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10 protocols using cfi60

1

Immunofluorescence Analysis of Wnt Pathway

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The cultured cells were washed one time with cold PBS and fixed with 4% paraformaldehyde for 10 minutes at room temperature. Following washing three times with PBS, the cells were permeabilized with 0.2% Triton X-100 in PBS buffer for 20 minutes at room temperature. Following washing three times with 0.1% Tween20 in PBS, the cells were blocked with 0.1% Tween20 and 10% goat serum, with 1% BSA in PBS buffer for 1 hour at room temperature. The cells were incubated with the anti-rabbit primary antibodies of β-catenin (Abcam, Cambridge, UK), Axin1 (Novus Biologicals, Centennial, USA), Axin2 (Novus Biologicals) and phosphorylated LRP6 (Biorbyt Ltd., Cambridge, UK) over night at 4°C. The cells were washed three times with 0.1% Tween20 in PBS. The cells were incubated with Alexa Fluor® 568 conjugated goat anti-rabbit IgG secondary antibody (Invitrogen, Carlsbad, USA) for 45 minutes at room temperature. To visualize the nuclei, the cells were double-stained with 4’, 6-diamidino-2-phenylindole (DAPI) (Vector Laboratories, Burlingame, USA). The cells were viewed with a Keyence BZ 800 epifluorescence microscope, which was equipped with a digital camera (CFI 60, Nikon Corporation, Tokyo, Japan). All immunofluorescence images were obtained with identical exposure settings.
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2

Ovary Dissection and X-gal Staining

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Ovaries were dissected from 3–4-day-old females in PBS then transferred and fixed in PBS plus Triton X-100 (PBT) (PBS with 0.1% Triton X-100) containing 0.1% glutaraldehyde for 5 min and rinsed three times with PBT. Each sample was incubated in a 0.2% X-gal staining solution (10 mM phosphate buffer, pH 7.2, 1 mM MgCl2, 5 mM K4[FeII(CN)6], 5 mM K3[Fe(III)(CN)6], 0.1% Triton X-100) for 45 min. After staining, each sample was rinsed three times with PBT, mounted in PBS containing 50% glycerol, and analyzed by bright-field microscopy on a Nikon Eclipse 90i microscope equipped with a 12V, 100W halogen lamp by using a Nikon CFI60 (Chromatic Aberration Free Infinity) Plan Fluor 20x objective with numerical aperture 0.50 and Nomarski optics. Digital images were acquired with a Nikon Digital Sight camera and assembled using the Adobe Photoshop software. No biased image manipulations were applied.
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3

Acridine Orange Staining for Apoptosis Analysis in Ethanol-Exposed Embryos

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Acridine orange staining was performed to investigate cellular apoptosis in ethanol exposed embryos, following the protocol by Kim et al. (2014). Acridine orange can permeate apoptotic cells and binds to DNA, whereas healthy cells are nonpermeable to acridine orange. Thus, it stains necrotic or late apoptotic cells. Five embryos from each treatment were exposed to ethanol at 24 hpf, for 2 hr. After that, animals were washed twice, transferred to 96‐well plates, and treated with acridine orange solution (7 μg/ml) for 1 hr, at 28 ± 1°C in a dark room. Next, embryos were washed twice and anesthetized by ice before observation under the fluorescence microscope (Nikon CFI60, Eclipse Ti). Animals were photographed on the same settings to standardize the background: DSQi1Mc 12 bit, auto‐exposure 10 s, and analog gain of 16.0×. For each larva, the fluorescence intensity was quantified using the ImageJ software 1.52p (National Institutes of Health, USA).
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4

Whole Adult Eye Imaging Protocol

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Whole adult eyes were photographed with the Nikon Digital Sight camera mounted on a Nikon Eclipse 90i microscope equipped with a 12V, 100W halogen lamp by using a Nikon CFI60 (Chromatic Aberration Free Infinity) Plan Fluor 10x objective with numerical aperture 0.30. Z-stacks of adult eye images were flattened by using the NIS-Elements Imaging Software. Digital images were assembled using the Adobe Photoshop software. No biased image manipulations were applied.
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5

Visualizing Chlorophyllous Cells

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Transverse sections of leaves containing mid-veins and leaf laminae were cut manually using razor blades, and mixed with a glycerol-PBS solution (50 % glycerol, 137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4, and 2 mM KH2PO4, pH = 7.2) for optical and epifluorescence microscopy (Nikon CFI60, Tokyo, Japan). Chlorophyllous cells were visualized as bright red fluorescence (LP 520) when excited with blue light (BP 450–490) in epifluorescence microscopy.
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6

