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17 protocols using diaphot 200 microscope

1

Immunostaining Analysis of Muscle Fiber Cross-Sectional Area

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Immunostaining was performed on frozen EDL cryosections. Sections were incubated overnight with a polyclonal anti-laminin antibody (Sigma, St. Louis, MO) in order to label muscle fiber perimeters for measurement of fiber cross-sectional area. Skeletal muscle cross-sections were imaged at 10x magnification using a Spot RT Color Camera System mounted on an inverted Nikon Diaphot 200 microscope (Nikon Instruments Inc, Melville, NY), 3 images per Section, 3 sections per animals were analyzed. Prior to analysis, each image was inspected for sectioning artifacts, blood vessels, or poor image quality, and any sections that were not acceptable were omitted from the analysis. Muscle fiber cross-sectional area was measured with an automated, custom-written macro in ImageJ (NIH, Bethesda, MD), provided by Drs. Rick Lieber and Samuel Ward [19] (link).
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2

Histological Assessment of Skeletal Muscle

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Immunostaining was performed on frozen cryostat sections of EDL. Hematoxylin and eosin (H & E) staining was performed as previously published [20 (link)]. Further, the sections were incubated for 30 minutes with succinate dehydrogenase (SDH, 0.4g sodium succinate, 0.04g NBT, 0.001mg phenazine methosulfate) in 0.1M Tris buffer at 37°C, then extracted with 30–90% acetone and rinsed with dH2O. Muscle fibrosis was also assessed in the frozen sections by Picrosirius red staining as previously described [18 (link)]. 10x images were taken using a Spot RT Color Camera System mounted on an inverted Nikon Diaphot 200 microscope (Nikon Instruments Inc, Melville, NY), 3 images per section, 3 sections per animals were analyzed. Thresholding was performed using Metamorph software (Molecular Devices, Sunnyvale, CA) and average intensity was reported.
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3

Calcium Imaging of Mature Neurons

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Mature neurons seeded onto 18 mm glass coverslips were loaded for 30 min at 37 °C with the cell permeant calcium sensitive dye Fura-2 acetoxymethyl ester (Fura-2 AM), dissolved in Locke’s buffer at a final concentration of 2.5 μM [33 (link)]. After incubation, loaded cells were washed three times with cold Locke’s buffer. Cytosolic calcium was measured with a Nikon Diaphot 200 microscope with epifluorescence optics (Nikon 40×-immersion UV-Fluor objective, (Izasa Scientific S.L.U., Barcelona, Spain)) and fluorescence equipment Lambda-DG4 (Sutter Instruments, Izasa Scientific S.L.U., Barcelona, Spain ). The light source was a xenon arc bulb and the excitation wavelengths were selected with filters. Excitation wavelengths were 340 and 380 nm, and the emission was collected at 510 nm [46 (link)]. Data were analyzed with the Metafluor software (version 7.1, Molecular Devices, LLC, Sunnyvale, CA, USA) and expressed as the 340/380 fluorescence ratio. In all the cases, each individual experiment represents the mean of the cells from duplicate coverslips and data were obtained from at least three independent cultures.
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4

In Vitro Scratch Assay for Cell Migration

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The in vitro scratch assay was performed on LNCaP cells stably transfected with the control pcDNA3.1(+) vector or vector containing GPD2 (untagged form) according to [34 (link)]. Cells were seeded at the density of 3 × 106 cells/well in 6-well plate and maintained in the cell culture medium. The plates were kept in 5% CO2 atmosphere at 37 °C for 24 h to form a monolayer. A scratch was created by scraping a straight line using a 10 µL pipet tip. Cells were once washed with 1 mL of culture medium to remove debris and images were acquired at 0 and 24 h using a Nikon Diaphot 200 microscope, objective 10× (Nikon, Tokyo, Japan). To obtain the same field during image acquisition, the markings were created close to the scratch using an ultrafine marker.
The wound area was measured using ImageJ software following the protocol described by [35 (link)]. The rate of cell migration was calculated based on the change in % area covered with cells between time 0 and 24 h.
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5

DNA Damage Repair Imaging Protocol

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Cells were either directly fixed in 4% paraformaldehyde or ice cold 100% methanol or Triton extracted (0.1% Triton X-100 for 5 min) before fixation. Specimens were incubated with primary antibody followed by Alexa Fluor 488- or 568-conjugated secondary antibody. Nuclei were counterstained with DAPI or Hoechst 33342. The staining of DNA double strand break repair markers, including γ-H2AX, NBS1 and KU80 was performed using a ribonuclease-based extraction protocol60 (link). Cells were visualized using a Bio-Rad MRC 1024 laser scanning confocal microscope attached to a Nikon Diaphot 200 microscope. Images were recorded at 600X magnification.
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6

