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89 protocols using dfc3000 g

1

Fluorescent Imaging of GFAP-Cre and Periostin-Cre Mouse Tissues

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For eight-week-old GFAP-Cre; Rosa Green and Periostin-Cre; Rosa Green mouse nerves and bones, images were acquired at 100x magnification on a Nikon Eclipse TE300 fluorescence inverted microscope equipped with an optical camera (Leica DFC 3000G) and analyzed using Leica Application Suite Advanced Fluorescence 3.20.9652. Seven day post-injection images were acquired at 200x magnification on a Nikon Eclipse TE300 fluorescence inverted microscope equipped with an optical camera (Leica DFC 3000G). Images from tumor bearing mice were acquired at 400x magnification using an Olympus BX51 camera.
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2

Mitochondrial Membrane Potential Measurement in Worms

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TMRE staining was performed according to the previous study (Cho et al., 2017 (link)). TMRE was dissolved in DMSO at a concentration of 50 µM and added into fresh bacteria culture at a final concentration of 0.1 µM before seeding the plates. Worms were synchronized by egg bleach and grown on E. coli HT115 for RNAi from the hatch and transferred to RNAi plates containing TMRE at the L3/L4 stage. Worms were imaged after growing overnight on TMRE plates. TMRE staining was quantified with ImageJ. CCCP was dissolved in DMSO at a concentration of 10 mM and added into bacteria culture at a final concentration of 50 µM before seeding the plates. Images were acquired with Leica Application Suite (LAS) using Fluorescent Stereo Microscope Leica M205, with objective lens, PlanApo 5.0× LWD (10447243; Leica), and camera, Leica DFC3000 G, at room temperature.
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3

Immunofluorescence Detection of Viral Proteins

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Three hundred microliters (100μL per well) of haemolymph were deposited on glass slide and centrifuged at 100×g during 1min at 4°C. The supernatant was removed and cells were fixed with ice cold methanol for 30s. After two washes in 1X PBS (5min and 15min, respectively), potential sites of non-specific interaction were blocked using 5% BSA dissolved in 1X PBS during 1h at room temperature. Samples were washed three times in 1X PBS for 10min each. The slides were incubated overnight at 4°C with the two primary antibodies targeting the putative OsHV-1 IAP (1:100) and the actin (1:500) (A4700, Sigma) diluted in 1X PBS supplemented with 1% of BSA. Unbound primary antibodies were removed by three washes in 1X PBS. Primary antibodies were detected using two fluorochrome-conjugated secondary antibodies (1:400) diluted in 1X PBS with 5% of BSA for 45min at room temperature in the dark. The secondary antibodies conjugated with the dylight anti-rabbit 488 (072-03-15-06, Eurobio) and the dylight anti-mouse 549 (DI-2549, Eurobio), were used for viral proteins and oyster actin detection, respectively. After two washes in 1X PBS (5min), samples were mounted using ProLong® Gold antifade mountant with 4’,6-diamidino-2-phenylindole (DAPI) (P36935, ThermoFisher Scientific). Samples were examined under fluorescence microscope (Leica DFC3000 G).
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4

Visualizing Nanomaterial-Cell Interactions with Fluorescent Microscopy

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The development of the fluorescent U-2 OS-Green on the analyzed nanomaterials was monitored using a Leica DM IL Led fluorescence microscope (Leica Microsystems, Wetzlar, Germany), equipped with a Leica DFC3000 G digital camera(Leica Microsystems, Wetzlar, Germany). The images were captured with Leica Application Siute X 3.3.3.16958 software using the Leica N PLAN 10x/0.25 PH1 objective, and analyzed with ImageJ 1.48v [40 (link)]. While the cells were seeded and grown on the upper surface of the materials, just before the imaging the materials were inverted, and inverted back after the imaging for further culture. The growth of the cells was monitored at the 1st, 2nd, 3rd and 6th day post-seeding and every day the images were captured using the same camera settings (40 ms exposure, gain = 1) to enable quantification of the fluorescence intensity (day 6 was an exception, when the 15 ms exposure was performed to capture the properly exposed image, but this was compensated in the calculations).
The information on the number of photomicrographs was analyzed and the statistical analysis is provided in the captions in Figure 3 and Figure 4. For fluorescence quantification, background subtraction was performed for each individual image in order to provide more adequate data and better reflect the differences observed in the photomicrograph.
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5

