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45 protocols using reichert ultracut e

1

Transmission Electron Microscopy Specimen Preparation

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Samples were fixed in 2% glutaraldehyde in 0.1 M sodium cacodylate buffer, pH 7.2 (EMS, Hatfield, PA, United States), for at least 1–2 h at room temperature with agitation. Samples were rinsed [3×; 10 min, room temperature (RT)] in 0.1 M sodium cacodylate buffer, pH 7.2, and immersed in 1% osmium tetroxide with 1.6% potassium ferricyanide in 0.1 M sodium cacodylate buffer for 2 h. Samples were rinsed (3×; 10 min, RT) in buffer and then briefly in distilled water (1×; 1 min, RT). Samples were then subjected to an ascending acetone gradient (10 min; 35%, 50%, 70%, 80%, and 90%) followed by pure acetone (2×; 10 min, RT). Samples were progressively infiltrated with Epon resin (EMS, Hatfield, PA, United States), while rocking, and then polymerized at 60°C for 24–48 h in silicon molds. Thick sections (200 nm) were cut using a Reichert Ultracut E (Leica, Wetzlar, Germany), collected on glass slides, stained with toluidine blue, and used for general orientation. Thin sections (70 nm) were collected onto formvar-coated 50-mesh copper grids or slot grids. The grids were post-stained with 2% uranyl acetate followed by Reynold’s lead citrate, for 5 min each. The sections were imaged using a Tecnai 12 120-kV TEM (FEI, Hillsboro, OR, United States) and data were recorded using an UltraScan 1000 with Digital Micrograph 3 software (Gatan Inc., Pleasanton, CA, United States).
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2

Electron Microscopy Sample Preparation

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Cells were pelleted by centrifugation for 5 min, at 3000 g and 4 °C. After washing with Sorensen’s phosphate buffer (0.1 M, pH 7.4), the pellets were re-suspended with a solution of 4% [v/v] paraformaldehyde and 1.5% [v/v] glutaraldehyde in Sorensen’s phosphate buffer. After fixation for 45 min at room temperature, samples were washed four times with Sorensen’s phosphate buffer at 4 °C and embedded in low-melting-point agarose (1.5–2%). The agarose pellet was solidified at 4 °C and cut into small cubes of about 1 mm edge length. Samples were post-fixed with 1% osmium tetroxide in Sorensen’s phosphate buffer in the dark for 1 h at room temperature. Samples were dehydrated with graded ethanol and propylene oxide and embedded in EMBed-812 resin. Ultrathin sections were cut with an ultramicrotome (Reichert Ultracut E, Leica, Rueil-Malmaison, France) and transferred to copper/palladium grids. The grids were contrasted with uranyl acetate and lead citrate and observed on a Hitachi H7500 TEM (Hitachi Scientific Instruments Co., Tokyo, Japan) operating at 80 kV and equipped with an AMT camera driven by AMT software (AMT, Danvers, USA).
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3

Zebrafish Larval Ultrastructural Analysis

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Zebrafish larvae were fixed in 4% paraformaldehyde, 2.5% glutaraldehyde, 0.02% picric acid, 0.1 M Na cacodylate buffer, washed and fixed in 1% osmium tetroxide in 0.1 M Na cacodylate buffer. They were subsequently treated with 0.5% tannic acid followed by 1% sodium sulfate. The pellets were treated with propylene oxide and embedded in Epon/Araldite. Thin sections (70 nm) of the pelleted samples were cut on a Reichert Ultracut E (Leica, Deerfield, IL) using a diamond knife (Diatome, Electron Microscopy Sciences, Hatfield, PA), mounted on parlodion-coated copper slot grids and stained in uranyl acetate and lead citrate. Sections were examined on a Philips CM100 transmission electron microscope (FEI, Hillsbrough, OR). Images were documented and measurements were taken using a Megaview III CCD camera (Olympus Soft Imaging Solutions, Lakewood CO). Transverse sections were obtained through the trunk muscle region, the yolk and the eye region.
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4

