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Metamorph software

Manufactured by Olympus
Sourced in Japan

MetaMorph software is an image acquisition and analysis platform developed by Olympus. It is designed to capture, process, and analyze microscopic images. The software provides tools for image acquisition, visualization, and quantification, enabling researchers to extract valuable data from their microscopic samples.

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12 protocols using metamorph software

1

Immunofluorescence Imaging of BRCA2 and BrdU

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Cells were fixed in 4% paraformaldehyde (PFA) for 10 min at RT. For BRCA2 staining cells were fixed in ice-cold methanol for 10 min. Immunofluorescence was performed as described previously17 ,18 (link). Secondary antibodies used were: goat anti-rabbit or anti-mouse Alexa 488 IgG (Life Technologies); donkey anti-mouse or anti-rabbit Cy3 IgG (Jackson Immuno Research), donkey anti-mouse or anti-rabbit Alexa 647 IgG (Life Technologies). For BrdU native staining cells were incubated with BrdU (Sigma-Aldrich, 10 µg/ml) for 24 h.
Immunofluorescence images were acquired using a widefield Olympus Biosystems Microscope BX71 and the MetaMorph software (Soft Imaging System GmbH). Confocal sections were obtained with a Leica TCS SP2 or AOBS confocal laser microscope by sequential scanning. Comparative immunofluorescence analyses were performed in parallel with identical acquisition parameters. Images were analyzed by CellProfiler 2.1.1 software66 (link).
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2

Proximity Ligation Assay for Protein-Protein Interactions

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Cells were labeled according to the manufacturer’s instructions (Sigma). Briefly, cells were fixed as described in the section “immunofluorescence and imaging analysis” and incubated with primary antibodies overnight at 4 °C. Proximity ligation assay (PLA) probes (secondary antibodies conjugated with oligonucleotides) were added to the samples. After ligation of the oligonucleotide probes in close proximity (<40 nm), fluorescently labeled oligonucleotides were added together with a DNA polymerase to generate a signal detectable by a fluorescence microscope. Images were acquired using a widefield Olympus Biosystems Microscope BX71 and the MetaMorph software (Soft Imaging System GmbH) and quantification of PLA dots was performed with the automated image-analysis software CellProfiler 2.1.1.
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3

Osteoblast Cytoskeleton and Focal Adhesion Analysis

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Osteoblast morphology, cytoskeletal arrangement, and focal adhesion of cells were observed using disk-based confocal scanning microscopy (DCSM; BX51, Olympus, Japan) and Meta-morph software (Olympus, Japan). Cells samples were examined after culturing for 4 and 24 hrs. Osteoblasts were cultured on various surfaces at an initial seeding density of 5000 cells/cm2. To investigate the effects of nanotopographical features on focal adhesion and spread of osteoblasts, distribution of vinculin, and organization of actin filaments were investigated by DCSM. Focal adhesion contacts and cytoskeletons were identified by incubating samples with a monoclonal antibody against vinculin (Sigma-Aldrich, St. Louis, MO, USA) and fluorescein isothiocyanate (FITC)-labeled phalloidin (Sigma-Aldrich). An appropriate secondary goat-anti-mouse antibody was used to visualize vinculin staining (Invitrogen, Carlsbad, CA, USA). Samples were mounted on glass slides using anti-fade reagent and 4,6-diamidino-2-phenylindole dihydrochloride (DAPI; Invitrogen), and examined by DCSM.
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4

Live-cell imaging of pHluorin-expressing neurons

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Live-cell fluorescent imaging of pHluorin-expressing neurons was carried out under the same conditions as iGluSnFR imaging. Briefly, images were acquired on an Olympus IX83 inverted microscope equipped with a cellTIRF 4Line excitation system using an Olympus 60×/1.49 Apo N objective and an Orca Flash4.0 CMOS camera (Hamamatsu Photonics). This microscope runs Metamorph software with Olympus 7.8.6.0 acquisition software from Molecular Devices. The imaging media was extracellular fluid with 2 mM CaCl2. Single image planes were acquired with 500-ms exposure using a white organic light-emitting diode with standard green fluorescent protein filters. Images were collected once a second for 3 min. A stimulation train was started 9 s into imaging. The trains (200 stimuli in 10 s [20 Hz]) were triggered by a Grass SD9 stimulator through platinum parallel wires attached to a field stimulation chamber (Warner Instruments; RC-49MFSH). All biosensor imaging experiments were performed at 32 to 34 °C. The environment was controlled by a Tokai incubation controller and chamber.
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5

Analyzing NSC Migration Towards Glioblastoma

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To evaluate the migratory characteristics of NSCs in vitro, we used a similar system described previously 29 (link), with slight modifications. BD Biocoat Tumor Invasion System containing BD Falcon Fluoroblock 24-Multiwell inserts (8-μm pore size; PET membrane) was used following the manufacturer’s instructions (BD Biosciences, Bedford, MA, USA). The migration of GFP-labeled NSCs was characterized towards conditioned media obtained by culturing 5 × 104 GBM43 cells in serum-free/growth factor-free media for 24 hours. The medium was added to the bottom well of the migration chamber to act as a chemoattractant. NSCs were then plated in the top insert at a density of 3 × 105 cells per well in DMEM (Mediatech, Manassan, VA) along with 5 × 104 glioma cells in the lower chamber of the 24-well plate; the cells were kept in these conditions for 48 hours. Cells located above the migration filter were classified as non-migratory and those just below the filter as migratory; each group of cells was collected by using cell scrapers for subsequent gene expression, qRT-PCR, and flow cytometry analysis. The number of migrating cells in three random fields of views per well was counted using an Olympus IX81 inverted microscope (original objective: 20X) and analyzed using the MetaMorph software (Olympus, Tokyo, Japan).
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6

