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39 protocols using microphot fx

1

Histomorphometric Analysis of Kidney Tissue

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Immediately after the sacrifice, to avoid any possible post-mortem artefacts, the liver and kidneys were fixed in 10% buffered formalin and stored in 80% ethyl alcohol. They were dehydrated in a graded series of alcohol baths and embedded in paraffin by tissue processor (Shandon Excelsior ES, Thermo Scientific, Waltham, MA, USA). The histological sections of 5 μm thick were prepared using the Microm. HM 325 (Thermo Scientific, Waltham, MA, USA) and stained with hematoxylin/eosin for the examination under a light microscopy (Nikon Microphot FX, Melville, NY, USA) at various magnifications to evaluate the histopathological alterations.
The quantitative histomorphometrical analyses were performed on kidneys. The transverse section was examined by means of an image analysis system (Nis-Elements BR) applied to an optical microscope (Nikon Microphot FX, Melville, NY, USA). The diameter and area were measured for 100 glomeruli/sample using a 10× lens, and the glomerular volume was calculated [24 ].
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2

Amber Inclusion Characterization Protocol

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The specimen is an inclusion in mid-Cretaceous amber from the Kachin State in northern Myanmar (Burma). The specimen was purchased together with the whole bunch in 2016 from authorised dealer in Bahan, registered by Ministry of Co-operatives in Myanmar. To further prove sample origination, VIS and UV (395 nm) examination of sample was proceeded at Laboratory of Amber, Museum of Amber Inclusions, University of Gdańsk and Fourier Transform Infrared Spectrum with use of Nicolet iS10 in Amber Laboratory of the International Amber Association in Gdańsk. The amber piece was cut and polished for better visibility. For the microscopic examination, we used a Nikon SMZ1500, Nikon SMZ1270, Leica M205C stereoscopic microscopes and a Nikon Microphot-FX equipped with a camera lucida and changeable direct and transmitted light. The photographs were taken using a Nikon Microphot-FX with a Nikon Eclipse E 600 digital camera and Lucia software and edited with Adobe Photoshop Elements 6.0.
Morphological terminology follows mostly Ossiannilsson28 and Hollis32 but the interpretation of veins R1 and R2 accords with Becker-Migdisova5 and Burckhardt & Poinar6 .
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3

Filopod and Pseudopod Analysis in AprA Gradients

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Filopod and pseudopod projections were analyzed in AprA gradients in an Insall chamber. After using a 10× objective to verify that cells were moving away from the AprA, cells were observed with a 60×/1.4 oil objective on a Nikon Microphot-FX. Images were recorded for 140 s at 2 s intervals. The sizes, locations, frequencies, and lifespans of filopod and pseudopod projections were analyzed in the video images. The Insall chamber has a reservoir A and a reservoir B. Cells on the platform between reservoirs A and B were imaged. If reservoir A had AprA, and B had HL5 medium, the front of a cell was defined as the side of the cell facing reservoir B, and the back was defined as the side of the cell facing reservoir A. For the control, reservoirs A and B both contained HL5, and irrespective of the direction of cell movement, the front was defined as the side of a cell facing toward reservoir B and the back was defined as the side facing reservoir A.
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4

Transwell-based Migration and Invasion Assay

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After 24 h transfection, cell concentration was adjusted to 5 × 104 cells/ml with serum-free medium. The upper chamber of Transwell chamber (Costar; 24-well insert, pore size: 8 μ m) was filled with 200 μl of cell suspension, and the lower chamber was filled with 500 μl of medium with 10% FBS. For the invasion assay, polycarbonate filters coated with 50 μl Matrigel (1:9, BD Bioscience) were placed in a Transwell chamber. Cells were incubated for 12 h for the migration assay, and 36 h for the invasion assay. Cells on the bottom surface of the membrane were fixed with 4% paraformaldehyde and stained with 0.5 % crystal violet. The migratory cells were visualized and counted in five random visual fields per insert under an inverted microscope at 100× magnification (Nikon MicrophotFX, Japan). The experiment was repeated three times.
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5

Transwell Assay for Cell Migration and Invasion

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After 48 h of transfection, cell concentration in each group was adjusted to 2 × 105 cells/mL with serum-free medium. The upper chamber of Transwell chamber (Costar; 24-well insert, pore size: 8 μm) was filled with 200 μl cell suspension, and the lower chamber was filled with 500 μL of medium supplementing 15 % FBS. For the invasion assay, polycarbonate filters coated with 50 μL Matrigel (1:9, BD Bioscience) were placed in a Transwell chamber. Three wells were used for each group. Cells were incubated for 24 h for the migration assay and 48 h for the invasion assay. Then, the cells on the upper surface were wiped slightly using cotton swabs, and the cells on the lower surface were fixed with 4 % paraformaldehyde and stained with 0.1 % crystal violet. The migratory cells were visualized and counted in five random visual fields per insert under an inverted microscope at 200× magnification (Nikon Microphot-FX, Japan).
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6

