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15 protocols using 80i epifluorescence microscope

1

Immunophenotyping of Porcine Stem Cells

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In addition, cells at passage 3 were immunophenotyped (Fig. 1) and stained for CD44 (Stem Cell Technologies), CD90 (Stem Cell Technologies), and CD105 (Novusbio). Primary antibodies were known to cross react with pig antigen and were detected with fluorescently tagged secondary antibodies, Alexafluor 488 anti-rat IgG (Life Technologies), Alexafluor 488 anti-mouse IgG (Life Technologies), and Alexafluor 594 anti-mouse Fab fragment (Cell Signaling). Images were captured using a Nikon 80i Epifluorescence microscope (Nikon) and a RTcmos camera (SPOT Imaging).
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2

In Vivo Evaluation of Mn-ZnO2 Nanoparticle Therapy

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In order to evaluate the in vivo therapeutic effect of Mn-ZnO2 NPs, MDA-MB-231 tumor-bearing mice were stochastically divided into four groups (n = 5): (1) saline, (2) Zn2+ plus Mn2+ (with 1.21 mg/mL ZnCl2 and 0.25 mg/mL MnCl2, 100 μL), (3) ZnO2 (1 mg/mL, 100 μL), and (4) Mn-ZnO2 (1 mg/mL, 100 μL). During the therapeutic treatment, the mice received various treatments via i.v. Injection every 2 days (a total of 8 injections received for the entire treatment period). The body weight and tumor volume were also recorded every 2 days up to 16 days. The tumor volume was calculated according to the following formula: tumor volume = length × width2/2. By the time of sacrificing, the tumors and all major organs were collected and processed for histological analysis upon hematoxylin & eosin (H&E) staining of their cross-sections. The ROS level in tumor tissues was assessed by staining the tissue cross-sections with dihydroethidium (DHE) (20 mM, Invitrogen) and then examining with the Nikon 80i epi-fluorescence microscope. The obtained fluorescence images of randomly selected fields (n = 5) were analyzed for fluorescence intensity using the NIH ImageJ software (1.46r).
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3

TUNEL Assay for Apoptosis Quantification

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At 48 h after the last administration, tumors with various treatments were performed for TUNEL assay (One Step TUNEL Apoptosis Assay Kit, C1088, Beyotime). Briefly, 4-μm thick paraffin sections of the resected tumors were dewaxed in xylene and rehydrated with graded ethanol solutions prior to the treatment with proteinase K for 30 min at 37 °C. Then, the sections were washed with PBS for three times and then incubated with the TUNEL reaction mixture for 60 min at 37 °C in a humidified chamber. After rinsing with PBS, the sections were stained with DAPI for nuclei, and then examined under the Nikon 80i epi-fluorescence microscope.
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4

Immunofluorescence Staining of Mouse Kidneys

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Fixation of mouse kidneys, preparation of cryostat sections, antigen retrieval, permeabilization and incubation with antibodies were performed as described elsewhere34 (link)47 (link)48 (link). Affinity-purified rabbit polyclonal antibodies were used at the following dilutions: anti-DMXL1 (1:10), anti-DMXL2 (1:20), anti-NCOA7 (1:100), anti-OXR1 (1:50) and anti-WDR7 (1:50). The affinity-purified chicken polyclonal anti-ATP6V1A antibody was used at 1:800. Secondary Cy3-conjugated donkey anti-rabbit IgG (Jackson ImmunoResearch Laboratories, West Grove, PA) and Alexa Fluor® 594-conjugated goat anti-rabbit IgG (Life Technologies/Thermo Fisher Scientific) antibodies were used at 1:800, an FITC-conjugated donkey anti-chicken IgY antibody (Jackson ImmunoResearch) at 1:60 and an Alexa Fluor® 488-conjugated donkey anti-chicken IgY antibody (Jackson ImmunoResearch) at 1:200. Images were obtained using a Nikon 80i epifluorescence microscope (Nikon Instruments, Melville, NY) equipped with an Orca 100 CCD camera (Hamamatsu, Bridgewater, NJ).
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5

Fluorescence Microscopy of Nanofiber-Cultured Cells

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Fibroblasts (passage 2, 1×105 cells/mL) or keratinocytes (passage 2, 4×105 cells/mL) were seeded onto electrospun nanofibers collected on coverslips. After 24-h culture, cells were washed with phosphate buffered saline (PBS) and fixed in 3.7 % formaldehyde/PBS for 5 min, then washed extensively in PBS. For overview of the cell distribution and morphology, fixed culture was stained with 0.1% methylene blue and then examined under the Nikon stereomicroscope (SMZ 1500). For immunostaining, fixed cells were dehydrated with ethanol for 5 min, permeabilized with 0.1% Triton X-100 in PBS, and washed in PBS. Cells were stained with TRITC conjugated phalloidin (Sigma) for 40 min, and then washed with PBS to remove unbound phalloidin conjugate. Then one drop of Vectashield mounting medium with DAPI was dispensed onto the coverslip. Cells were viewed at ex360nm/em460nm (DAPI) and ex540nm/em570nm (TRITC) using the Nikon 80i epifluorescence microscope (Nikon Microphot FXA, Melville, NY).
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6