Cryopreservation and Imaging of Skeletal Muscles

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EDL and soleus muscles were dissected and freed from surrounding tissues, the tendons pinned at the bottom of a plastic histology mold, the muscle cryopreserved in 5% sucrose overnight, followed by 20% sucrose overnight, then washed in PBS and covered with optimal cutting temperature compound (O.C.T.), and frozen at −80 °C until used. In preliminary experiments, we exposed muscles sections to a buffer containing the calcium chelator 3% ethylenediaminetetraacetic acid (EDTA) in PBS to prevent contraction; however, they did not show significant differences in the muscle and NMJ organization compared to those in control conditions devoid of EDTA. Muscles were longitudinally sectioned (25 μm) with a Leica CM3050S cryostat, mounted on glass slides, fixed in 2% PFA for 30 min at room temperature, washed in PBST, then in PBS, incubated in 1:250 in PBS tetramethylrhodamine 554-α-bungarotoxin-conjugate for 3 h, rinsed in PBS, and mounted using Dako mounting medium. The preparation was imaged using an Olympus FV1200 spectral laser scanning confocal microscope, an UPLSAPO20X NA: 0.75 objective, and Olympus MetaMorph software, at 2 μs/pixel, and 0.31 μm/pixel.
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7

Immunofluorescence Assay of DENV2, ZIKV, and VacDZ

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Immunofluorescence assay was performed in BHK-21 cells that were plated on glass slides. The cells were infected with DENV2-16681, ZIKV or VacDZ and then incubated in a 37 °C incubator with 5% CO2. Two days after infection, the cells were fixed and permeabilised with methanol at -20 °C. For immunofluorescence staining, the primary antibodies were mouse monoclonal anti-DENV/ZIKV NS1 protein (DN2, Abcam) at a dilution of 1:10, and rabbit monoclonal anti-ZIKV envelope protein (Ab00812-23.0, Absolute antibody) at a dilution of 1:200. Although DN2 is described as an anti-DENV NS1 protein antibody, we have found that it is cross reactive with ZIKV as well (Supplementary Figure 3). Secondary antibodies were FITC-conjugated goat anti-rabbit IgG (H + L) (F-2765, Thermo Fisher Scientific) at a dilution of 1:500 and Alexa 594-conjugated goat anti-mouse IgG (H + L) (A-11005, Thermo Fisher Scientific) at a dilution of 1:500. The slides were then mounted on microscope slides using Fluoroshield with DAPI (Sigma-Aldrich). Images were taken with an Olympus IX81 fluorescence microscope equipped with a UPlanApo 100x microscope objective lens (numerical aperture 1.35, Olympus) and Photometrics CoolSnap HQ CCD camera. Image acquisition was performed with MetaMorph software for Olympus.
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8

Histological Analysis of Iron Deposition and Oxidative Stress in Mouse Hearts

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Mouse hearts were removed and arrested in diastole by using 1 mol/L KCl, fixed with 10% buffered formalin, and embedded in paraffin. Thin sections (5 μm) were used for Prussian blue, picro‐sirius red (PSR), and Masson trichrome staining as described previously.30, 38 Briefly, tissue sections were deparaffinized in xylene and alcohol grades, rehydrated in water, and subjected to staining as described previously.30 The deposition of iron was visualized as blue depositions using bright‐field microscopy. Myocardial collagen content was evaluated by using PSR staining and visualization using an Olympus IX81 microscope and image analysis using MetaMorph software (Molecular Devices, Sunnyvale, CA) as described previously.30, 35, 38 4‐Hydroxynonenal (4‐HNE) immunofluorescence detected an important marker of iron‐induced lipid peroxidation as previously described.30 We also performed dihydroethidium (DHE) and dichlorodihydrofluorescein (DCF) fluorescence staining as described previously,19, 35 which were visualized using an Olympus IX81 fluorescent microscope and quantified using the MetaMorph software.
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9

Immunofluorescence Staining and Quantification

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Immunofluorescence staining was performed as previously described.8 (link) Images were acquired and, if indicated, quantified from N>100 cells per group, using an Olympus fluorescence microscope and MetaMorph software.
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10

Morphological Analysis of Insect VNC

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For morphological analysis of the VNC, wandering third instar larvae were imaged using a Zeiss SteREO Discovery.V12 or a Zeiss Axio Zoom.V16 microscope, and their length was measured using Zeiss Zen software. The brain and VNC were dissected in 1x PBS and imaged on a Zeiss AxioImager.M2 or Olympus DSU spinning disc microscope, and the length of the VNC was measured using Zeiss Zen or Olympus Metamorph software, respectively. The length of the VNC relative to body length was calculated for each sample, as previously described, given that VNC length has been demonstrated to scale with overall body length in other insects [32 , 33 (link)]. All data was analyzed using GraphPad Prism 7 by one-way ANOVA with post-hoc Tukey test to assess statistical significance.
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