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14 protocols using tecnai spirit biotwin tem

1

Preparation of Samples for Transmission Electron Microscopy

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Harvested MEFs were resuspended and fixed in 2.5% glutaraldehyde in phosphate buffer (0.1 M) (pH 7.4) and stored at 4°C. Dissected Dm larvae were fixed in 2.5% glutaraldehyde and 1% paraformaldehyde in phosphate buffer and stored at 4°C. Following the primary fixation, the samples were rinsed with phosphate buffer, followed by postfixation in 2% osmium tetroxide in phosphate buffer at 4°C for 2 hours. The samples were then subjected to stepwise ethanol dehydration followed by stepwise acetone/LX-112 infiltration and lastly embedded in LX-112. Ultrathin sections (approximately 60 to 80 nm) were prepared using an EM UC7 ultramicrotome (Leica Microsystems). The ultrathin sections were contrasted with uranyl acetate followed by Reynolds lead citrate and examined in a Tecnai Spirit BioTWIN TEM (Thermo Fisher Scientific) operated at 100 kV. Digital images were acquired using a 2kx2k Veleta CCD camera (EMSIS GmbH).
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2

Transmission Electron Microscopy of Microvesicles

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Analysis using a transmission electron microscope was performed by the Electron Miscroscopy Center at Indiana University School of Medicine (Indianapolis, IN). Briefly, 20 ug of cellular or media MVs were fixed with 10% glutaraldehyde and then 300 mesh nickel for-mvar/carbon–coated grids (Electron Microscopy Sciences, Hatfield, PA) were placed under the MV solutions and allowed to absorb, over the course of a weekend, at 4°C. The grids were then taken out of the solution and allowed to dry for approximately 1 minute; then, they were negative stained for 10 seconds, using Nanovan (Nanoprobes, Yaphank, NY). The grids were viewed on a Tecnai Spirit BioTwin TEM (Thermo Fisher Scientific, Hillsboro, OR), and images were taken with a CCD (charge-coupled device) camera (Advanced Microscopy Techniques, Woburn, MA).
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3

Electron Microscopy of Extracellular Vesicles

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Pooled SEC fractions from the first EV containing peak (F1/S1) were dialysed against 10 mM HEPES, 140 mM NaCl, pH 7.4 using Amicon®Ultra-0.5 ml centrifugal filters, 10kDa (Merck Millipore) to remove phosphate. Electron microscopy samples were prepared as previously described.[41 (link)] Samples were applied undiluted onto previously glow discharged home-made carbon coated copper grids and incubated for 10 s. Subsequently specimens were stained three times with 1% uranyl formate solution. Raw micrographs were acquired automatically at 67,000 magnification on specimen level using the Leginon system [42 (link)] operated on a Tecnai Spirit BioTWIN TEM (Thermo Fisher Scientific, Hillsboro, OR, USA) at 80kv acceleration voltage and a Tietz 416 CMOS detector (TVIPS, Martinsried, Germany).
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4

Ultrastructural Changes in N. caninum-Infected Cells

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HFF monolayers were grown in T25 culture flasks and were infected with 107 N. caninum Spain-7 (NcSp-7) tachyzoites during 3 h at 37 °C and 5% CO2. Subsequently, cultures were exposed to continuous treatment with 0.5 μM of each of DCQ, RMB054 or RMB060, and 1 µM RMB055 for 6 h, 9 h, and 48 h. Control cultures were treated with DMSO only. The specimens were fixed and processed for TEM as described earlier [14 (link),16 (link),17 (link)]. Samples were observed on a Philips CM 12 or a FEI Tecnai Spirit BioTwin TEM, both operating at 80 kV.
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5

Cellular Uptake of Au50 Nanoparticles

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CHO cells were incubated with Au50 or Au50 + TP peptide in serum-free DMEM medium at 37 °C for 2 h. Then cells were processed at the Characterization Facility of University of Minnesota and imaged by FEI Tecnai Spirit Bio-Twin TEM (FEI, Hillsboro, OR, USA) as previously described [18 (link)].
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6

