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59 protocols using vt1000s vibratome

1

Visualizing Wound Vascular Density

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Mouse blood vessels were labeled by live perfusion with DiI (D-282, Invitrogen/Molecular Probes) solution, and the vascular density was visualized by scanning the entire wound tissue to a depth of 200 μm, using laser scanning confocal microscopy (Vibratome (VT1000S, Leica Microsystems, Buffalo Grove, IL) as described10 (link)15 (link)24 (link). Vessel density was quantified by assessing total number of Dil+ vessels normalized to the entire scanned wound area, using ImageJ software (Imaging Processing and Analysis in Java, National Institutes of Health, MD).
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2

Hippocampal Brain Slice Preparation

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One week after the surgery, sagittal hippocampal brain slices were obtained using standard brain-slicing methods. Mice were deeply anesthetized with isoflurane and decapitated. The brain was quickly removed and immersed in ice-cold preoxygenated artificial cerebrospinal fluid (aCSF) containing 124-mM NaCl, 3.75-mM KCl, 2-mM MgSO4, 2-mM CaCl2, 26.5-mM NaHCO3, 1.25-mM NaH2PO4, and 10-mM glucose, and was continuously oxygenated (pH = 7.4, 27 °C). In all, 350-µm-thick slices were prepared using a Vibratome (VT 1000S, Leica Microsystems, Bannockburn, IL), and placed in a holding chamber filled with aCSF. Slices were allowed to recover in these conditions at least 1 h before recording.
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3

Tissue Preparation for Brain Analysis

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Each animal was deeply anesthetized with isoflurane and perfused transcardially with Tyrode’s solution, followed by 250 ml of 2% glutaraldehyde and 2% paraformaldehyde [with one exception; case R79, Blocks 93,94, and 95 (Tables 1, 2) was perfused and stored with 3% glutaraldehyde and 1% paraformaldehyde] in 0.1 M phosphate buffer at a pH 7.4. The brain was removed and stored at 4°C in 2% glutaraldehyde and 2% paraformaldehyde in 0.1 M phosphate buffer. The following day the brain was prepared for processing by removing the cerebellum and cortex and blocking the remaining piece with transverse cuts posterior to the cochlear nucleus and anterior to the thalamus. The tissue was then cut into 50 μm thick transverse section with a Vibratome (VT1000S, Leica Microsystems, Buffalo Grove, IL, USA). The tissue was collected in six series. Series were processed as described below or stored in freezing buffer for future processing.
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4

Formaldehyde Fixation and Paraffin Embedding

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Biopsies were immersion-fixed in 10% formaldehyde phosphate-buffered saline solution (PBS), embedded in paraffin, and cut into 4-μm sections on a Vibratome (VT1000S, Leica Microsystems, Wetzlar, Germany).
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5

Acute Slice Electrophysiology of NAc

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Mice were decapitated following isoflurane anesthesia the day after the last extinction session. Brains were dissected and coronal slices (300 μm) containing the NAc were cut with a Vibratome (VT1000S, Leica Microsystems) in an ice-cold artificial cerebrospinal fluid solution (ACSF), in which NaCl was replaced by an equiosmolar concentration of sucrose. ACSF consisted of (in mM): 130 NaCl, 3 KCl, 1.25 NaH2PO4, 26 NaHCO3, 10 glucose, 1 MgCl2 and 2 CaCl2 (pH 7.2–7.4 when saturated with 95% O2/5% CO2). Slices were incubated in ACSF at 32–34 °C for 45 mi n and kept at 22–25 °C thereafter, until transfer t o the recording chamber. For all electrophysiology experiments, aCSF in the recording chamber was supplemented with 0.075 mM dopamine and 0.05 mM Na-metabisulfite to prevent dopamine oxidation (see Results). Slices were viewed using infrared differential interference contrast optics under an upright microscope (Eclipse FN1, Nikon Instruments Inc.) with a 40x water-immersion objective.
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6

In Vivo Mouse Vascular Labeling

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Mouse blood vessels were directly labeled in vivo in anesthetized mice by live perfusion using a specially formulated aqueous solution (7 ml/mouse) containing DiI (D-282; Invitrogen/Molecular Probes), which incorporates into EC membranes upon contact, and was administered via direct intra-cardiac injection before animal euthanasia as previously reported (Li et al, 2008 (link); Shao et al, 2011 (link)). 7 ml of fixative (4% paraformaldehyde) was injected after Dil perfusion, and the entire wound tissue was harvested. The vascular network was visualized by scanning the entire wound tissue to a thickness or depth of 200 μm, using laser scanning confocal microscopy (Vibratome [VT1000S; Leica Microsystems]). Vessel density was quantified assessing total number of red Dil-labeled vessels normalized to the entire scanned wound area, using ImageJ software.
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7