Quantifying TG2 Crosslinks and Fibronectin Colocalization

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TG2 (mouse monoclonal T100, 1:250; ThermoFisher) and TG2 crosslinks (Nε‐γ‐glutamyl lysine antibody) were examined by immunohistochemistry in the TMA as previously described.18, 45 TMAJ software was used to quantify the staining. TG2–fibronectin interaction was examined by immunofluorescence staining. After being incubated with TG2 (mouse monoclonal) and fibronectin (rabbit polyclonal) primary antibodies, the samples were stained with FITC‐conjugated mouse secondary and Cy3‐conjugated rabbit secondary antibodies. Nuclei were stained with DAPI. Each sample was imaged at ×20 and ×40 magnification on a Nikon 80i Epifluorescence microscope equipped with a CoolSnap HQ2 camera. A pathologist at the Johns Hopkins University School of Medicine scored fibronectin expression (scale: none=0, high=5) and TG2‐fibronectin colocalization (no=0, rare=0.5, high=1).
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7

Targeting Tumor Cells with HA-Modified AuNFs

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MDA-MB-231 tumor cells and HUVECs were used as model cells to determine the tumor-targeting capability of HA-modified AuNFs. Respective cells (5 × 105 cells per well) were cultured in Dulbecco’s modified Eagle’s medium (DMEM) or RPMI-1640 media with 10% fetal bovine serum and 1% streptomycin/penicillin for 24 h. The cells were rinsed with PBS and incubated with HA-4-ATP-AuNFs-DOX (100 μg mL−1) for 4 h. To verify the specificity of HA binding to CD44, a separate study was also performed to incubate the cells with free HA (2 mg mL−1) for 1 h prior to the incubation with HA-4-ATP-AuNFs-DOX. Upon further rinsing with PBS, the culture was fixed with paraformaldehyde solution (4%) and observed with a Nikon 80i epifluorescence microscope.
To identify intracellular distribution of AuNFs in tumor cells, MDA-MB-231 cells were seeded into 6-well plates (1 × 106 cells per well) and incubated with HA-4-ATP-AuNFs (100 μg mL−1) for 4 h. Upon rinse with PBS to remove excessive nanoparticles, the cells were trypsinized, washed with PBS, and centrifuged to obtain cell pellets. The pellets were fixed with 2.5% glutaraldehyde for 24 h. Afterward, the pellets were postfixed with osmium tetroxide for 1 h and then rinsed with distilled water. After dehydration in a series of graded ethanol, the pellets were embedded in epoxy for 24 h, and then cut into thin sections (60 nm) for TEM examination.
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8

Optic Nerve Imaging Pipeline

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Optic nerves from different experiments (sections and whole mount) were imaged using a spinning disc confocal microscope (Zeiss) with Velocity software (Perkin Elmer). 20x objective was used to image stacks of all the optic nerves with 20% of overlap between each image. The motorized stage enables the automation of the imaging procedure. All the images were then stitched together using the Velocity software and z-projected to maximal intensity for quantification. Whole mount retinas were imaged with Nikon 80i epifluorescence microscope with 20x objective. At least 8 random fields were imaged per retina.
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9

Intracellular Zinc and Manganese Quantification

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ZnAF-2 DA as a cell-permeable fluorescent probe for Zn2+ was used to detect the intracellular Zn2+ level. After incubation with Zn2+ or Mn-ZnO2 NPs for 4 h, the MDA-MB-231 cells were stained with Zn2+ dye (5 μM) and 4′,6-diamidino-2-phenylindole (DAPI) successively. Then, the fluorescence images were collected with the Nikon 80i epi-fluorescence microscope at Ex/Em = 488/530 nm for Zn2+ dye, and Ex/Em = 360/460 nm for DAPI.
To quantitatively detect the intracellular Mn2+ and Zn2+ level, MDA-MB-231 cells incubated with Mn-ZnO2 NPs for 4 h were digested and treated with aqua regia. Quantitative analysis of Zn and Mn element was carried out by ICP-MS. The contents of Zn and Mn in the cells was calculated as nanogram per 1000 cells.
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10

Intravital Imaging of Microvascular Dynamics

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The glass window in chamber A remained above skin level and was therefore freely accessible for frequent imaging without the need for surgical intervention. On the other hand, chamber B was installed under the skin. Therefore, minimally invasive surgical exposure of the chamber was necessary.
Before imaging, the animal was once again anesthetized using isoflurane with oxygen. For staining the blood plasma, the animal was injected with a 5% solution of FITC-labeled dextran (0.5 mL, Sigma-Aldrich, Burlington, MA, USA; MW 500,000) into the tail vein. To examine leukocyte recruitment, a 0.1 wt.% solution of Rhodamine 6 G (0.6–1.0 mL, Sigma-Aldrich, Burlington, MA, USA) dye was injected.
The glass window was carefully cleaned with Q-tips (Lohmann & Rauscher, Rengsdorf, Germany), and then the animal was positioned under the microscope with continuous anesthesia. For intravital imaging, a modified upright Nikon 80i epifluorescence microscope (Nikon, Tokyo, Japan) with an X-Cite 120 mercury light source (Olympus, Tokyo, Japan) was used. Intravital images were gained from each region of interest (ROI) containing microvascular sprouting.
In the case of chamber B, surgical closure of the skin after imaging was required. After completion of the imaging process, the animal was kept on a heated surface until it regained consciousness.
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