Immunogold Labeling for Electron Microscopy

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Immunohistochemical reactions for electron microscopy were carried out using the pre-embedding immunogold method described previously (Lujan et al., 1996 (link)). Briefly, free-floating sections were incubated in 10% (v/v) NGS diluted in TBS. Sections were then incubated in anti-D1R antibodies [3–5 μg/mL diluted in TBS containing 1% (v/v) NGS], followed by incubation in goat anti-guinea pig IgG coupled to 1.4 nm gold (Nanoprobes Inc., Stony Brook, NY, USA), respectively. Sections were postfixed in 1% (v/v) glutaraldehyde and washed in double-distilled water, followed by silver enhancement of the gold particles with an HQ Silver kit (Nanoprobes Inc.). Sections were then treated with osmium tetraoxide (1% in 0.1 m phosphate buffer), block-stained with uranyl acetate, dehydrated in graded series of ethanol and flat-embedded on glass slides in Durcupan (Fluka) resin. Regions of interest were cut at 70–90 nm on an ultramicrotome (Reichert Ultracut E, Leica, Austria) and collected on single slot pioloform-coated copper grids. Staining was performed on drops of 1% aqueous uranyl acetate followed by Reynolds’s lead citrate. Ultrastructural analyses were performed in a Jeol-1010 electron microscope.
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5

Retinal Thickness Measurement Protocol

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The detailed procedure has been published before20 (link),21 (link),25 (link). Briefly, after mice were perfused with ice cold 4% PFA in PBS, both eyes of each animal were enucleated and fixed in 1% PFA and 1.25% glutaraldehyde fixative prepared in 0.1 mM sodium cacodylate buffer with 5 mM calcium chloride and 5% sucrose for 24 h at room temperature. Globes were then dehydrated through a graded series of alcohols, infiltrated in propylene oxide, and embedded in epoxy. Sections 0.7micron in thickness were taken using an ultramicrotome (Reichert Ultracut E; Leica, Deerfield, Illinois) and stained with 0.5% toluidine blue. Slides were photographed by a light microscope (Eclipse E1000; Nikon, Tokyo, Japan). 20× images were used to measure the thickness of the inner and outer retina at the same distance from the optic nerve head. The mean of the inner or outer retinal thickness in the injured retina was compared to that in the contralateral control retina to yield a percentage of inner or outer retinal thickness value. The investigators who measured the thickness of inner or outer retina were masked to the treatment of the samples.
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6

Immunohistochemical Analysis of Noise-Induced Neuroinflammation

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After intracardial perfusion with 0.9% saline wash followed by a fixative solution of 4% paraformaldehyde and 0.5% glutaraldehyde (0.1 M PB, pH 7.3), unexposed (n = 3) and noise-exposed (n = 9) brains were removed, and cut at 70 μm on a vibratome. After several rinses in PBS-Tx (0.2%), transverse sections were processed for Iba1 or GFAP immunohistochemistry as previously described with the exception that no detergent was used in any step after the initial permeabilization. Peroxidase activity was visualized with a nickel-intensified DAB reaction in buffer solution to produce a black reaction product. CN sections were postfixed with osmium tetraoxide (1% in 0.1 M PB) for 1 h, block-stained with 1% uranyl acetate for 30 min, dehydrated in graded series of ethanol and embedded in Durcupan (Fluka) resin (Fuentes-Santamaría et al., 2014 (link)). Ultrathin sections (~75 nm) in the silver-gold range were cut on an ultramicrotome (Reichert Ultracut E, Leica, Austria), collected on 200-mesh copper grids and examined with a Jeol-1010 electron microscope.
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7

