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Digital micrograph

Manufactured by Thermo Fisher Scientific
Sourced in United States

Digital Micrograph is a comprehensive software platform for microscopy and imaging analysis. It provides a user-friendly interface for controlling various microscope systems and processing acquired images or data.

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4 protocols using digital micrograph

1

Serial Block-Face Imaging of Pancreatic Islets

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The resin-embedded, gold-coated blocks were imaged using a Gatan 3View serial block-face imaging system mounted in the specimen chamber of a Zeiss SIGMA-VP SEM. A total of five blocks (one islet in each), taken from three wild-type mice, were imaged to collect the data used in this study. The microscope was operated at high vacuum, with accelerating voltage ranging from 1.3-1.5 kV, using a 30 μm condenser aperture. Images were collected at an intermediate magnification, with a pixel size of 11.1 nm and a dwell time of 2.0 μs/pixel. The size of each image collected was 4,000 x 4,000 pixels in the x-y plane. The thickness of each slice in z-direction was 50 nm. Data sets were collected as stacks of 500 images, resulting in data volumes of 4.93 x 104 μm3. The 3D image stacks were aligned using Digital Micrograph software (Gatan Inc., USA). Visualization and analysis of the data were performed using Digital Micrograph and Amira (FEI Inc., U.S.A.), as well as the NIH ImageJ software (Schneider et al., 2012 ).
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2

Nanomaterial Characterization by High-Resolution TEM

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To prepare the specimens for HRTEM measurements, the samples were manually applied onto the lacey carbon-coated side of the 300 mesh copper grid and air-dried under ambient conditions. The particle morphology was characterized by TEM and scanning TEM (STEM). The specimens were examined under a TITAN 80-300 microscope (FEI, USA) equipped with a Schottky field emission gun, a spherical aberration corrector (Cs probe corrector), a direct detection camera (Falcon II, FEI, USA), and an EDX spectroscopy system (EDAX, USA). The TEM was operated at 300 kV in the STEM bright-field mode. The details regarding the HRTEM equipment and the experimental techniques used were described elsewhere [58 (link)–59 (link)]. Image processing was performed using the Digital Micrograph (Gatan, USA) and TIA (FEI, USA) software.
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3

TEM Imaging of ReApoBds

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Field emission TEM images of the ReApoBds were obtained using FEI-Tecnai G2 F20 X-TWIN that was operated at an acceleration voltage of 200 kV. Images were obtained using an ORIUS CCD camera through Digital Micrograph, and energy dispersive X-ray spectra (EDS) were recorded through FEI-TIA interface. For sample preparation, 10 μL of ReApoBds suspension were drop casted on glow discharged copper grids with pure carbon support film, incubated for 10–15 min, and then washed with ultrapure water. Finally, the sample grids were negatively stained with 1% uranyl acetate solution, and excess solution was wicked away with absorbent paper before imaging.
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4

Electron Microscopy of Plant Cell Walls

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Stem segments were cut from the bottom part of 8-week-old soil-grown plants with full siliques and then vacuum infiltrated in 4% (v/v) glutaraldehyde in PBS (33 mM Na 2 HPO 4 , 1.8 mM NaH 2 PO 4 , and 140 mM NaCl [pH 7.2]) before being fixed in 2% glutaraldehyde in PBS at 4 C overnight. After fixation, tissues were post-fixed in 1% (w/v) osmium tetroxide, then dehydrated through a gradient of ethanol and embedded in Spurr's resin. Sections (70-100 nm) were stained with uranyl acetate and lead citrate and visualized using an FEI Tecnai 12 transmission electron microscope. Finally, cell-wall thickness was measured from eight cells on each section with three technical repeats using FEI microscopy software DigitalMicrograph (Gatan).
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