Spike Protein Structural Analysis via TEM

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The spike protein samples were directly analyzed using a Tecnai Spirit Biotwin TEM (FEI). Copper grids with 300 mesh and a thin layer of continuous carbon floated on top (EM Sciences) were glow-discharged at 15 mA for 60 s. The spike protein samples were diluted to 80 nM and applied 3 µL to the grids for 30 s. Uranyl formate (80 µL 1%, wt/vol) was then used to stain the sample on the grid for 1 min. The specimen was finally gently blotted from the side with filter paper and air-dried before imaging. Images were recorded on a Gatan 4 K × 4 K CCD camera with a defocus of −2 μm at a nominal magnification of 68,000× or 98,000×.
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7

Cryo-TEM Imaging of Transcriptionally-Active DLPs

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Frozen-hydrated specimens were transferred to a Gatan 626 cryo holder (Gatan, Inc.) and maintained under liquid nitrogen until transferred into the TEM. Specimens were imaged using a FEI Tecnai Spirit BioTwin TEM (FEI, Co, Hillsboro, OR) equipped with a LaB6 filament and operated at an acceleration voltage of 120 kV under low-dose conditions (∼5 electrons/ Å2). Images of transcriptionally-active DLPs were recorded on a FEI Eagle 2k HS CCD camera with a pixel size of 30 μm using a defocus range from -1.0 μm to -3.0 μm at a nominal magnification of 60,000× for a final sampling of 5 Å/pixel at the specimen level.
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8

EGCG, Proanthocyanidins, and Casanthranol Modulate Seeded Aggregation

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Seeded aggregation reactions with 15 μM monomer and 0.75 μM PFF were supplemented with DMSO control or 50 μM EGCG, 50 μM proanthocyanidins or 50 μM casanthranol. 3 μl sample was deposited onto a glow discharged EM grid and followed by negative staining with 2% uranyl acetate. The images were acquired with a FEI Tecnai Spirit BioTWIN TEM operated at 120 kV.
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9

Cryo-TEM Imaging of Transcriptionally-Active DLPs

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Frozen-hydrated specimens were transferred to a Gatan 626 cryo holder (Gatan, Inc.) and maintained under liquid nitrogen until transferred into the TEM. Specimens were imaged using a FEI Tecnai Spirit BioTwin TEM (FEI, Co, Hillsboro, OR) equipped with a LaB6 filament and operated at an acceleration voltage of 120 kV under low-dose conditions (∼5 electrons/ Å2). Images of transcriptionally-active DLPs were recorded on a FEI Eagle 2k HS CCD camera with a pixel size of 30 μm using a defocus range from -1.0 μm to -3.0 μm at a nominal magnification of 60,000× for a final sampling of 5 Å/pixel at the specimen level.
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10

High-Resolution Fly Brain Imaging System

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Two types of acquisition systems were used to image the whole fly brain series, both of which used FEI Tecnai Spirit BioTWIN TEMs. The first, the TEMCA2 system (Figure S2A), was equipped with a custom single-axis Fast Stage (Figure S2B; patent pending) (Price and Bock, 2016a , Price and Bock, 2016b ), vacuum extension, scintillator (5 μm Mylar on a support ring 9 5/8 inches in diameter, coated with 10 mg fine-grained P43/cm2; Grant Scientific), and four Fairchild SciMOS 2051 Model F2 5.5 megapixel cameras (2560 × 2160 pixel sensor size) configured in a 2 × 2 array (Figure S3E). The second type of system was an Automated Transport and Positioning System (ATPS) (Figures S2E, S2F, and S3I; Videos S2 and S3) (Price and Bock, 2016a , Price and Bock, 2016b ), which was equipped with a custom scintillator (6 mg fine-grain P43/cm2; Grant Scientific), and a single Fairchild SciMOS camera. In both systems, 4:1 minifying C-lenses (AMT Imaging) were mounted on the SciMOS cameras. These systems were previously described in abstract form (Robinson et al., 2016 ). Schematics and model files for the Fast Stage and ATPS are available to non-profit research organizations upon request.
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