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78 protocols using libra 120 plus

1

Transmission Electron Microscopy of Xerogels

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Transmission electron
microscopy of dried gels (xerogels) was conducted with a LIBRA 120
PLUS (Carl Zeiss). Hydrogels were vortexed and diluted twice with
water. A drop of the fiber suspension obtained was placed on a 300-mesh
copper grid and stained with uranyl acetate negative stain. The sample
was dried at room temperature for 1h.
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2

Characterization of Xerogels and Hydrogels

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Dried gels (xerogels) were studied using
a LIBRA 120 PLUS Carl Zeiss.
Hydrogels were vortexed and diluted twice with water. A drop of the
fiber suspension obtained was placed on a 300-mesh copper grid and
stained with a uranyl acetate negative stain. The sample was dried
at room temperature for 1 h.
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3

Ultrastructural Analysis of Nodule Samples

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Small fragments of nodules were fixed in 4% (v/v) glutaraldehyde prepared in 0.1 M cacodylate buffer, pH 7.2 for 1 h at 4°C. Samples were washed in 0.1 M cacodylate buffer, pH 7.2 for 12 h and post-fixed in 1% OsO4 for 1 h at 4°C. Then, samples were dehydrated in ethanol at progressively higher concentrations and embedded in Epon (epoxy embedding medium). Toluidine blue-stained semi-thin sections (0.5 μm thick) used as controls were viewed in a Leitz (Aristoplan) light microscope.
Thin sections (60-80 nm thick) were cut on a Reichert-Jung Ultracut E ultramicrotome, stained with uranyl acetate and lead citrate, and examined in a Libra 120 Plus transmission electron microscope (TEM) from Carl Zeiss (Germany) at an accelerating voltage of 80 kV.
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4

Ultrastructural Characterization of Hippocampal Neurons

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For the ultrastructural characterization, hippocampal neurons were treated as previously described.56 (link) Briefly, neurons were fixed with an aldehydic solution (1.5% glutaraldehyde in 0.1 M Cacodylate buffer - pH 7.4), washed, and post-fixed with reduced osmium tetroxide solution (1% K3Fe(CN)6 + 1% OsO4 in 0.1 M Cacodylate buffer). After rinses, neurons were stained with our homemade staining solution (X solution diluted 1:10 (v/v) in 20% ethanol/water,109 (link) then dehydrated, with an increasing series of ethanol concentrations. Samples were then embedded in epoxy resin (Epoxy embedding medium kit, Merck KGaA, Darmstadt, Germany) which was then baked for 48 h at 60°C. After the coverslips have been removed, embedded neurons were mounted on a resin support and sectioned with a UC7 ultramicrotome (Leica Microsystems, Vienna, Austria) with a 35° diamond knife (Diatome Ltd, Switzerlands). Sections of 80 nm were collected on 300 mesh copper grids (G300Cu - Electron Microscopy Science, Hatfield, PA, USA).
Grids were analyzed with a Zeiss Libra 120 Plus transmission electron microscope, operating at 120 kV, and equipped with an in-column omega filter (for the energy filtered imaging).
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5

Ultrastructural Analysis of C. maluytinae

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One specimen of C. maluytinae with attached soft-parts was fully decalcified by immersion in 4% EDTA for several days. Pieces of the mantle, with their associated periostraca, were excised mainly from the ventral areas. They were CO2-critical-point dried (Polaron CPD 7501), post-fixed in OsO4 (2%) for 2 h at 4 °C and embedded in epoxy resin (Aname Epon 812). Blocks prepared in this way were sectioned with an ultramicrotome LEICA Ultracut R and prepared following standard procedures. Ultrathin sections (50 nm) were stained with uranyl acetate (1%) followed by lead citrate. They were observed with TEM (Zeiss Libra 120 Plus) at the Center for Scientific Instrumentation (CIC) of the University of Granada. Due to shortage of material, no specimen of C. natalyae was available for TEM observation.
The two most complete lamellae prepared by FIB and used for EBSD (see below) were also observed using a double Cs corrected FEI Titan G2 60–300 TEM equipped with an X-field emission gun and a Gatan Ultrascan camera (CIC, UGR). Imaging was performed in TEM mode at 300 kV, and 0.5–1 s exposure.
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6

