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46 protocols using metamorph 6

1

Measuring Podocyte ROS Generation

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Cytosolic ROS generation was measured using CM-H2DCF-DA (2′-7′ dichlorofluorescin diacetate) (Molecular Probes, Eugene, OR, USA). Differentiated podocytes on 12-mm coverslips were loaded with 5 μM CM-H2DCF-DA for 20 min at 37 °C, and excess dye was then washed out using KRB solution. Fluorescence intensity was measured using an inverted microscope (IX81, Olympus, Tokyo, Japan) equipped with an array laser Nipkow spinning disk (CSU10, Yokogawa Electric Corporation, Tokyo, Japan). The wavelengths for the measurement of DCF fluorescence were 490 nm for excitation and 535 nm for emission and were analyzed using Metamorph 6.1 software (Molecular Devices).
Mitochondrial superoxide generation was detected using mitoSox (Molecular Probes), a red fluorescent dye localized to mitochondria. Once it enters the mitochondria, mitoSox is specifically oxidized by superoxide and exhibits red fluorescence. mitoSox (5 μM) was used to load the differentiated podocytes cultured on 12 mm coverslips for 14 days at 37 °C. Cells were washed twice with KRB solution and the red fluorescent intensity from podocytes was measured by using the Nipkow spinning disk confocal microscopic system with wavelengths of 514 and 560 nm for excitation and emission, respectively.
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2

Quantification of Myocardial Fibrosis and Apoptosis

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Histological analysis of fibrosis, and cell surface area measurements were described previously [25 (link)]. Briefly, mouse hearts (N = 4–5) were fixed in 10% formalin/phosphate-buffered saline (PBS) and dehydrated for paraffin embedding. The dehydrated, paraffin-embedded fixed hearts were then cut into 5 μm sections for Masson’s trichrome staining. The percentage of myocardial fibrosis was determined using the ratio of the total interstitial fibrosis area to longitudinal sectional area of a left ventricle section using MetaMorph 6.1 software (Molecular Devices, LLC., San Jose, CA, USA) as described previously [25 (link)]. Using a section of dehydrated, paraffin-embedded fixed hearts, TUNEL was performed using TMR Red in situ cell death detection kit following the manufacturer’s instructions.
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3

Measuring Kinetochore Separation in Metaphase

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Samples were prepared as previously described35 (link). Image acquisition was performed on a Nikon TE300 inverted microscope equipped with a Yokogawa CSU10 spinning disk confocal with image magnification yielding a 65 nm pixel size from the Orca ER cooled CCD camera and an 100X/1.4NA (Plan Apo) DIC oil immersion objective (Nikon). Sixty-five flame 3D stacks of pairs of red and green fluorescent images were obtained sequentially at 200 nm steps along the z-axis through the cell from coverslip surface using MetaMorph 6.1 software (Molecular Devices).
For each metaphase kinetochore pair, 3D centroid positions were measured with a 3D Gaussian fitting function as described previously36 (link). The centroids of one color were projected to the axis defined by the centroids of the other color, and the Delta (average separation of the projection distance between the signals of red and green colors for theta pair) was calculated to correct for chromatic aberration. Mean Delta values were corrected for tilt of the face of the kinetochore relative to the axis between sister kinetochores.
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4

Measuring Kinetochore Separation in Metaphase

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Samples were prepared as previously described35 (link). Image acquisition was performed on a Nikon TE300 inverted microscope equipped with a Yokogawa CSU10 spinning disk confocal with image magnification yielding a 65 nm pixel size from the Orca ER cooled CCD camera and an 100X/1.4NA (Plan Apo) DIC oil immersion objective (Nikon). Sixty-five flame 3D stacks of pairs of red and green fluorescent images were obtained sequentially at 200 nm steps along the z-axis through the cell from coverslip surface using MetaMorph 6.1 software (Molecular Devices).
For each metaphase kinetochore pair, 3D centroid positions were measured with a 3D Gaussian fitting function as described previously36 (link). The centroids of one color were projected to the axis defined by the centroids of the other color, and the Delta (average separation of the projection distance between the signals of red and green colors for theta pair) was calculated to correct for chromatic aberration. Mean Delta values were corrected for tilt of the face of the kinetochore relative to the axis between sister kinetochores.
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5

Myotube Diameter Measurement Protocol

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After 48-h DEX and/or r-irisin treatment, myotubes were fixed with 4% paraformaldehyde in phosphate-buffered saline. Images were from a Nikon Eclipse TE2000U microscope (Nikon, Avon, MA), captured using Photometrics Cool SNAP CCD camera (Roper Scientific, Tucson, AZ, USA) under phase-contrast microscopy at × 100 magnification. Diameters of individual myotubes were analyzed using MetaMorph 6.1 software (Molecular Devices, Sunnyvale, CA, USA). Average diameters of at least 200 myotubes were determined for each condition at three points separated by 50 μm along the myotube.
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Quantifying Beta-Cell Proliferation

