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11 protocols using 0.1 m sodium cacodylate

1

EV Immobilization and SEM Imaging

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A drop of 0.01 % (w/v) of poly-L-lysine (Thermo Fisher Scientific, Waltham, MA) was spread over the surface of a coverslip and incubated for 30 min. The functionalized coverslip was subsequently washed with deionized water and air-dried. The EVs collected from the suspended EVμBRs were purified via TFF43 (link) and were electrostatically immobilized onto the surface for 30 min. The EVs were fixed in 2 % (v/v) glutaraldehyde (Sigma-Aldrich, St. Louis, MO) and 0.1 M sodium cacodylate (Electron Microscopy Sciences, Hatfield, PA) for 3 h. The EVs were then incubated in 1 % (w/v) osmium tetroxide (Electron Microscopy Sciences, Hatfield, PA) and 0.1 M sodium cacodylate for 2 h. The sample was dehydrated by incubating the immobilized EVs in varying concentrations of ethanol, including 50 % (v/v), 70 % (v/v), 85 % (v/v), 95 % (v/v), and 100 % (v/v) for 30 min each with intermediate washes of 0.1 M sodium cacodylate. The sample was critical-point dried with a CO2 critical point dryer (Tousimis, Rockville, MD). The fixed and dehydrated samples were coated with a 2-nm gold coating using a sputtering machine (Leica EM ACE 600, Buffalo Grove, IL) and were subsequently imaged by SEM (Apreo ii, FEI, Thermo Fisher Scientific, Waltham, MA).
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2

Transmission Electron Microscopy of TiO2 Nanoparticles in A549 Cells

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A549 cells were incubated with TiO2 NPs (800 μg mL−1, 37 °C for 1 h or 24 h and 4 °C for 10 min). Cells were processed and imaged by the Electron Microscopy Laboratory, Department of Pathology, Duke University. Thin cell sections for analysis were obtained from A549 cells fixed with 3% glutaraldehyde (#16220, Electron Microscopy Sciences, Hatfield, PA) in 0.1 M sodium cacodylate (#12300, Electron Microscopy Sciences). Samples were washed three times with 0.1 M cacodylic acid buffer and post-stained with 1% osmium tetroxide (#19190, Electron Microscopy Sciences, Hatfield, PA) in cacodylic buffer for 1 h. Cells were embedded in 1% agarose (#V2111, Promega Corporation, Madison, WI). The agarose containing the cell sample was pre-stained with 1% uranyl acetate (#22400, Electron Microscopy Sciences, Hatfield, PA) overnight at 4 °C. The samples were dehydrated using acetone. Infiltration was done using the Epon embedding kit (#14120, Electron Microscopy Sciences, Hatfield, PA). Samples were sectioned (60–70 nm) using an ultramicrotome (Ultracut E, Reichert/Leica, Wetzlar, Germany). The sections were stained with 2% uranyl acetate in 50% ethanol for 30 min and SATO's lead stain for 1 min. Samples were then imaged on a TEM (80 kV, C12, Philips, Andover, MA). 12–18 images were collected at each time point: representative images are shown.
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3

TEM Fixation and Imaging of Arteries

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Arteries used for TEM were fixed in 2.5% glutaraldehyde and 0.1 M sodium cacodylate (both from Electron Microscopy Sciences) at 4°C overnight. They were sent to Washington University’s Center for Cellular Imaging for processing and thin sectioning following standard protocols. Images were taken using a JEOL JEM-1400Plus transmission electron microscope with an Advanced Microscopy Techniques XR111 high-speed, 4000 × 2000–pixel, phosphor-scintillated, 12-bit charge-coupled device (CCD) camera.
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4

Bacteria Visualization on FcMBL Beads

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For visualization of live and fragmented bacteria on FcMBL beads, bacteria were captured with 128 nm FcMBL beads (Ademtech, France), spun down onto 13=-mm coverslips and fixed with 2.5% glutaraldehyde in 0.1 M sodium cacodylate buffer (Electron Microscopy Sciences, USA) for 1 hour. Cover slips were incubated in 1% osmium tetroxide in 0.1 M sodium cacodylate (Electron Microscopy Sciences, USA) for 1 hour. Ascending grades of ethanol dehydrated the sample before being chemically dried with hexamethydisilazane (Electron Microscopy Sciences, USA). Samples were then placed in a desiccator overnight. Dried samples were mounted on aluminum stubs, sputter-coated with a thin layer of gold particles, and imaged using a Zeiss Supra55VP microscope.
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5

Ultrastructural Analysis of Mouse Lymph Nodes

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TEM was conducted in the electron microscopy core imaging facility at the University of Maryland. Mouse LNs were fixed in 2% paraformaldehyde/1.5% glutaraldehyde/0.1 M sodium cacodylate (Electron Microscopy Sciences [EMS]) at 4°C for 16 hours, then in 1% osmium tetroxide/1.5% potassium ferricyanide at 4°C for 1 hour, followed by incubation in 1% tannic acid at room temperature for 45 minutes. Samples were dehydrated in increasing concentrations of ethanol solutions and then embedded in EMBed-812 (EMS, catalog 14900). Ultrathin resin sections (70 nm) were collected on formvar-coated slot grids after cutting on an ultramicrotome (UC7, Leica) using a DiATOME 45° diamond knife. Images were obtained using an FEI Tecnai T12 transmission electron microscope.
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6

