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12 protocols using axiocam 702 mono

1

Ultrastructural Analysis of AgRP Neurons

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Male AgRPCre/+;Rosa26tdTom and AgRPAgpat5KO;Rosa26tdTom (12 weeks old, ad libitum fed) were subjected to a trans-cardiac perfusion of fresh cold fixative solution (1% glutaraldehyde/2% cold PFA in 0.1 M phosphate buffer, pH 7.4). Brains were isolated and kept overnight in the fixative solution. After two washes with PB solution, 70 μm coronal sections containing ARC were prepared using a vibratome (VT1000S, Leica) and tdTomato-positive fluorescent cells were imaged using a ZEISS Axio Imager.M2 microscope, equipped with ApoTome.2 and a Camera Axiocam 702 mono using the AxioVision software (Zeiss, Oberkochen, Germany). Sections were osmicated (1.5% osmium tetroxide) for 1 h followed by 1 h incubation in 1% (wt/vol) tannic acid in 0.1 M PB buffer. Samples were then dehydrated with ethanol solutions (1% uranyl acetate in 70% ethanol for 30 min) and flat-embedded in Epon-araldite. Trimmed blocks were used to cut ultrathin sections that were examined using a Philips CM-10 electron microscope41 (link). Electron microscopy images were cross-referenced with immunofluorescent images of tdTomato-positive AgRP neurons to identify the cell population of interest. Mitochondrial morphology in AgRP neurons was analyzed using ImageJ software, quantifying mitochondrial area and perimeter in tdTomato-positive AgRP neurons42 (link).
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2

Immunofluorescence Assays for Malaria

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For evaluation of PV biotinylation and localization of EXP1 complementing copies, thin smears were fixed with a mixture of cold 90% acetone and 10% methanol for 2 minutes. For export assays, thin smears were fixed with room temperature 100% acetone for 2 minutes. For EXP2 distribution assays, magnet-purified infected RBCs were allowed to settle on coverslips coated with concanavalin A before fixing with 4% PFA and 0.0075% glutaraldehyde for 15 minutes. IFAs were processed as described (Beck et al., 2014 (link)). For detection of biotinylated proteins, streptavidin-conjugated Alexa Fluor 594 (ThermoFisher) was included with secondary antibodies at 1:200. Images were collected on an Axio Observer 7 equipped with an Axiocam 702 mono camera and Zen 2.6 Pro software (Zeiss) using the same exposure times for all images across sample groups and experimental replicates.
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3

Live Cell Imaging Protocol

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For live imaging, cells were washed and resuspended in 10 mM Tris pH 7.4 and placed directly on glass slides, where some cells become immobilized by the pressure of the cover slip. Alternatively, cold CyGel (Abcam) was buffered with 1 M Tris, pH 7.4 (100:1, for a final concentration of 10mM), and this was mixed 1:1 with cells on coverslips, which were then gently pressed onto slides at room temperature. Images were captured with an Axiocam 702 mono using the Zeiss Axio Observer 7 system, with a 100X objective (Alpha Plan-Apo 100x/1.46 oil DIC M27).
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4

Immunofluorescence Microscopy of VEGF

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Cells were fixed with 4% paraformaldehyde and incubated with anti-VEGF (Cat no. 19003-1-AP; Proteintech, Shanghai, China) overnight at 4°C. Then, HRP Anti-Rabbit IgG antibody (Cat no. ab288151; Abcam, Cambridge, United Kingdom) was used. Nuclei were blocked with DAPI for 10 min. Coverslips were observed by an inverted fluorescence microscope (Axiocam 702 mono, Zeiss, Germany).
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5

Immunofluorescence Imaging with Zeiss Microscopes

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Immunofluorescence stainings were analyzed and imaged with an inverted Zeiss Axio Observer microscope (ApoTome.2, Axiocam 702 mono camera, Colibri 7 illumination system, 100×, 63×, 40×, 20× and 10× objectives and 49 DAPI, 38 GFP, 43 HE dsRed, 50 Cy5 filter sets) (Carl Zeiss AG, Oberkochen, Germany). For iterative indirect immunofluorescence imaging (4i), Hoechst 33342 stinging of cell nuclei was used for manual positioning of sample regions and repetitive imaging. In addition, an inverted Zeiss Axio Imager microscope equipped with an Axiocam color was used for analysis of IHC and histology. Stained sections were digitalized for analysis using a Ventana DP 200 slide scanner (Roche Diagnostics Deutschland GmbH, Mannheim, Germany) equipped with a 20× and a 40× objective.
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6