Fluorescence Microscopy Techniques for Imaging Zebrafish

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A laser scanning confocal microscope (TCS SP8, Leica Microsystems) with a 10× air or a 40× water objective was used for fluorescence photo documentation and live imaging. For live imaging, larvae were anesthetized in 0.04 mg/ml tricaine (MS-222, Sigma-Aldrich) and embedded in 1.5% low melting agarose dissolved in 30% Danieau on glass-bottomed imaging dishes. Z-Stack projections and reconstructions were performed with the LAS X software (Leica Microsystems GmbH).
Chromogenic stained sections and larvae were imaged using a Leica MZ FLIII stereomicroscope or a Leitz DM RBE microscope, both equipped with Nikon DS-Vi1 cameras (Nikon). Fluorescence images of frozen sections were either captured on the Leica SP8 or a transmitted light fluorescence microscope equipped with Leica DFC 3000G and Leica DMC 2900 cameras (all Leica Microsystems GmbH).
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6

Quantifying Polyglutamine Aggregates in C. elegans

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The number of intestinal polyQ punctae was counted in live on Day 15 using florescent images of live C. elegans AM141 [unc-54p::Q40::YFP]). Animals were imaged using a microscope camera Leica DFC3000G (Leica M205 with the fluorescence filter set, Leica Microsystems, Germany). Operators were blinded to treatment condition while punctae were counted.
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7

Quantifying Polyglutamine Aggregates in C. elegans

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The number of intestinal polyQ punctae was counted in live on Day 15 using florescent images of live C. elegans AM141 [unc-54p::Q40::YFP]). Animals were imaged using a microscope camera Leica DFC3000G (Leica M205 with the fluorescence filter set, Leica Microsystems, Germany). Operators were blinded to treatment condition while punctae were counted.
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8

Assessing Cell Viability with FDA and EB

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Live and dead assays were performed using fluorescein diacetate (FDA, Sigma-Aldrich) and ethidium bromide (EB, Sigma-Aldrich) staining. The cytoplasm of viable cells and nuclei of nonviable cells were stained with FDA (green) and EB (red), respectively. The staining solution was freshly prepared by combining 10 mL of FDA stock solution (1.5 mg/mL of FDA in dimethyl sulfoxide), 5 mL of EB stock solution (1 mg/mL of EB in PBS), and 3 mL of PBS. The HFDPCs were cultured for 24 h with MARE extract, washed once with PBS, and incubated with the staining solution for 3 min at 37 °C. After staining, the samples were washed twice with PBS and examined under a fluorescence microscope (DFC 3000 G, Leica, Wetzlar, Germany).
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9

Time-lapse Confocal Microscopy Protocol

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Time-lapse video microscopy measurements were performed using a laser scanning confocal microscope (Leica SP5 II) equipped with an environmental control chamber (Life Imaging Services) maintained at 37°C. Fluorescence and brightfield images were collected with 10X air objective (Leica 506505, HC PL Fluotar 10X/0.03) and 1.25 X air objective (Leica 506215, HCX PL Fluotar 1.25X/0.04). Time-lapse measurements were also collected using a stereomicroscope (Leica, M205 FA) equipped with color CMOS video camera (Leica, DFC3000 G). After collection, images were processed and analyzed using IMARIS, MetaMorph and ImageJ image analysis software.
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10

Immunofluorescence Staining of Tight Junctions

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Lab-tek II chamber slides (Thermo Fisher Scientific, Waltham, MA) were coated with attachment factor solution for 30 min. After 30 min of incubation and aspiration, HBEC-5i were seeded. After 48 h, PHAs and BM-MSCs were seeded. Cells were fixed with 8% paraformaldehyde (PFA) (− 20 °C) for 15 min at 37 °C in 5% CO2 and then 4% PFA at RT. Slides were washed with 1X PBS 2 × for 5 min and incubated with blocking solution (10% Donkey serum [Sigma, D9663] for 1 h. Cultures were incubated with primary antibodies overnight. Secondary antibodies were incubated for 2 h at RT. The following antibodies were used: anti-claudin-5 (Thermo Fisher, 35–2500), anti-occludin (Thermo Fisher, 33–1500), anti-zo1(Thermo Fisher, 61–7300), goat anti-rabbit Alexa Fluor 488 (Thermo Fisher, A11008), and goat anti-rabbit Alexa Fluor 555 (A21428, Thermo Fisher). Cells were imaged with a Leica DFC3000 G.
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