Tumor Growth and Metastasis Monitoring

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To monitor primary tumor growth, mice were inspected weekly by manual palpation for tumor appearance. Tumor growth was monitored twice weekly using digital calipers. Tumor volume was calculated as follows: Volume = (Width2 × Length)/2. To examine lung metastases, primary tumors were either surgically removed 4 weeks after inoculation or left intact as indicated, and the lungs were extracted as described per experiment. Metastatic foci of RFP-expressing cells located on the dorsal surface of the left lung lobe were imaged and counted using a fluorescence microscope at × 10 magnification (CFI60; Nikon Instruments). The presence of tumor cells in the left lobes was further confirmed by hematoxylin and eosin (H&E) staining of formalin-fixed lung sections (10 μm thick). In addition, the right lobes of the lungs were digested to prepare DNA, which was then subjected to quantitative PCR (qPCR) analysis using primers specific for the human Alu sequences (hAlu-qPCR), as described previously [16 (link)].
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7

Automated Floc Characterization via Morphologi G3

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Optical observations of flocs were made with the use of Malvern Morphologi G3 which applies the technique of automated static image analysis. The Morphologi G3 provides particle characterisation tool for the measurement of particle size and particle shape from 0.5 μm to several millimetres. The measurement system is equipped with a Nikon CFI 60 optical unit and a CCD digital camera. The tests of activated sludge started with the preparation and placing a small portion of sample on the wet cell plate (180 × 110 mm) for wet measurements and setting up the analysis with use of Standard Operating Procedure (SOP). The adjustment in the SOP tab included, among others, choosing the correct lighting, lens, focus and the size of the scan area. After the initial adjustments were approved, the scanning of the required area began. Depending on the SOP settings (mostly scan area), the measurement can last from 2 min to over an hour. During scanning, the image of each particle is recorded in the software of the instrument, which enables to provide a complete, detailed description of the morphological properties of activated sludge flocs later.
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8

Clonogenic Assay of Prostate Cancer Cells

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PC-3, DU145, and Lncap cells were cultured and seeded onto 6-well plates (Costar-Corning, Corning, NY, USA) at final density of 1000 cells per well. When the aforementioned cells were adherent, cells were treated with HCl contained solvent control. When cells in 6-well plates growth to the density of 50% per cluster, which were washed with the phosphate-buffered saline (PBS) and fixed with 4% paraformaldehyde (Sigma-Aldrich, St. Louis, MO, USA). The cells were stained using 0.1% crystal violet (Sigma-Aldrich) and washed with PBS again. Eventually, the formed clones were observed using naked eye from the randomly selected fields (at least 6 fields) under the microscopy (100× magnification, Mode: CFI60, Nikon, Japan).
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9

Alizarin Red and ALP Staining of VICs

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Alizarin red staining was performed with alizarin red solution kit (Millipore). VICs were fixed in 10% formalin for 15 mins at room temperature, rinsed in PBS twice for 10 mins. Alizarin red solution was filtered with 0.45 μm filter before addition. After 5 mins of incubation with alizarin red solution at room temperature and protected from light, excess dye was removed and the hydrogels were washed with DI H20 three times for 15 mins before imagining with brightfield microscope (Nikon CFI60). Alkaline phosphatase (ALP) staining was performed with alkaline phosphatase detection kit (Millipore). ALP detection solution was prepared by mixing Fast Red Violet (FRV) with Naphthol AS-BI phosphate solution and water in a 2:1:1 ratio (FRV:Naphthol:water). VICs culture on hydrogel substrates were fixed in 4% paraformaldehyde for 2 mins at room temperature and rinsed with 1x TBST buffer (20 mM Tris-HCl, pH 7.4, 0.15M NaCl, 0.05% Tween-20). 1mL ALP staining solution was added to each well in a 12-well plate, followed by 15 mins incubation protected from light at room temperature. Gels were rinsed with 1x PBST and stored in PBS before imaging.
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10

Morphological Analysis of Cubic Phases

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A morphological analysis of both precursor solutions and obtained cubic phases was performed using a Morphologi G3-S microscope (Malvern Panalytical, Malvern, UK) equipped with a Nikon® CFI 60 brightfield/darkfield optical system. A volume of 10 µL of precursor solution (or 10 mg of cubic phase) was gently placed on the instrument plate and immediately covered with a micro cover glass (20 × 20 mm, Syntesys, Italy) to avoid changes in the samples’ degree of hydration. The light source was polarized with cross-polarizing filters (ScreenTech, Germany) and oriented to form a 90° angle. Micrographs were obtained from 5× and 20× magnifications and exported as uncompressed TIFF files by the integrated Morphologi software (Malvern Panalytical, UK).
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