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32 protocols using global 18 protein rodent diet

1

Ultrastructural Visualization of Lymphatic Vessels

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Founder C57BL/6j mice were purchased from Charles River and male offspring were bred and maintained at UCL on a 12-h light/12-h dark cycle with ad libitum supply of food (Envigo 2018 Teklad global 18% protein rodent diet) and water. Mice were deeply anaesthetised with Euthatal then transcardially perfused with heparinised (5000 U/l) physiological saline, followed by 4% PFA in PB pH 7.3 prepared fresh on day of perfusion. Following this, brains were dissected and postfixed by immersion in the same fixative mix overnight at 4 °C. Immunohistochemistry was carried out in PB on floating 100 µm coronal vibratome sections using rabbit anti-LYVE1 antibody (11-034, Angiobio). Nanogold (1.4 nm; Nanoprobes) goat anti-rabbit secondary was used and detected using HQ silver enhancement kit (Nanoprobes) following manufacturer’s instructions before postfixation using 1% EM-grade glutaraldehyde and conventional epoxy-based EM processing and sectioning. Ultrathin sections were stained lightly for contrast using lead citrate.
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2

In vivo study of PXR-deficient mice

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In vivo studies were performed in a conventional laboratory animal room following the European Union guidelines for laboratory animal use and care. The current project was approved by an independent ethics committee (CEEA-86 Toxcométhique) under the authorization number 2018062810452910. The animals were treated humanely with due consideration to the alleviation of distress and discomfort. All mice were housed at 21–23 °C on a 12 h light (ZT0–ZT12) 12 h dark (ZT12–ZT24) cycle and allowed free access to the diet (Teklad Global 18% Protein Rodent Diet) and tap water. ZT stands for Zeitgeber time; ZT0 is defined as the time when the lights are turned on. Twelve six-week-old wild-type (WT) C57BL/6J male mice were purchased from Charles River and 12 Pxr-/- animals (backcrossed on the C57Bl/6J background) were engineered in Pr. Meyer’s laboratory [40 (link)] and were bred for 10 y in our animal facility. Mice were acclimatized for two weeks, then randomly allocated to the different experimental groups: Wild-type control (WT CONT, n = 6), wild-type PCN-treated (WT PCN, n = 6), Pxr-/- control (Pxr-/- CONT, n = 6), Pxr-/- PCN-treated (Pxr-/- PCN, n = 6). PCN-treated mice received a daily intraperitoneal injection of PCN (100 mg/kg) in corn oil for 4 days while control mice received corn oil only. Mice were killed at ZT6, 6 h after the last PCN injection.
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3

Hepatocyte Single-cell Transcriptome and Circadian Clock

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All animal care and handling were approved by the Institutional Animal Care and Use Committee of WIS and by the Canton de Vaud laws for animal protection (authorization VD3197.b). Male (C57BL/6JOlaHsd) mice aged of 6 weeks, housed under reverse-phase cycle and under ad libitum feeding (Teklad Global 18% Protein Rodent Diet) were used to generate sc-RNA-seq data of hepatocytes and single-molecule RNA-FISH (smFISH). Littermate controls were used for the ZT6 and ZT18 time points. Male mice between 8 to 10 weeks old (C57BL/6J), housed under 12:12 light-dark cycle, and having access to food only during the night (Kliba Nafag 3242 Breeding, Vitamin-fortified, irradiated > 25 kGy) were used for smFISH of circadian clock genes (Reporting Summary).
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4

Erythromycin Disruption of Gut Microbiome

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Germ-free C57BL/6 female mice (6 to 7 weeks old) were randomized into IsoP cages (Techniplast, Italy) containing three mice per cage, and assigned into four groups (n = 7 to 9 mice per group). Germ-free mice received either plain drinking water or water containing erythromycin ethylsuccinate (equivalent to 20 mg/kg) for 90 days. Engraftment of germ-free mice with donor control or erythromycin-disrupted microbiota was performed using pooled cecum material prepared from three donor mice from the respective groups, as described previously (46 (link), 47 (link)). All mice had ad libitum access to water and autoclaved food (Teklad Global 18% Protein Rodent Diet).
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5

Diethylnitrosamine-Induced Liver Carcinogenesis

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Three groups, each composed by eight 14 days old C57BL/6J mice (Charles River laboratories, France) were treated with intra-peritoneal injection of diethylnitrosamine DEN (25 mg/kg) in saline solution, and sacrificed by CO2 asphyxiation after 3, 6, and 11 months. As many groups of as many 14 days old mice were treated, in parallel, with intra-peritoneal physiological saline solution injection, and sacrificed at the same experimental time points. Animals were fed with a standard diet (Harlan 2918, Teklad Global 18 % Protein Rodent Diet) and housed under the same conditions (T = 20-21 °C, 12 h light–dark cycle). All experimental procedures were performed in conformity with national and international laws and policies (European Economic Community Council Directive 86/609, Italian Legislative Decree 116/92, National Institutes of Health Guide for the Care and Use of Laboratory Animals) and were approved by the Internal Committee and the Italian Ministry of Health.
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6