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Five slides spaced at least 250 μm apart per animal were immunolabeled for insulin and Ki67. Images were obtained using a ScanScope FL slide scanner (Aperio Technologies, Inc., Vista, CA). A minimum of 5000 cells were manually counted using Metamorph 6.1 software (Molecular Devices, Sunnyvale, CA). The percentage of proliferating β‐cells was determined by dividing the total number of Ki67‐insulin double‐positive cells by the total number of insulin‐positive cells.
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7

Imaging Live HeLa Cells with Confocal Microscopy

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All confocal images of live HeLa cells expressing an EGFP fusion protein were recorded at 35–37 °C as described by previously19 (link)20 (link). Laser (Model 35 LTL 835–220; CVI Melles Griot) illumination at 488 nm was projected through a spinning disk confocal head (Yokogawa CSU-10; PerkinElmer) at 0.5 mW into the back aperture of a × 100/1.4 numerical aperture objective lens (Nikon) mounted on a TE300 stand (Nikon). Confocal images from the Yokogawa CSU-10 were acquired using 600-ms exposures and a CCD camera (OrcaAG; Hamamatsu) typically with 1 × 1 binning for an effective pixel size of 65 nm or occasionally with 2 × 2 binning for an effective pixel size of 130 nm in specimen images. Image acquisition was controlled by MetaMorph 6.1 Software (Molecular Devices). To find the z axis position of best focus for analysis, which means the highest integrated intensities at kinetochore spot, a through-focus series of image exposures at 200-nm steps was acquired starting just beneath the coverslip surface.
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8

Quantifying Cardiac Fibrosis and Apoptosis

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The mouse hearts were fixed with 10% formalin in PBS for 24 h at room temperature and dehydrated for paraffin embedding. Sagittal sections (5-μm thickness) were collected from each heart and fibrosis was detected with Masson's trichrome staining using a Masson's Trichrome Stain Kit according to the manufacturer's protocols (Nanjing KeyGen Biotech Co., Ltd.). Blue collagen staining was quantified using MetaMorph 6.1 software (Molecular Devices, LLC) as described previously (22 (link)).
A TUNEL assay was performed with an ApopTag Peroxidase In Situ Apoptosis Detection kit (EMD Millipore), according to the manufacturer's instructions, to analyze myocardial cell death. The nucleus was stained using DAPI (EMD Millipore; 1:1,000) and samples were mounted with antifade solution (Invitrogen; Thermo Fisher Scientific, Inc.). The specimens were sampled from five individual fields, and the rate of cell death was defined as follows: (Number of positively stained nuclei/total number of nuclei in the field) x100.
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9

ROS Detection in ARPE-19 Cells

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Cytosolic ROS generation was detected using chloromethyl-H2-dichlorofluorescein diacetate (CM-H2DCF-DA), which is rapidly oxidized to highly fluorescent 2,7-dichlorofluorescein (DCF) by intracellular ROS. ARPE19 cells cultured on 12 mm coverslips were treated with a 5 μM working concentration of CM-H2DCF-DA for 20 min at 37 °C and rinsed with Krebs-Ringer bicarbonate (KRB) solution (135 mM NaCl, 3.6 mM KCl, 2 mM NaHCO3, 0.5 mM NaH2PO4, 0.5 mM MgSO4, 1.5 mM CaCl2, and 10 mM HEPES; pH 7.4). Mitochondrial superoxide generation was detected using mitoSox (Molecular Probes), a red fluorescent dye localized to the mitochondria. Once it enters the mitochondria, mitoSox is specifically oxidized by superoxide and exhibits red fluorescence. mitoSox (5 μM) was used to load ARPE19 cells for 20 min and then, the cells were washed twice with KRB solution. Fluorescence images (excitation/emission: 490/535 nm for DCF and 514/560 nm for mitoSox) were captured using a microscope (IX81, Olympus, Tokyo, Japan), and the intensity was analyzed using the Metamorph 6.1 software (Molecular Devices, Sunnyvale, CA).
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10

Intracellular ROS Scavenging Assay

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Intracellular ROS scavenging assays were performed by measuring the fluorescence intensity of the 5-(and-6)-chloromethyl-2′,7′-dichlorodihydrofluorescein diacetate, acetyl ester probe, which intensity is in accordance to the amount of ROS in presence. The HaCaT cells were pre-treated with or without either DMSO, NA (1 µM), NA–IVH (1 µM), or NAC (1 mM) for 24 h, and were then incubated with or without 1 mM of H2O2 for 2 h. The media was replaced with PBS containing 5 µM of 5-(and-6)-chloromethyl-2′,7′-dichlorodihydrofluorescein diacetate, acetyl ester (CM-H2DCFDA; Thermo Fisher Scientific, MA, USA) for 20 min, prior to detection. The images were captured using a IX81 inverted microscope (Olympus, Tokyo, Japan) at 2 × magnification. The images acquired were subjected to intensity measurement using Metamorph 6.1 software (Molecular Devices, Sunnyvale, CA, USA).
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