Cell Invasion and Migration Assay

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Matrigel-coated and -uncoated modified Boyden chambers (BD Biosciences, U.S.A.) were used to evaluate cell invasion and migration. Briefly, transfected cells suspended in FBS-free growth medium were plated into the upper chamber, and growth medium containing 10% FBS was loaded in the lower chamber as an attractant. After 24-h incubation, cells were fixed in 4% paraformaldehyde and stained with 0.1% Crystal Violet (Sigma, U.S.A.). The cells on the upper chamber, which had invaded or migrated to the lower chamber, were removed with a cotton swab and were counted by using a microscope (Nikon Microphot-FX, Japan) in five randomly selected field at ×20 magnification.
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7

Cell Invasion and Migration Assay

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Cell invasion and migration were detected with modified Boyden chamber (BD Biosciences, Sparks, MD, USA) assays. Briefly, three PC cell lines were seeded onto 8.0-µM pore size membrane inserts with 8.0 µM pores coated with matrigel (BD Biosciences) in 24-well plates with FBS-free growth media. 1640 plus 10% FBS was added to the bottom of the wells as a chemoattractant. 12-24 hrs later, cells that did not migrate were removed from the top side of the inserts with a cotton swab. Cells that had migrated to the underside of the inserts were stained with Crystal Violet Hydrate (Sigma) according to the manufacturer's instruction. The migratory cells were counted under a microscope at 20 x magnification. Cell images were obtained using a microscope (Nikon Microphot-FX, Japan), and counted in five random fields per insert. The migration assay was done in a similar fashion without matrigel. In more detail, we first used the same cell intensity (5×10^5/ml) to investigate different invasion ability of three normal PC cell lines. Because too high or too low cell population in invasion and migration assay is unfavorable for late result analysis in our pre-experiment, we seeded 1×10^5/ml of PANC-1 cells, 2.5×10^5/ml of BxPC-3 cells and 5×10^5/ml of Capan-2 cells in cell invasion and migration assayt. The results are presented as cells (actual number) migrated per field.
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8

Immunofluorescent Characterization of Cells

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PC cells were plated into 24-well culture plates, fixed in 4% paraformal dehyde, permeabilized with 0.25% Triton X-100 and incubated with 5% BSA. Then the slices were stained with the primary antibodies: MSI2 (Abcam, Cambridge, UK), ZEB1 (Proteintech, Chicago, IL, USA), pERK (Cell signaling technology, MA, USA) and c-Myc (Proteintech). The secondary antibodies were conjugated with FITC and TRITC (Vector laboratories, California, USA). Cells were then co-stained with blue Hoechest33258 (Vector laboratories) for nuclear visualizing and detected under microscope (Nikon Microphot-FX, Japan).
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9

Stereological Quantification of Dopaminergic Neurons

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The number of TH+ neurons in the SN was counted using a stereology system (Microphot-FX, Nikon Corporation, Tokyo, Japan) with a 40x lens. Counting was performed with the slides encrypted and the person counting blinded to the experimental conditions. Cells were counted if the nucleus was present in the counting frame completely or touching the upper and/or right frame lines. Cells touching the lower and/or left frame line were not counted. The SN was outlined as on every 5th serial slice (2.4 to 4.1 mm dorsal of the bregma) and the total number of TH+ cells in the SN was determined with the Stereo Investigator software (MBF Bioscience, Williston, VT, USA) using the optical fractionator method.
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10

Quantitative Analysis of Cardiac Fibrosis

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Cryosections of human (N = 3) and mouse (N = 9) LV samples were air dried, fixed in 4% paraformaldehyde, and stained with Picrosirius Red Stain Kit (Abcam). Stained sections were washed in two changes of acidified water, dehydrated in three changes of 100% ethanol, and mounted in VectaMount permanent mounting medium (Vector Laboratories). Using a Nikon Microphot-FX microscopy in light microscopy mode, full-spectrum RGB images of stained myocardium were captured and analyzed using Fiji software (NIH). To assess fibrosis, we took five independent random images per sample. Hue, intensity, and saturation (HIS) characteristics of the images were used to establish two thresholds. A first threshold was used to count the area of the entire tissue; a second threshold was used to count areas stained in red. The percentage of Picrosirius Red-positive areas per given area of tissue was measured.
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