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Epifluorescence microscopy

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Epifluorescence microscopy is a technique that allows for the visualization of fluorescently labeled specimens. It utilizes an illumination system that directs light onto the sample, causing the fluorescent molecules to emit light, which is then detected and captured by the microscope's optics and camera system.

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18 protocols using epifluorescence microscopy

1

Measurement of Oxidative Stress Markers

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Cells were seeded in 6-well plates (70% confluency) and drugs were added and incubated for 8 h on the following day. Hydrogen peroxide and anion superoxide levels were respectively determined using2ʹ,7ʹ-dichlorofluorescin diacetate (DCFDA) or dihydroethidium (DHE) at a final concentration of 10 mM (diluted in Krebs-Ringer phosphate buffer). Cells were incubated for 30 min in the dark at 37°C and under 5% CO2. After 30 min, the cells were washed twice in fresh Krebs-Ringer phosphate buffer. Finally, the cellular fluorescence signal was recorded using epifluorescence microscopy (Olympus Corporation, Japan) at a wavelength of 500 nm (excitation), and 580 nm emission for DCFDA, or 495/525 nm for DHE. Signals were quantified using ImageJ.
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2

Measuring Intracellular ROS in Oocytes and Embryos

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Intracellular ROS activity in oocytes and embryos was measured by a 2,7-dichlorofluorescene assay, as previously described (Gupta et al., 2010 (link)). In brief, oocytes and embryos were incubated with 100 μM 2,7-dichlorodihydrofluorescein diacetate (DCHFDA) for 20 min at 38.8°C, washed three times in PZM-5 to remove excess dye, and immediately analyzed by epifluorescence microscopy (Olympus, Tokyo, Japan) using excitation and emission wavelengths of 450 to 490 nm and 515 to 565 nm, respectively. Gray scale images were acquired with a digital camera (Nikon, Tokyo, Japan) attached to the microscope, and mean gray values were measured with Image J software (NIH, Bethesda, MD, USA). Background fluorescent values were subtracted from the final values before statistical analysis. The experiment was repeated four independent times with each experiment consisting of 25 to 30 oocytes.
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3

Immunofluorescent Staining of Tracheal Grafts

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Tracheal grafts were removed and frozen as described in the morphometric analysis above. Five-micrometer cryostat sections were fixed on slides with acetone for 10 minutes. Before application of the detecting antibody, slides were rehydrated in staining buffer (1 × TBS and 0.05% Tween 20%). After that, a preincubation step with heat-inactivated serum was performed to minimize unspecific antibody binding before applying the fluorescein isothiocyanate-conjugated antibody CD31 (BD Bioscience, Heidelberg, Germany) to illustrate vessels by flagging endothelial cells or the anti-inducible nitric oxide synthase (iNOS) antibody as a marker for endothelial injury (Abcam, Berlin, Germany). The slides were mounted with Vectashield HardSet Mounting medium. Pictures were done with epifluorescence microscopy (Olympus, Germany) at ×100 magnification.
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4

Evaluating Anti-amoebic Activity of E. histolytica

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Trophozoites of E. histolytica (5×103 ml−1) were mixed with 5 µl of the active sub-fractions to obtain final concentrations of EC50. The microtiter plate was introduced in Genbag anaer and then incubated at 37°C for 12, 24 and 48 hours and cell viability was evaluated as above described. The same assay was carried out on 8-wells Chamber Slide System (Brumath, France), the chamber was introduced in a Genbag anaer for 12 hours and the morphology of amoebae was examined using indirect immunofluorescence assay. Briefly, amoebae cells were fixed with 500 µl of formaldehyde 3.7% (Thermo scientific, Waltham-MA, USA) for 30 minutes, washed with 500 µl of 3% BSA in PBS and then incubated for 30 minutes at 37°C. The primary antibody Gal/GalNAc lectin (1∶100 diluted in 1% BSA-PBS) was added and the plates incubated for one hour at 37°C in humidified atmosphere. The plates were washed twice with 1% BSA-PBS. The secondary antibody Alexa Fluor 546 goat anti-rabbit IgG (1∶200 diluted in 1% BSA-PBS) was added and incubated for 45 minutes at 37°C. At the end of the experiment, the plates are washed thrice with PBS and the mounting medium Vectashield with nuclear stain DAPI (Vector-ABCYS) was used. For every assay, DMSO is used as negative control. The cells were observed by epifluorescence microscopy (Olympus).
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5

Immunofluorescence Staining of Colon Cancer Cells

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Colon cancer cells and PMA-pretreated THP1 cells were placed on a glass slide and fixed with 5% paraformaldehyde when the cells reached 60–70% confluence. Blocked the cells with 5% donkey serum for 1 h and incubated with the primary antibody overnight at 4 ℃. The antibodies used for the IF assay were listed in Supplementary Table S 4. The next day, the cells were incubated with the corresponding CY3 secondary antibody (Jackson Immunology Research, Erie, UK) at 37℃for 1 h. After counterstaining the nuclei with DAPI (Sigma, St. Louis, Missouri, USA) for 15 min, the fluorescence images were captured by epifluorescence microscopy (Olympus, Tokyo, Japan).(The details are listed in Supplementary Table 4).
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6