Immunogold Localization of G-Protein α Subunits

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Free-floating sections were first incubated in 10% NGS diluted in TBS, then incubated in anti-Gαo antibodies (1–2 μg/ml diluted in TBS containing 1% NGS) at 4°C overnight, followed by incubation in goat anti-rabbit IgG coupled to 1.4 nm gold (Nanoprobes Inc., Stony Brook, NY, United States), for 2 h at room temperature. Next, sections were postfixed in 1% glutaraldehyde and washed in double distilled water, followed by silver enhancement of the gold particles with a HQ Silver kit (Nanoprobes Inc.). Sections were then treated with osmium tetroxide (1% in 0.1 M PB), block-stained with uranyl acetate, dehydrated in graded series of ethanol and flat-embedded on glass slides in Durcupan (Fluka) resin. Regions of interest were cut at 70–90 nm on an ultramicrotome (Reichert Ultracut E, Leica, Vienna, Austria) and collected on single slot copper grids. Staining was performed on drops of 1% aqueous uranyl acetate followed by Reynolds’s lead citrate.
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8

Immunogold Labeling for Electron Microscopy

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Immunohistochemical reactions for electron microscopy were carried out using the pre-embedding immunogold method described previously (Luján et al., 1996 (link)). Briefly, free-floating sections were incubated in 10% (v/v) NGS diluted in TBS. Sections were then incubated in anti-Cav3.1 or anti-Cav3.2 antibodies [3–5 μg/mL diluted in TBS containing 1% (v/v) NGS], followed by incubation in goat anti-guinea pig IgG or anti-mouse IgG coupled to 1.4 nm gold (Nanoprobes Inc., Stony Brook, NY, USA), respectively. Sections were postfixed in 1% (v/v) glutaraldehyde and washed in double-distilled water, followed by silver enhancement of the gold particles with an HQ Silver kit (Nanoprobes Inc., Stony Brook, NY, USA). Sections were then treated with osmium tetraoxide (1% in 0.1 M PB), block-stained with uranyl acetate, dehydrated in graded series of ethanol and flat-embedded on glass slides in Durcupan (Fluka) resin. Regions of interest were cut at 70–90 nm on an ultramicrotome (Reichert Ultracut E, Leica, Austria) and collected on the single slot pioloform-coated copper grids. Staining was performed on drops of 1% aqueous uranyl acetate followed by Reynolds’s lead citrate. Ultrastructural analyses were performed in a Jeol-1010 electron microscope.
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9

Photoreceptor Quantification in Retina

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All animals in the study were killed at the end of the follow-up (P180) for histologic analysis. Before enucleation, the superior edge of the eye was marked with one stitch under deep anesthesia. Both eyes of each animal were enucleated and fixed in 1% paraformaldehyde and 1.25% glutaraldehyde fixative prepared with 5 mM calcium chloride and 5% sucrose for 24 hours at room temperature. After removal of the cornea and lens, the posterior eye cup was dehydrated through a graded series of alcohols, infiltrated in propylene oxide, and embedded in epoxy. Sections 0.5 μm in thickness were taken using an ultramicrotome (Reichert Ultracut E; Leica, Deerfield, IL) and stained with 0.5% toluidine blue. Serial sections of the slides were photographed by a light microscope (Eclipse E1000; Nikon, Tokyo, Japan). Two images (20×) taken at a similar area from each sample, in the superior and inferior retina of each eye, were used to count photoreceptor nuclei in 100-μm length of the retina.
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10

Ultrastructural Analysis of Rat Cochlea

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The treated rats were fixed using a 2.5% glutaraldehyde (Huamei Biotech Co., Ltd.) solution. The rats were sacrificed by decapitation, and the cochlea was removed from the head and immersed in the same fixative at 4°C overnight. The specimens were then rinsed with 0.1 M PBS and immersed in a 10% EDTA (Sigma-Aldrich) solution for 7 days for decalcification. Subsequently, the cochlea was placed in a 1% osmic acid solution (Abcam) for 2 h at 4°C. The entire cochlea was removed from the bony shell, embedded and cut into ultrathin transverse sections (70–100 nm) using an ultramicrotome (Reichert UltracutE, Leica, USA). Counterstaining was then performed using uranyl acetate (Huamei Biotech Co., Ltd.) for 50 min and lead citrate (Huamei Biotech Co., Ltd.) for 10 min. Finally, the specimens were observed using a TEM (JEM-1230; Olympus Corporation).
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