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Antifade reagent containing dapi

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Antifade reagent containing DAPI is a solution designed to preserve the fluorescence of labeled samples during microscopic observation. The reagent contains the DNA-binding dye 4',6-diamidino-2-phenylindole (DAPI), which emits blue fluorescence when bound to DNA. This product is used to reduce photobleaching and maintain the intensity of fluorescent signals in microscopy applications.

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11 protocols using antifade reagent containing dapi

1

Indirect Immunofluorescence Assay for AQP4 Detection

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Cell-based indirect immunofluorescence assay was performed as described previously with modifications (31 (link)). Human embryonic kidney (HEK) 293 cells (ATCC) were seeded onto 8-well chamber slides at 10,000 cells per well and cultured in DMEM in 5% CO2 at 37°C. They were transfected with pAQP4 using Lipofectamine 3000 (Invitrogen) according to the manufacturer’s instructions. Cells were fixed with 4% paraformaldehyde, washed with PBS, and blocked with 1% BSA in PBS. Sera of mice were diluted at 1:10 with PBS containing 1% BSA. Commercially available rabbit anti–mouse AQP4 antibody (catalog A5971, Sigma-Aldrich) was diluted at 1:500 and used as positive control. To remove nonspecific antibodies, diluted sera were incubated with rat liver powder at room temperature for 1 hour and then centrifuged at 16,900g for 15 minutes. Next, 100 μL of the diluted sera were added to each well and incubated at 4°C overnight. After washing with PBS, cells were incubated with either Alexa Fluor 488–conjugated anti-mouse IgG (for samples) (catalog A21202) or anti-rabbit IgG (for positive control) (catalog A11070) secondary antibody (all from Thermo Fisher Scientific) at room temperature for 1 hour. Cells were coverslipped with antifade reagent containing DAPI (Thermo Fisher Scientific).
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2

Sialic Acid Receptor Visualization

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For sialic acid staining, 16HBE14o- or MDCK cells were seeded onto coverslips in 24-well culture plates at a density of 1×105 cells/well and 1x104 cells/well, respectively. Two days after seeding, the culture medium was removed and cells were washed twice with cold PBS and fixed with 4% paraformaldehyde for 20 min. Subsequently, cells were washed 3 times with PBS and incubated in PBS containing 10 μg/ml MAL I (Maackia amurensis lectin), for α-2,3 sialic acid receptor, or SNA (Sambucus nigra lectin), for α-2,6 sialic acid receptor, for 1 hr. Cells were then rinsed 3 times with PBS before the coverslips were mounted in antifade reagent containing DAPI (Thermo Fisher Scientific) to stain the nuclei. A negative control was obtained by incubating cells with PBS in the absence of primary antibody. Fluorescent imaging was performed by confocal laser-scanning microscope (FV1000; Olympus). Cells were excited at 358 and 495 nm and emission detected at 461 and 515 nm to evaluate DAPI and FITC fluorescence, respectively. To remove sialic acid receptors from the cell surface, cells were treated with 1 U/ml α-2,3 sialidase for 1 hr at 37°C prior to sialic acid staining.
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3

Immunofluorescent Staining of Airway Cells

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The left lobes were inflated with 4% paraformaldehyde at 25 cm H2O pressure. Paraffin-embedded tissue sections (5 μm) were then prepared and the sections were evenly divided into three groups. Sections were stained with hematoxylin and eosin (H&E) or stained with Alcian blue and PAS (AB-PAS).
For immunofluorescence staining, paraffin-embedded sections were dewaxed through xylene (2 changes) and rehydrated through descending alcohol (100%-95%-80%-70%) to deionized H2O. Antigen recovery was performed by using pre-heated Na-Citrate buffer (10 mM, pH 6.0) for 10 min in the microwave. Sections were blocked in blocking buffer (3% BSA, 0.3% Triton X-100 in PBS) at room temperature for 1 h. Sections were incubated with primary antibody at 4 °C overnight, incubated with secondary antibody at room temperature for 1 h. Cover slips were mounted on stained sections with anti-fade reagent containing DAPI (Invitrogen, USA). The primary antibody used was Anti-Clara cell secretory protein (CCSP also known as CC10 OR CC16) (1:2000 dilution, 07-623, EMD Millipore), monoclonal anti-acetylated tubulin (1:10,000 dilution, T7451, Sigma), and monoclonal anti-α smooth muscle actin (1:400 dilution, A 2547, Sigma). The secondary antibody used was Alexa Fluor labeled goat anti-rabbit antibody, goat anti-mouse antibody (1:200 dilution, A-11008, A-11005, Thermo Fisher, USA).
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4

