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46 protocols using em 14830ruby2

1

Ultrastructural Analysis of Murine Reproductive Organs

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TEM analysis was conducted as previously described [12 (link)]. Briefly, murine testes and epididymides were removed and fixed with 2% paraformaldehyde (PFA) and 2% glutaraldehyde (GA). The samples were then postfixed with 2% osmium tetroxide (OsO4) and embedded in resin (Quetol-812; Nisshin EM Co., Tokyo, Japan). The polymerized resins were divided into ultrathin sections and stained with 2% uranyl acetate and lead stain solution (Sigma-Aldrich Co., Tokyo, Japan). The sections were observed using a transmission electron microscope (JEM-1400Plus; JEOL Ltd., Tokyo, Japan). Images were taken with a CCD camera (EM-14830RUBY2; JEOL Ltd., Tokyo, Japan).
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2

Transmission Electron Microscopy of Extracellular Vesicles

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To observe the EVs with an electron microscope, the obtained EV extract was adsorbed to carbon-coated copper grids (400 mesh), and stained with 2% phosphotungstic acid solution (pH 7.0) for 30 s. Next, we used a transmission electron microscope (JET-1400Plus, JEOL, Ltd., Tokyo, Japan) under an accelerating voltage of 100 kV. Digital images (3296 × 2472 pixels) were captured with a CCD camera (EM-14830RUBY2, JEOL, Ltd., Tokyo, Japan).
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3

Transmission Electron Microscopy of Exosomes

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Exosomes obtained by ultracentrifugation were submitted for transmission electron microscopy to Tokai Electron Microscopy, Inc. Samples were absorbed to carbon-coated copper grids (400 mesh) and were stained with 2% phosphotungstic acid solution (pH 7.0) for 15 sec. The grids were observed by a transmission electron microscope (JEM-1400plus; JEOL Ltd) at an acceleration voltage of 80 kV. Digital images were taken with a CCD camera (EM-14830RUBY2; JEOL Ltd).
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4

Fixation and Embedding Protocol for TEM

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MDA‐MB‐231‐luc‐D3H2LN cells were cultured at 35°C, 37°C, or 39°C for 1 day and fixed with 2% paraformaldehyde and 2% glutaraldehyde (GA) in 0.1 M phosphate buffer (pH 7.4) at room temperature (RT). The samples were incubated at 4°C for 30 min, and fixed with 2% GA in 0.1 M phosphate buffer at 4°C overnight. They were washed three times with 0.1 M phosphate buffer and post‐fixed with 2% osmium tetroxide in 0.1 M phosphate buffer at 4°C for 1 h. The samples were dehydrated in graded ethanol solutions (50%, 70%, 90%, and 100%) as follows: 50% and 70% for 5 min each at 4°C, 90% for 5 min at RT, and three changes of 100% for 5 min each at RT. The samples were embedded in Quetol‐812 (Nisshin EM, Tokyo, Japan) and polymerized at 60°C for 48 h. The polymerized resins were sectioned at 70 nm using an ultramicrotome (Ultracut‐UCT; Leica, Wetzlar, Germany). The sections were mounted on copper grids, stained with 2% uranyl acetate at RT for 15 min, washed with distilled water, and stained with Lead stain solution (Sigma‐Aldrich, St. Louis, MO, USA) at RT for 3 min. The grids were observed using transmission electron microscopy (JEM‐1400Plus; JEOL) at an acceleration voltage of 100 kV. Digital images were acquired with a CCD camera (EM‐14830RUBY2; JEOL).
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5

Immunogold Labeling of Nsp1 Protein

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Electron microscopy was performed by Tokai-EMA based on rapid freezing and freeze-fixation methods. Cells were sandwiched with copper disks and quickly frozen in liquid propane at −175°C. The frozen samples were substituted with 1% tannic acid in ethanol and 2% distilled water at −80°C for 48 h and then and kept at −20°C for 4 h and at 4°C for 1 h. These samples were dehydrated in anhydrous ethanol for 30 min three times and infiltrated with a 50:50 mixture of ethanol and LR white resin (London Resin) at 4°C for 1 h. After infiltration, the samples were washed with LR white three times by incubation at 4°C for 30 min for each wash process and transferred to fresh LR white, followed by polymerization at 50°C overnight. The polymerized resins were ultrathin sectioned, and the sections were placed on nickel grids and immunostained with anti-Nsp1 antibodies and secondary antibodies conjugated to 10-nm gold particles as reported previously (Shima et al., 2019 (link)). Electron microscopy was performed using a transmission electron microscope (JEM-1400Plus; JEOL), and digital images (3,296 × 2,472 pixels) were obtained using a charge-coupled device camera (EM-14830RUBY2; JEOL).
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6

