSA, Sigma-Aldrich) in 100 μL complete Freund’s adjuvant (CFA) and phosphate-buffered saline (PBS, Sigma-Aldrich). 3 mg/ml CFA was prepared by mixing Mycobacterium tuberculosis (231141, BD) in incomplete Freund’s adjuvant (F5506, Sigma-Aldrich). After 7 days, mice received an intra-articular injection of 200 μg mBSA in 10 μL PBS in the right knee or PBS alone as a control in the left knee. Joint size was measured using calipers. Knee swelling was calculated as percentage increase in size between antigen-injected knee and PBS-injected knee.
Disease scores were calculated as follows: % Swelling =mBSAkneePBSkneePBSknee×100 If treated with antibiotics for microbiota depletion during arthritis, C57BL/6 mice were given, in their drinking water, a combination of neomycin (1 g/L, N1876, Sigma-Aldrich), metronidazole (1 g/L, M3761, Sigma-Aldrich), and vancomycin (0.5 g/L, V2002, Sigma-Aldrich), from 7 days prior to the subcutaneous injection. The mice were kept on antibiotics throughout the experiment.
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7

Antibiotic Cocktail for Drinking Water

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An antibiotic cocktail containing neomycin 0.5 g/L (N6386, Sigma-Aldrich, Saint Louis, MO, USA), ampicillin 0.5 g/L (A5354, Sigma-Aldrich, Saint Louis, MO, USA), metronidazole 0.5 g/L (M3761, Sigma-Aldrich, Saint Louis, MO, USA), vancomycin 0.5 g/L (SBR00001, Sigma-Aldrich, Saint Louis, MO, USA), and kanamycin 0.5 g/L (Beyotine, Shanghai, China) was prepared and applied in drinking water.
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8

Antibiotic Modulation of Animal Gut Microbiome

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After 1-wk habituation in the animal facility, animals were randomly assigned for antibiotic-treated or control groups (n = 4 or 5 per cage). As previously reported (50 (link)), a broad-spectrum antibiotic mixture consisting of ampicillin (1 g/L, A9518; Sigma-Aldrich), neomycin (1 g/L, N1876; Sigma-Aldrich), vancomycin (500 mg/L, 94747; Sigma-Aldrich), and metronidazole (1 g/L, M3761; Sigma-Aldrich) was added to the drinking water of the antibiotic-treated group for 4 wk. Due to the large body loss observed in mice treated with metronidazole in drinking water (51 (link)), we opted to gradually increase the concentration of metronidazole over time. In this regime, no metronidazole was added in the first day of treatment; on treatment day 2 metronidazole was introduced in a mass concentration of 250 mg/L, on day 6 the concentration was increased to 500 mg/L, and on day 9 the full concentration (1 g/L) was used. Bottles with antibiotic solution were refilled every week. The control group received regular autoclaved water. Body weight was measured three times per week.
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9

Metronidazole-Induced Selective Ablation

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Embryos from the cross of Et(HG7L) and Tg(−8.0cldnb:NTR-hKikGR) were collected and screened for double-positive ones. We freshly prepared a 10X stock of metronidazole (Mtz, M3761, SIGMA-ALDRICH) solution (20 mM Mtz, 1% DMSO). Larvae at three days post-fertilization (dpf) were first treated with a 1X working concentration of Mtz solution (2 mM Mtz, 0.1% DMSO diluted in 0.3% PTU containing 0.3X Danieau’s buffer) for 3, 6, 9, and 12 h in the dark. Then, the Mtz solution was replaced with several washes of fresh 0.3X Danieau’s buffer for recovery. The treatment of Mtz solution was 12 h to obtain the optimal ablation result.
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10

Antibiotics Modulate Gut Flora in Itk-/- Mice

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In order to examine the role of commensal gut flora in the expansion of itk-/- innate PLZF+ CD4+ T cells, we provided WT and Itk-deficient mice with a strong course of antibiotics via drinking water from birth until the time of the experiment. This antibiotic cocktail consisted of ampicillin (1 g/L, A9518), neomycin (1 g/L, N6386), metronidazole (1g/L, M3761) (Sigma-Aldrich, St. Louis, MO), vancomycin (0.5 g/L, V870) (PhytoTechnology Laboratories, Shawnee Mission, KS), and the sweetener Equal (5 g/L). This antibody cocktail has previously been described to abrogate commensal gut flora in mice (28 (link), 29 ).
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