Immunohistochemical Analysis of Aortic Grafts

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Aortic grafts were removed and frozen as described in the morphometric analysis above. Seven-micron cryostat sections were placed on slides and fixed in acetone for 10 minutes. Before application of the detecting antibodies, slides were rehydrated in staining buffer (1× Tris-buffered saline and 0.05% Tween 20%). After that, standard protocols involve preincubation with heat-inactivated serum to minimize unspecific antibody binding before applying the primary and secondary antibody. All staining variations involved the detection of endothelial cells with CD31-FITC. Some protocols contained an additional permeabilization procedure with 0, 1% Triton X-100 before overnight incubation with the primary antibody to receive the best results (PDGFRα, VEGFR2, and FGFR2). All steps were conducted in a humidified chamber at room temperature. The slides were mounted with Vectashield Hard Set Mounting medium. Analysis was done with epifluorescence microscopy (Olympus, Germany). Quantification of the intragraft cellular infiltrate on day 30 after transplantation was performed with computerized image analysis using cellSens software and an original magnification of 100×.
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7

Immunocytochemical Labeling of Fixed Cells

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Fixed cells on coverslips were, sequentially, permeabilised in phosphate buffered saline (PBS; 137 mM NaCl, 5.4 mM KCl, 1.28 mM NaH2PO4, 7 mM Na2HPO4; pH 7.4) containing 0.1% (v/v) Triton X-100 (PBS-T) for 15 minutes, further washed in PBS and then blocked in horse serum (3.3%, v/v in PBS; PBS-HS). Antibodies used for cell label-ling (Table 1) were diluted as appropriate in PBS-HS and applied to individual coverslips overnight at room temper-ature. Detection of labels is described in detail in the Supporting Information and was as described previously. 33 Labelled cells were examined with epifluorescence micros-copy (Olympus Australia Pty Ltd, Edwardstown, South Australia). Photography was undertaken with a DP73 camera attachment (Olympus Australia Pty Ltd).
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8

Tyrosine Hydroxylase Identification in Neurobiotin-Labeled Neurons

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Patched neurons backfilled with 0.3% neurobiotin (Vector Laboratories, Burlingame, CA) were probed for tyrosine hydroxylase (TH) immunohistochemical labeling. Slices containing backfilled neurons were fixed in 10% neutral formalin phosphate buffer for 12–24 hours. Then, slices were incubated in blocking solution containing 3% normal goat serum and 0.3% triton X-100 for 2 hours prior to overnight incubation in primary rabbit anti-TH (1:100; AB152; Millipore, Burlington, MA) at 4°C. The secondary antibodies goat anti-rabbit AlexaFluor488 (1:1000, ThermoFisher, Waltham, MA) and AMCA-conjugated streptavidin (1:1000, Jackson ImmunoResearch, West Grove, PA) were used to image slices via epifluorescence microscopy (Olympus, Center Valley, PA).
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9

Alkaline Comet Assay for DNA Crosslink

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Alkaline comet assays were performed to assess intra-strand and inter-strand crosslink formation using a Comet assay kit (cat. no. ab238544; Abcam) according to the manufacturer's protocol. Briefly, A549 cells stably overexpressing RBM24 and A549/CDDP cells stably overexpressing miR-383 were treated with their IC50 doses of cisplatin for 6 h. Then, cells were trypsinized and resuspended at 1×105 cells/ml in ice-cold PBS (Mg2+ and Ca2+ free). Cell samples were combined with comet agarose and 75 μl of each sample was added onto the comet slide. After solidification, the slide was immersed in the pre-chilled lysis buffer for 1 h at 4°C and pre-chilled alkaline solution for a further 1 h at 4°C. Next, the slides were electrophoresed in TBE buffer for 30 min at 60 V at 4°C. After soaking in the pre-chilled DI H2O three times (2 min/each), the slides were immersed in cold 70% ethanol for 5 min. Subsequently, they were air dried, and 100 μl/well diluted Vista Green DNA Dye was added and incubated at room temperature for 15 min. Epifluorescence microscopy (magnification, ×200; Olympus Corporation) with a FITC filter was used to capture images of the cells, and the mean tail moment was calculated using Comet Score version 1.5 (TriTeK Corp.).
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10

ROS and GSH Levels in Oocytes

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Dichlorohydrofluorescein diacetate (DCFHDA) and CellTracker Blue 4-chloromethyl-6,8-difluoro-7-hydroxy-coumarin (CMF2HC) were used to determine the intracellular levels of ROS and GSH, respectively, as previously described [10 (link),11 (link)] with slight modifications. Briefly, cumulus cells were removed from COCs by pipetting in the presence of 0.1% (w/v) hyaluronidase. Denuded oocytes were incubated in DPBS containing 50 μM DCFHDA or 100 μM CMF2HC in the dark for 20 min at 38.8°C. Thereafter, oocytes were washed more than five times with DPBS containing 0.1% (w/v) BSA to completely remove excess dye and immediately analyzed by epifluorescence microscopy (Olympus, Tokyo, Japan). The ROS level was measured using excitation and emission wavelengths of 450 to 490 nm and 515 to 565 nm, respectively. The excitation and emission wavelengths of CMF2HC are 371 and 464 nm, respectively. Grayscale images were acquired with a digital camera (Nikon, Tokyo, Japan) attached to the microscope, and mean grayscale values were calculated using ImageJ software (NIH, Bethesda, MD, USA). Background fluorescence values were subtracted from the final values before statistical analysis. Each experiment was independently repeated 6 to 7 times, with 20 to 30 oocytes per experiment.
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