Electron Microscopy Sample Preparation

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Cells were differentiated on plastic coverslips (Thermo Fisher Scientific) or in the microfluidic organ-on-a-chip device by following protocols described above. Cells were fixed with 2.5% glutaraldehyde in 0.1 M sodium cacodylate buffer (Electron Microscopy Sciences) for 1 h followed by 1% osmium tetroxide in 0.1 M sodium cacodylate (Electron Microscopy Sciences) for 1 h and then dehydrated in ascending grades (30%, 50%, 70%, 80%, 90%, 95% and 100%) of ethanol. Samples were then chemically dried with hexamethydisilazane (Electron Microscopy Sciences) in a desiccator for overnight. Before imaging, samples were mounted and sputter-coated with a thin layer of gold (for coverslip samples) or 5 nm layer of platinum-palladium (for microfluidic devices) and imaged using a Zeiss Supra55VP field emission microscope with a secondary detector.
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7

Electron Microscopy Sample Preparation

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Cells were differentiated on plastic coverslips (Thermo Fisher Scientific) or in the microfluidic organ-on-a-chip device by following protocols described above. Cells were fixed with 2.5% glutaraldehyde in 0.1 M sodium cacodylate buffer (Electron Microscopy Sciences) for 1 h followed by 1% osmium tetroxide in 0.1 M sodium cacodylate (Electron Microscopy Sciences) for 1 h and then dehydrated in ascending grades (30%, 50%, 70%, 80%, 90%, 95% and 100%) of ethanol. Samples were then chemically dried with hexamethydisilazane (Electron Microscopy Sciences) in a desiccator for overnight. Before imaging, samples were mounted and sputter-coated with a thin layer of gold (for coverslip samples) or 5 nm layer of platinum-palladium (for microfluidic devices) and imaged using a Zeiss Supra55VP field emission microscope with a secondary detector.
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8

Scanning Electron Microscopy of Thrombosis

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The PDMS to PDMS bonded devices were peeled off manually after thrombus formation. The post-stenosed region of the device was cut in an ∼1 × 1 cm size and fixed with 2.5 % glutaraldehyde in 0.1 M sodium cacodylate buffer (Electron Microscopy Sciences, Hatfield PA) for 1 h, 1 % osmium tetroxide in 0.1 M sodium cacodylate (Electron Microscopy Sciences, Hatfield PA) for 1 h, dehydrated in ascending grades of ethanol, and chemically dried with hexamethydisilazane (Electron Microscopy Sciences, Hatfield PA). Samples were sputter coated with 5 nm gold and imaged on a Zeiss Supra55VP microscope.
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9

Transmission Electron Microscopy of MDA-231 Cells

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Labeled MDA-231 cells on ACLAR discs (Ted Pella) coated with 0.1 % poly-l-lysine were fixed for 1 h with 2 % glutaraldehyde in 0.1 M sodium cacodylate (Electron Microscopy Sciences). Sample processing, embedding, and sectioning onto transmission electron microscopy (TEM) grids was carried out by the UC Berkeley's Electron Microscope Lab. All images were acquired using an FEI Tecnai 12 (FEI, Hillsboro, OR) microscope.
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10

Electron Microscopy of TiO2 NP Uptake

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A549 cells were incubated with TiO2 NPs (800 μg/mL, 37°C for 1 hr or 24 hrs and 4°C for 10 min). Cells were processed and imaged by the Electron Microscopy Laboratory, Department of Pathology, Duke University. Thin cell sections for analysis were obtained from A549 cells fixed with 3% glutaraldehyde (#16220, Electron Microscopy Sciences, Hatfield, PA) in 0.1 M sodium cacodylate (#12300, Electron Microscopy Sciences). Samples were washed three times with 0.1 M cacodylic acid buffer and post-stained with 1% osmium tetroxide (#19190, Electron Microscopy Sciences, Hatfield, PA) in cacodylic buffer for 1 h. Cells were embedded in 1% agarose (#V2111, Promega Corporation, Madison, WI). The agarose containing the cell sample was pre-stained with 1% uranyl acetate (#22400, Electron Microscopy Sciences, Hatfield, PA) overnight at 4°C. The samples were dehydrated using acetone. Infiltration was done using the Epon embedding kit (#14120, Electron Microscopy Sciences, Hatfield, PA). Samples were sectioned (60-70 nm) using an ultramicrotome (Ultracut E, Reichert/Leica, Wetzlar, Germany). The sections were stained with 2% uranyl acetate in 50% ethanol for 30 min and SATO’s lead stain for 1 min. Samples were then imaged on a TEM (80 kV, C12, Philips, Andover, MA). 12-18 images were collected at each time point: Representative images are shown.
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