Oocyte Immunostaining and Quantification

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After IVG, oocytes denuded from OGCs were fixed in 4% paraformaldehyde. Immunostaining was conducted as a described previously.14 The primary antibodies used were polyclonal anti‐H4K12 (1:200; Novus International Saint Charles, MO, USA); secondary antibodies were anti‐rabbit IgG Alexa Fluor 555 (1:500; Cell Signaling Technology Inc, Danvers, MA). Oocytes were mounted on a slide with an antifade reagent containing DAPI (Invitrogen, OR, USA). These were observed under a Leica DMI 6000B microscope using Leica Application Suite Advanced Fluorescence (LAS AF) software (Leica, Wetzlar, Germany), and the fluorescence intensities were quantified using ImageJ software (NIH, Bethesda, MD, USA).
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5

Immunofluorescence Staining of DNA Damage Foci

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Stable knockdown and the control cells were plated onto chambered slides. On the next day, the cells were washed with PBS, and fixed with 4% paraformaldehyde, and then permeabilized with 0.2% Triton X-100 for 5 min at room temperature. The cells were washed with PBS and blocked with 5% FBS overnight at 4 °C. Rabbit polyclonal anti-53BP1 antibody (Novus Biologicals, Littleton, CO, USA; Cat. No.: NB100-305) and mouse monoclonal anti-PML antibody (Millipore, Billerica, MA, USA; Cat. No.: 05-718) were added to the cells in an orderly manner. Slides were washed and then the bound antibodies were detected with the secondary antibodies, Alexa-conjugated 488 donkey anti-rabbit IgG and 594 donkey anti-mouse IgG (Molecular Probe, Grand Island, NY, USA). A drop of antifade reagent containing DAPI (Invitrogen) was added to the slides to stain nuclear DNA. The slides were observed and photographed with Zeiss Axiovert 200M flourescence microscope equipped with AxioCam HRM camera and over 200 cells (per sample) were incorporated into the analysis. For γH2A.X foci, rabbit polyclonal to γH2A.X (Abcam; Cat. No.: ab11174) was used.
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6

Immunofluorescence Assay for Cell Proliferation and DNA Damage

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The slices were first treated with 3% H2O2 and then blocked with 5% BSA. Next, the slices were treated with the proliferation marker Ki67 (Cell Signaling Technology, Beverly, MA, United States) overnight at 4°C. After that, the slices incubated with Alexa Flour 488 anti-rabbit secondary antibody at 37°C for 1 h. The immunofluorescence assays for γ-H2AX and CPD used γ-H2AX (1:1,000) and anti-CPD (1:200) (Cell Signaling Technology, Beverly, MA, United States) as primary antibodies. The immunofluorescence assays for K16 used Keratin 16 (1:500) (Proteintech, Chicago, IL, United States) as primary antibody. Finally, samples were stained with antifade reagent containing DAPI (Invitrogen, Life Technologies, California, United States) and examined with confocal laser scanning microscope (Olympus, Tokyo, Japan).
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7