Multimodal Microscopy Imaging Protocol

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All immunofluorescence images were recorded at 20–120× magnification and conventional images were recorded at 40–60× magnification. FRET images were acquired using a 60×/WI 1.2 NA Plan-Apo objective. Immunofluorescence and FRET images were acquired using an Olympus IX81 epifluorescence microscope with Spot color CCD camera, Nikon TE2000-U inverted microscope, Bio-Rad MRC 1024 laser-scanning confocal microscope attached to a Nikon Diaphot 200 microscope, and a spinning-disk/ total internal reflection fluorescence (TIRF) microscope setup with Andor’s iXon3 EMCCD camera with the Yokogawa CSU-X1 confocal scanner, a Nikon TIRF illuminator, and a MOSAIC module for fluorescence recovery after photobleaching (FRAP) and photoactivation on a motorized Nikon Ti-E inverted microscope base. Where immunofluorescence intensity was quantified, images were taken using identical image-acquisition parameters and were immunostained using the same primary and secondary antibody solutions. Images were imported into ImageJ (NIH), and positive signal was thresholded to secondary-only controls. The thresholded images are quantified from positive signal and presented as mean pixel density per group of samples.
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7

Patch-Clamp Electrophysiology for Cell Lines

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Shortly before each experiment, cells (i.e., GH3 or INS-1 cells) were dissociated and a few drops of cell suspension was transferred to a home-made chamber mounted on the fixed stage of an inverted Diaphot-200 microscope (Nikon, Tokyo, Japan). They were immersed at room temperature (20–25 °C) in normal Tyrode’s solution, the composition of which is described above. We fabricated the recording electrode from Kimax-51 glass capillaries (#34500; Kimble, Vineland, NJ) using a PP-830 vertical puller (Narishige, Tokyo, Japan) in which a two-step pull mechanism was applied, and their tips were fire-polished with a microforge (MF-83, Narishige). During the measurements, the electrode with tip resistance ranging from 3 to 5 MΩ, which was firmly inserted into holder, was maneuvered by use of a WR-98 micromanipulator (Narishige). Patch-clamp experiments operated under voltage- or clamp-clamp mode were carried out by using an RK-400 patch-clamp amplifier (Bio-Logic, Claix, France) connected with a personal computer [43 (link)]. Shortly before giga-seal formation was achieved, the potentials were commonly corrected for the liquid junction potential that generally developed at the pipette tip, as the composition of internal solution was different from that in the bath.
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8

Brightfield Imaging of Fixed Spleen Tissue

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Fixed spleen tissues were also used for brightfield imaging. Large slices (~2 mm x 3 mm by x 0.5 mm) of tissue were cut with a microsurgical scalpel and placed on glass slides. Specimens were imaged with a Diaphot-200 microscope (Nikon, Inc.) using a 4x objective lens in brightfield mode. Images were recorded digitally.
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9

Fluorescent Imaging of Cellular Structures

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Fluorescent images of the RINm-5F cells were acquired with a Nipkow spinning disk confocal system (Yokogawa CSU-10; Yokogawa Electric Corporation, Tokyo, Japan) attached to a Diaphot 200 microscope (Nikon, Kanagawa, Japan) and equipped with a 60×1.40/NA oil immersion objective (Nikon). Fluorescence was excited at 488 nm with argon ion laser (Melles-Griot, Didam, The Netherlands) and detected at 520/35 nm using cooled EM-CCD camera (iXon+ DU888; Andor, Belfast, Northern Ireland, UK) under MetaFluor software control (Molecular Devices Corp., Downingtown, PA).
Images of the human caudate nucleus were acquired by an Olympus FV1000 confocal laser scanning microscope (Olympus) equipped with a 20×/0.95W XLUMPlanFI objective. Emission spectra for each dye were limited as follows: Hoechst (361–497 nm) and Cy5 (630–647 nm). For co-localization analysis of PDYN and Hoechst z-stacks of 24 images were acquired with a depth interval of 0.5 µm. The open source platform Image J (NIH, MD) was used for 3D projections and orthogonal co-localization analysis.
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10

Cell Culture Protocols for Diverse Cell Lines

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HeLa S3 cells adapted to adherent culture were maintained in DMEM (4.5 g/L glucose) supplemented with 10% fetal bovine serum (FBS), 2 mM L-glutamine, and 0.37% sodium bicarbonate at 37 °C in 5% CO2. HeLa Tet-Off Advanced cells (Clontech) were maintained in DMEM supplemented with 10% Tetracycline-free FBS (Clontech), 2 mM L-glutamine, 0.37% sodium bicarbonate, and 100 μg/mL G418 to maintain expression of the transactivator.
Induced Pluripotent Stem (iPS) cells (System Biosciences Cat # SC101A-iPSC, Lot # 110415-01) were cultured on Matrigel (BD Biosciences) in mTesR1 media (STEMCELL Technologies) at 37 °C in 5% CO2. Human foreskin fibroblasts (HFFs; System Biosciences Cat # SC101A-HFF, Lot # 110509) were maintained in DMEM (4.5 g/L glucose) supplemented with 2 mM L-glutamine, 0.1 mM non-essential amino acids, and 10% FBS at 37 °C, 5% CO2.
HeLa Tet-Off Advanced cells were transfected with reporter plasmids using jetPRIME (Polyplus) prior to allowing them to adhere to the dish. A ratio of 3 µL reagent to 1 µg of plasmid was employed according to the manufacturer’s recommendations. Cells were harvested 24–48 hr after transfection. Transfections were evaluated for ZsGreen expression using a Nikon Diaphot 200 microscope with a GFP-B filter cube (Nikon). Transfection efficiency was generally >70% at ~48 hours post transfection.
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