Amyloid-Beta Fibrillization Inhibition by Seaweed Extracts

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1-42 was dissolved in sodium hydroxide (50 mM, 200 µL), and 900 µL of deionized water was added to the solution after 3 min. Phosphate-buffered saline (100 µL) was added to the solution to reach a final concentration of 25 µM of peptide. Sonication was done for about 3 min before the mixture was centrifuged for 20 min at 4000×g and 4 °C. Aβ1-42 (100 µL) (Rosensweig et al. 2012 ) was incubated with seaweed extracts (200 µL) in separate tubes at 37 °C between 24 and 96 h. The control experiment did not contain the seaweed extracts. Aliquots were drawn from each tube at 48, 72 and 96 h and were viewed under a transmission electron microscope (TEM) (Carl Zeiss Libra 120 Plus [120 KV], Oberkochen, Germany).
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7

Cryo-TEM Imaging of Liposome Nanoparticles

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The liposomes were prepared with a concentration of 2 mg·mL−1. Vitrified specimens were prepared using a blotting procedure, performed in a chamber with a controlled temperature and humidity using an EM GP grid plunger (Leica, Wetzlar, Germany). The sample dispersion (6 μL) was placed onto an EM grid coated with a holey carbon film (Cflat, Protochips Inc., Raleigh, NC, USA). Excess solution was then removed by blotting with a filter paper to leave a thin film of the dispersion spanning the holes of the carbon film on the EM grid. Vitrification of the thin film was achieved through rapid plunging of the grid into liquid ethane held just above its freezing point. The vitrified specimen was kept below 108 K during storage, transferred to the microscope, and investigated. Specimens were examined with a Libra 120 Plus transmission electron microscope (Carl Zeiss Microscopy GmbH, Oberkochen, Germany) operating at 120 kV. The microscope was equipped with a Gatan 626 cryotransfer system. Images were acquired using a BM-2k-120 dual-speed on-axis SSCCD camera (TRS).
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8

Sucrose Gradient Fractionation and Microscopic Analysis

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Fresh aliquots from the sucrose gradient fractions were pelleted and washed following the methodology previously described (Garcia‐Ramon et al., 2016) and sent to the ‘Biological Sample Preparation Laboratory’ at the Scientific Instrumentation Center of the University of Granada (CIC‐UGR) for processing. Samples were observed under a Transmission Electronic Microscope (LIBRA 120 PLUS from Carl Zeiss SMT, Oberkochen, Germany) in the Microscopy Service of the CIC‐UGR. Ten images of 12.6 μm in size were used to determine the crystal:spore ratio.
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9

Cryo-EM structure analysis of PLTP-HDL complexes

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The OpNS micrographs were acquired at room temperature under a defocus of ~0.6 um on a Gatan UltraScan 4 K × 4 K CCD equipped on a Zeiss Libra 120 Plus transmission electron microscope (Carl Zeiss NTS GmbH, Oberkochen, Germany). TEM was operated under a high-tension of 120 kV, energy filtering of 20 eV and 4 magnification range of 31.5 K to 80 K, in which each pixel of the micrographs corresponded to 3.68 to 1.48 Å, respectively. A total of ~230 micrographs were collected for the single particle reconstruction for the PLTP and PLTP-HDL3 complex and ~10 micrographs were collected from each sample condition for the HDL-PLTP-LDL/VLDL/liposome incubation. The defocus of each micrograph was determined by fitting the contrast transfer function (CTF) parameters with its power spectrum using ctffind3 in the FREALIGN software package.[65 (link)] The phase of each micrograph was corrected by a Wiener filter with the SPIDER software package.[66 (link)]. Approximately 200–500 particles from each ternary mixture sample at different time points were windowed and selected by the boxer software in the EMAN software package.[43 (link)] These particles are submitted for Gaussian low-pass filtering before statistical analysis.
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10

Negative Staining of Extracellular Vesicles

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Samples were prepared using a two-step protocol for negative staining64 (link). The sEV suspensions were adsorbed for 30 min onto carbon-coated 300 mesh copper grids (Electron Microscope Science, Hatfield, PA, USA), washed three times with pure water, and then stained for 30 s with an uranium free staining solution65 (link). The grids were then paper-drained and directly analysed with a Libra 120 Plus transmission electron microscope, operating at 120 kV and equipped with an in-column omega filter and 16-bit CCD camera (Zeiss, Oberkichen, Germany). Samples were analysed with ImageJ software (NIH).
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