Sprague Dawley Rat Dietary BCAA Study

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All chemicals were purchased from Sigma Chemical Co. (St. Louis, Mo.) unless otherwise noted. A 4% BCAA solution was dissolved in water [1.38 g isoleucine, 1.38 g leucine, 1.24 g valine in 1000 mL water as described previously12 ] Male Sprague Dawley rats were obtained from Harlan (Indianapolis, IN.). Rats were individually housed and maintained in a temperature-controlled colony room (21°C–23°C) on a 12 h light–dark cycle. Rats were allowed free access to food (Teklad Global 18% Protein Rodent Diet, which contains 18 mcg/g leucine, 8 mcg/g isoleucine, and 9 mcg/g valine) and water, and were given at least 1 week of acclimation prior to the start of the experiment. All procedures were approved by the Institutional Animal Care and Use Committee at Yale University and were conducted in accordance with current guidelines.
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7

Dietary Effects on Epoxide Hydrolase Knockout Mice

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Experiments were conducted in accordance with the protocols approved by the Institutional Animal Care and Use Committee of the University of California. The soluble epoxide hydrolase KO mice on a C57/B6 background and the C57/B6 were maintained separately but housed in the same vivarium under identical conditions during the same time frame. Both soluble epoxide hydrolase KO mice and C57/B6 WT female and male mice (8 weeks old) were allowed to acclimate and then administered one of the following diets for 8 weeks: HFD (60 kcal% fat, purchased from Research Diet Inc., catalog number D12492), control diet (10 kcal% fat, D12450J from Research Diet Inc.) (http://www.researchdiets.com/opensourcediets/stock-diets/dio-series-diets), Omega-3 DHA enriched diet [Diet formulated by Research Diets, 15 kcal% fat, 6.25% of Solutex0365 (by weight)], or standard chow (Teklad Global 18% Protein Rodent Diet, 18 kcal % fat). The DHA diet was produced from Solutex oils with added t-BHQ and was vacuum packed under nitrogen and stored at −20°C. Female and male WT mice and sEH KO mice fed with all four diets were assessed; weight gain and chow consumption (per cage) were measured over the course of the study (Supplementary Figure S1). Tissues were sampled and immediately flash frozen at −80°C and later assessed for sEH activity liver triglycerides and oxylipin metabolites.
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8

Antibiotic-Induced Gut Microbiome Depletion

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Adult male Sprague Dawley rats (n = 10/group) were housed five per cage in standard rat cages in our animal housing facility under a strict 12-h light/dark cycle. Both antibiotic-treated and vehicle-treated rats received the same autoclaved diet (Teklad Global 18% Protein Rodent Diet, product code 2018S). To deplete the gut microbiota, rats were treated with a cocktail of antibiotics for a total of 13 weeks; animals were 9 weeks old before antibiotic exposure. The antibiotic cocktail consisted of ampicillin (1 g/L), vancomycin (500 mg/L), ciprofloxacin HCL (20 mg/L), imipenem (250 mg/L) and metrondiazole (1 g/L) in autoclaved water. This was changed every 3 days as previously described to deplete the gut bacteria [29 (link), 30 (link)]. Control animals received autoclaved water without any antibiotics which was also changed every 3 days. Additional details on experimental design and neurochemical and behavioural consequences of chronic gut microbiota depletion can be found in our previous publication [30 (link)].
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9

Ketogenic Diet and Calorie Restriction in Tumor Regression

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The low carbohydrate ketogenic diet was purchased from BioServ (#F3666). This diet provides calories from protein, fat and carbohydrates at approximately 4.6%, 93.4%, and 2%, respectively. All mice being fed this diet were subjected to 30% calorie restriction (7 kCal/day/mouse) starting the 4th day after tumor cell injection. Calorie restriction was determined by measuring the weight of food consumed each day. The appropriate amount of the ketogenic diet was provided every day on a petri dish within the cage. Calories were increased to 7.5 kCal/day/mouse (25% restriction) at day 7 after initiation of the ketogenic diet to prevent weight loss. Calories were further increased to 8 kCal/day/mouse at day 11 after the initiation of ketogenic diet and maintained at this level until the end of the experiment. The control diet groups were fed ad libitum on standard mouse chow (Teklad Global 18% protein rodent diet) which provides calories from protein, fat and carbohydrates at approximately 24%, 18%, and 58%, respectively.
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10

BALB/c Mice Animal Care Protocol

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The Institutional Animal Care and Use Committee at Saint Louis University School of Medicine approved all experimental protocols (protocol 2081, 15th July, 2012). BALB/c mice were acquired from Charles River Laboratories, (Wilmington, MA, USA).
All experimental and animal procedures were completed at ABSL-3, where animals were housed in filter-top microisolator cages. A standard rodent diet (Teklad Global 18% Protein Rodent Diet) and water were provided ad libitum. Corn cob bedding was provided in each cage, where no more than 5 animals were housed.
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