Immunostaining of Brain Slices and Cells

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Perfusion-fixed brains were washed in PBS and cut into 100 μm slices using a vibrating microtome (Vibratome VT1000S, Leica Microsystems, Wetzlar, Germany). After permeabilization (0.6% Triton X-100), slices were blocked by 1 × BMB blocking reagent/PBS (Roche, Mannheim, Germany) for 1 h at room temperature. Further processing of brain slices and immunocytochemical staining was performed as described previously32 (link). Specimens were mounted on microscopic slides using Dako Fluorescent Mounting medium (Dako GmbH, Hamburg, Germany). HeLa cells or cultured neurons were fixed with 4% of paraformaldehyde/PBS for 15 minutes and permeabilized prior to immunostaining. Confocal fluorescence images were acquired using a Zeiss LSM510 Meta confocal microscope equipped with a 63 × Plan-Apochromat oil immersion objective (NA 1.4; Carl Zeiss AG, Oberkochen, Germany). Images were analyze using IMARIS (Bitplane, Zurich, Switzerland).
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8

Acute Slice Preparation for Electrophysiology

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C57Bl/6J mice were decapitated following cervical dislocation. The brain was removed and coronal slices (250 μm) containing the nucleus accumbens, the ventral hippocampus, and the amygdala were cut with a Vibratome (VT1000S, Leica Microsystems) in an ice-cold artificial cerebrospinal fluid solution (ACSF), in which NaCl was replaced by an equiosmolar concentration of sucrose. ACSF consisted of 130 mM NaCl, 3 mM KCl, 1.25 mM NaH2PO4, 26 mM NaHCO3, 10 mM glucose, 1 mM MgCl2, and 2 mM CaCl2 (pH 7.2–7.4 when saturated with 95% O2/5% CO2). Slices were incubated in ACSF at 32–34°C for 25 min and kept at 22–25°C thereafter, until transfer to the recording chamber. The osmolarity of all solutions was 300–315 mOsm. Slices were viewed using infrared 270 differential interference contrast optics under an upright microscope (Slice Scope Pro, 271 Scientifica) with a 40 × water-immersion objective.
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9

Liver Slice Culture for Gene Expression

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Fresh human liver biopsies were used to obtain 250 μm slices using a Vibratome VT1000S (Leica Microsystems, Wetzlar, Germany). Samples were washed in PBS, soaked in 4% agarose solution (Ultrapure LMP Agarose, Invitrogen, Carlsbad, California, USA) for 20 min, and then orientated, mounted and immobilized using cyanoacrylate glue. Tissue slices were placed on organotypic tissue culture plate inserts (Millicell®-CM; Millipore). Tissues were maintained at 37 °C in a 5% CO2 humidified incubator using 1.1 mL of Williams’ Medium E supplemented with 1% inactivated fetal bovine serum, 2 mM L-Glutamine, 50 U/mL penicillin and 50 μg/mL streptomycin. Tissue slices were incubated with 50 µM liraglutide for 24 h. Sections were then transferred to a 1.5 mL tube and lysed for RNA isolation and qPCR29 (link).
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10

Prefrontal Cortex and Nucleus Accumbens Slice Preparation

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Following prefrontal injection of AAV-Cre or GFP, naïve mice were cervically dislocated and decapitated. The brain was removed and coronal slices of prefrontal cortex and nucleus accumbens were cut with a Vibratome (VT1000S, Leica Microsystems) in an ice-cold artificial cerebrospinal fluid solution (ACSF), in which NaCl was replaced by an equiosmolar concentration of sucrose. ACSF consisted of 130 mM NaCl, 3 mM KCl, 1.25 mM NaH2PO4, 26 mM NaHCO3, 10 mM glucose, 1 mM MgCl2, and 2 mM CaCl2 (pH 7.2–7.4 when saturated with 95% O2/5% CO2). Slices were incubated in ACSF at 32–34 °C for 25 min and kept at 22–25 °C thereafter, until transfer to the recording chamber. The osmolarity of all extracellular solutions was 300–315 mOsm. Slices were viewed using infrared differential interference contrast optics under an upright microscope (Slice Scope Pro, Scientifica) with a 40 × water-immersion objective.
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