Immunolocalization of PEP51 in Ciona Ovaries

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Ciona ovaries were fixed in 4% paraformaldehyde (PFA) and 0.1% glutaraldehyde (GA) (Distilled EM grade, Electron Microscopy Sciences, Hatfield, PA, USA) in 0.1M phosphate buffer (PB) pH 7.4 at 4 °C for 1h. After washing, the samples were dehydrated and infiltrated with a 50:50 mixture of ethanol and resin, transferred to a fresh 100% resin (LR white, London Resin, Berkshire, UK), and polymerized by an ultraviolet polymerizer. Ultra-thin sections of the polymerized resins were mounted on nickel grids and incubated with anti-PEP51 antibody, followed by 15nm gold particle-labelled secondary antibody. The grids were placed in 2% GA in 0.1 M PB and dried, then stained with 2% uranyl acetate for 15 min and a Lead stain solution (Sigma-Aldrich, Tokyo, Japan). The samples were observed under a transmission electron microscope (JEM-1400Plus, JEOL, Tokyo, Japan) at 100 kV. Digital images were obtained with a CCD camera (EM-14830RUBY2, JEOL). Immunoelectron microscopy was carried out by Tokai Electron Microscopy, Inc. (Nagoya, Japan).
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7

AuNP Uptake Modulation by AG1478

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To determine whether binding AuNPs to AG1478 affected AuNP uptake, lysosomal uptake of AuNP was measured by TEM. HSC-3 cells were cultured with 60 nm AuNPs (50 nM), both alone and as a mixture of 60 nm AuNP (50 nM) and AG1478 (0.5 μM). The samples were fixed with 2% paraformaldehyde and 2% glutaral aldehyde (GA) in 0.1 M phosphate buffer (PB) pH 7.4 at incubation temperature and put into a refrigerator for 30 min to lower the temperature to 4°C. Thereafter, they were fixed with 2% GA in 0.1 M PB at 4°C overnight. After fixation, the samples were washed three times with 0.1 M PB for 30 min each and postfixed with 2% osmium tetroxide (OsO4) in 0.1 M PB at 4°C for 1 h. The samples were dehydrated in an alcohol gradient, then transferred to a resin (Quetol-812; Nisshin EM Co., Tokyo, Japan), and polymerized at 60°C for 48 h. The polymerized resins were sectioned at 80 nm with a diamond knife, using an ultramicrotome (Ultracut UCT; Leica, Vienna, Austria), mounted on copper grids, stained with 2% uranyl acetate for 15 min, washed with distilled water, and secondary stained with lead stain solution (Sigma-Aldrich Co., Tokyo, Japan) for 3 min. The grids were visualized by a TEM (JEM-1400Plus; JEOL Ltd., Tokyo, Japan) at an acceleration voltage of 100 kV. Digital images (3296 × 2472 pixels) were taken with a CCD camera (EM-14830RUBY2; JEOL Ltd.).
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8

Transmission Electron Microscopy of Spheroid Cells

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Spheroid cells transfected with negative or CLDN2 siRNA were fixed with 2% paraformaldehyde and 2% glutaraldehyde in 0.1 M phosphate buffer (PB) at 4 °C overnight. The preparation and electron microscopic analysis of samples were performed by Tokai Electron Microscopy (Nagoya, Japan). The fixed samples were postfixed with 2% osmium tetroxide in 0.1 M PB at 4 °C for 2 h, followed by dehydration, infiltration, and polymerization. Then, the polymerized resins were ultra-thin sectioned at 70 nm with a diamond knife using an ultramicrotome (Ultracut UCT, Leica, Vienna, Austria) and the sections were mounted on copper grids. They were stained with 2% uranyl acetate at room temperature for 15 min and then washed with distilled water followed by being secondary-stained with Lead stain solution (Sigma-Aldrich) at room temperature for 3 min. The grids were observed by a transmission electron microscope (JEM-1400Plus, JEOL, Tokyo, Japan) at an acceleration voltage of 100 kV. Digital images were taken with a CCD camera (EM-14830RUBY2, JEOL).
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9

Transmission Electron Microscopy of EVs

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For TEM, the EV-containing samples were absorbed into carbon-coated copper grids and stained with a 2% phosphotungstic acid solution (pH 7.0) for 10 s. The grids were observed by TEM (JEM-1400 Plus; JEO L Ltd., Tokyo, Japan) at an acceleration voltage of 100 kV. Digital images (3296 × 2472 pixels) were obtained using a CCD camera (EM-14830RUBY2; JEOL Ltd., Tokyo, Japan).
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10

SARS-CoV-2 Morphology Analysis by TEM

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Morphological observation of SARS-CoV-2 by transmission electron microscope (TEM) was performed by Tokai Electron Microscopy, Aichi, Japan. Samples were fixed in an equivalent volume of 4% glutaraldehyde (pH 7.4) and negative staining was performed as follows: samples were absorbed onto formvar film-coated copper grids and stained for 1 min with 2% phospho-tungstic acid solution (pH 7.0). The grids were observed by a TEM (JEM-1400Plus; JEOL, Tokyo, Japan) at an acceleration voltage of 100 kV. Digital images (3296 × 2472 pixels) of particles with a diameter of 60 to 80 nm were taken by a CCD camera (EM-14830RUBY2; JEOL). More than 50 particles per sample per experiment were observed.
To assess distortion of each particle, the command ‘solidity’ in ImageJ software was used (ImageJ User Guide n.d ). Solidity, also known as convexity, is calculated as the area of a particle divided by its convex hull area, and indicates less concavity. It can therefore differentiate cells with protrusions or an irregular shape from those that are generally round. Particle solidity was calculated automatically by the software and presented as a percentage of solidity.
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