Immunofluorescence Staining of Lung Tissue

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Paraffin sections were de-waxed in Histo-Clear solutions twice (National Diagnostics) and rehydrated first in absolute ethanol three times, and then once each in 90% ethanol, 70% ethanol and 50% ethanol. H&E staining was processed according to standard protocol. For immunofluorescence staining, antigen retrieval was performed by incubating the lung sections with proteinase K solution (Sigma-Aldrich, 20 mg/ml proteinase K in 50 mM Tris-Cl, 1 mM EDTA, pH 8.0) at 37°C for 30 min. Sections were then blocked in blocking buffer (3% BSA, 0.2% Triton X-100 in PBS) for 1 hr. Polyclonal rabbit anti-CCSP (also known as SCGB1A1) antibody (US Biological, catalogue number C5828) was used at 1:100 dilution. Goat anti-pro-SPC antibody (Santa Cruz Biotechnology, catalogue number sc-7706) and goat anti-Podopanin antibody (R&D Systems, catalogue number AF3244) were used at 1:100 dilution. Incubation was performed at 4°C overnight in blocking buffer. Secondary Alexa Fluor 488-labeled donkey anti-rabbit antibody (Invitrogen, catalogue number A21206) and Alexa Fluor 546-labeled donkey anti-goat antibody (Invitrogen, catalogue number A11056) were used at 1:100 dilution. Incubation was performed at room temperature for 1 hr. Cover slips were mounted on stained sections with antifade reagent containing DAPI (Invitrogen).
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8

Immunofluorescence Assay for P54nrb in HeLa Cells

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HeLa cells transfected with 120 nM ASOs for 5 h were fixed with 4% paraformaldehyde in PBS for 30 min, and permeabilized with 0.1% Triton in PBS for 4 min at room temperature. After incubation at room temperature for 30 min with block buffer (1 mg/ml BSA in PBS), cells were incubated at room temperature with P54nrb antibody (Santa Cruz Biotech. sc-376865, 1:100–1:300) in block buffer for 2 h, washed three times (5 min each) using wash buffer (0.1% NP-40 in 1 × PBS), and incubated for 1 h with AF488-conjugated anti-mouse secondary antibody (Abcam, ab150113, 1:200). After washing three times, cells were mounted with Anti-fade reagent containing DAPI (Life Technologies), and images were taken using confocal microscope (Olympus FV-1000) and processed with FV-10 ASW 3.0 Viewer software (Olympus).
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9

HeLa Cell Immunofluorescence Assay of P54nrb

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HeLa cells grown in glass-bottom dishes were transfected for 2 h with 200 nM ASOs using Lipofactamine 2000 (Life Technologies), based on manufacturer's instruction. Cells were washed with 1× PBS, fixed with 4% paraformaldehyde for 0.5–1 h at room temperature, and permeabilized for 5 min with 0.1% Triton in 1 × PBS. After blocking at room temperature for 30 min with 1 mg/ml BSA in 1× PBS, cells were incubated with antibody (sc-376865, Santa Cruz Biotech, 1:200) against P54nrb in block buffer (1 mg/ml BSA in 1× PBS) for 2 h, washed three times (5 min each) with 0.1% nonyl phenoxypolyethoxylethanol-40 (NP-40) in 1× PBS, and incubated for 1 h with secondary antibody conjugated with AF488 (1:200). After washing three times, cells were mounted with anti-fade reagent containing DAPI (Life Technologies), and images were acquired using confocal microscope (Olympus FV-1000) and processed using FV-10 ASW 3.0 Viewer software (Olympus). Cells were counted manually for those containing misolocalized P54nrb proteins.
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10

Fluorescent ASO Uptake Assay

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Cells were grown in glass-bottomed culture dishes (MatTek) for 16 h and were transfected or not transfected with 50-nM fluorescent-labeled ASOs for 4–8 h. For free uptake, cells were incubated with 2-μM fluorescent-labeled ASOs for 16–24 h. Immunofluorescence staining was performed as described (22 (link)), with minor revisions. Briefly, cells were fixed with 4% paraformaldehyde for 30 min at room temperature and were permeabilized for 5 min using 0.1% Triton X-100 in PBS. Following three washes with PBS, cells were treated with blocking buffer (1-mg/ml BSA in PBS) at room temperature for 30 min and were incubated with primary antibodies (1:100–1:200) in blocking buffer at room temperature for 2–4 h, or at 4°C overnight. After three 5-min washes with wash buffer (0.1% NP-40 in PBS), cells were incubated with secondary antibodies (1:200) in blocking buffer at room temperature for 1–2 h and washed three times (5 min each) with wash buffer. For double staining, two antibodies were used together. Anti-fade reagent containing DAPI (Life Technologies) was added, and slides were covered with cover slips. Images were taken using a confocal microscope (Olympus, FV-1000) and were analyzed with Fluoview Ver. 2.0b Viewer (Olympus).
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