Lentiviral-Mediated GCaMP6s Expression

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GCaMP6s plasmid has been constructed in previous experiments [25 (link)]. In a six-well plate precoated with poly-L lysine, 293T cells were seeded and transfected when the cell density reached 90%. Lentivirus particles were generated by co-transfecting 293T cells with packaging plasmid, envelope plasmid, and GCaMP6s expression plasmid. After 48 and 72 h, the supernatant lentiviral particles were collected, and green fluorescent protein (GFP) fluorescence was observed under an inverted fluorescence microscope (Axiocam 702 mono, Zeiss, Germany). After the cardiomyocytes were transduced with lentiviral particles for 72 h, the GFP fluorescence was observed.
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7

Fluorescence Microscopy of Biofilms on Electrodes

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After the end of experiments, cathodes were harvested and fixed in 4% glutaraldehyde in 0.1 M phosphate-buffered saline until further use. They were then analyzed for potential biofilms via fluorescence microscopy. The fixed electrodes were stained with 2 µg·mL−1 DAPI (4′,6-diamidino-2-phenylindole) and Acridine orange (Carl Roth, Germany) to target DNA/RNA and incubated in the dark for 30 min. The stained biofilms on the electrode materials were visualized using a Zeiss Microscope Axioscope 5/7 (Solid-State Light source Colibri 3 (Type RGB-UV)) and Microscopy Camera Axiocam 702 mono) (Zeiss, Germany) at 250× magnification (Objective ApoChrom 25×) under oil immersion, and subsequently the z-stacks were automatically captured with the motorized stage on the Zen software (Zeiss, Germany, version 3.0).
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8

Quantification of Superoxide Anion Levels by DHE Fluorescence

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The fluorescence intensity of O2 staining by DHE was captured using a Zeiss Axio Observer Z1 Inverted Microscope equipped with a 120 W HXP Mercury short-arc lamp and an Axiocam 702 mono camera equipped with an excitation and emission filter set for visualization of FITC, Cy3, Cy5 and DAPI using a 40× (LD Achroplan 40×/0.60 corr., D = 0–2 mm) objective with the ZEN 2 (blue) software (Version 2.0.0.04.8.2.0; all Carl Zeiss, Oberkochen, Germany). Nine adjacent images in original gray-scale were taken in tile mode covering a total of 50–200 cells per sample and time point. Brightness and contrast of representative single cells were modified for enhanced visualization only (Figure 2a). Data analysis was performed using the open-source software Cell Profiler (version 3.1.5, [34 (link)]). The analysis pipeline was designed to quantify the fluorescence intensity adjacent to the respective nuclei (Figure 2b). Briefly, the module ‘IdentifyPrimaryObjects’ was used to target DAPI staining to assess the total number of cells per image before identifying the adjacent DHE stained area with the module ‘IdentifySecondaryObjects’, whose intensity was calculated by ‘MeasureObjectIntensity’. The data was further processed using Microsoft Excel.
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9

Pac-Man Particle Motion Analysis

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The motion experiments with the Pac-Man particles are carried out directly without any further modification of the particles. Very dilute particle solution in DI water is prepared and motion videos at a frame rate of 40 fps are recorded using a camera (Zeiss camera (Axiocam 702 Mono)) attached to an inverted optical microscope (Axio observer from Carl Zeiss Microscopy GmbH). The motion studies are performed on a plasma cleaned glass slide at different peroxide concentrations, using UV light (19.08 W cm -2 intensity, 385 nm UV LED from Colibri 7 light source). 35 The speed from the motion videos are evaluated using Fiji (ImageJ), Matlab and analysed using Origin software. The speed of Pac-Man particles in different concentrations of H 2 O 2 is represented in terms of a box plot, the left side of the plot depicts the box with interquartile range marking the 5th, 25th, 75th, and 95th percentile of the micromotor speed, the middle line is the median value of the speed. On the right half, the individual values of the speed are plotted. About 40-200 particles are tracked for each concentration.
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10

Comprehensive Imaging of Biological Samples

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Images were acquired by scanning 36 tiles at 20× magnification, corresponding to a total area of 6.4 mm 2 (Fig. 1a), over the same spatial area of all serial sections of the tested antibody. Brightfield and fluorescence images were acquired using the Zeiss Observer.Z1 inverted microscope (Carl Zeiss, Oberkochen, Germany) equipped with the Colibri 7 LED illumination system (Carl Zeiss). For brightfield images, the Axiocam 506 camera (Carl Zeiss) was used, and fluorescence images were taken with the Axiocam 702 mono (Carl Zeiss) equipped with an excitation and emission filter set for the visualization of DAPI, FITC, Cy3, and Cy5. The 20× objective (LD Plan-Neofluar 20×/0.40 corr., D = 0-1.5 mm; Carl Zeiss), and the ZEN 3 blue software (Version 3.0; Carl Zeiss) was used for capturing both the brightfield and fluorescence images.
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