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Confocal microscopy

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Confocal microscopy is an optical imaging technique that uses a focused laser to scan samples point-by-point, producing high-resolution, three-dimensional images. The core function of this technology is to provide detailed, optical sectioning of specimens with improved contrast and resolution compared to traditional widefield microscopy.

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351 protocols using confocal microscopy

1

Nanovaccine Uptake in Macrophages and Fish

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In the cell uptake study, G, MG, SWCNTs-G, and SWCNTs-MG were incubated with 6 × 107 macrophage for 24 h. Macrophages were obtained by centrifugation at 1500 rpm for 2 min. Furthermore, treated macrophages were immunostained with the tissue resident macrophage marker F4/80 primary antibody (1:250, Abcam, Cambridge, England), Cy3-labeled secondary antibody (1:1000, Beyotime. China), and DAPI (Beyotime. China). The cell uptake of fluorescently labeled nanovaccine was analyzed by BD FACSAria flow cytometry (BD, USA) and confocal microscopy (Leica, Germany).
For the detection of nanovaccine in vaccinated fish, carps (80 tail in total) were randomly divided into 4 groups (20 tail/group): G, MG, SWCNTs-G, and SWCNTs-MG group. Each group was immersed with G-FITC, MG-FITC, SWCNTs-G-FITC, and SWCNTs-MG-FITC at 30 mg/L for 6 h, respectively. After vaccination, fishes were transferred to clean water. Tissues including muscle, gill, intestine, kidney, spleen, and liver were isolated from vaccinated fish. Then tissues sections were made and then observed in confocal microscopy (Leica, Germany). Image J software was used to quantify the intensity of fluorescence in each group.
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2

Intracellular NO Imaging Using DAF-FM Diacetate

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NO production was measured using the commercial kit (Jiancheng Bioengineering Institute) as we described.25In situ NO production was detected using DAF‐FM diacetate (Molecular Probes). Isolated aortas were embedded and froze in OCT medium. The cryosections were incubated in PBS with DAF‐FM diacetate (10 μM) for 20 minutes at room temperature. Images were recorded using a confocal microscopy (Leica). Intracellular NO level was assessed using DAF‐FM diacetate (Molecular Probes).29 Briefly, the cells with different treatments were rinsed with PBS in the glass chamber. Then, the cells were incubated with DAF‐FM diacetate (10 μM) for 10 minutes at 37°C. Finally, the fluorescence pictures were recorded using a confocal microscopy (Leica). The staining density was quantified using Image‐J software.
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3

Immunohistochemical and Immunofluorescent Analysis of Muscle Proteins

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For immunohistological staining, muscle sections were fixed by 3% H2O2, and blocked for 20 min at room temperature by goat serum (HyClone). Anti-Fbxo32 (ECM Bioscience, 1:500) antibody was used as primary antibody. Secondary antibodies (Jackson Laboratory) were diluted 1:2000 in blocking buffer and incubated for 1 h at room temperature. Mixture of substrate A (Dako) and B (Dako) were diluted in blocking buffer and incubated for 30 min at room temperature, and developed by DAB+ Chromogen (Dako). Images were acquired by confocal microscopy (Leica). For immunofluorescent staining, cells or sections were fixed with 4% parafamaldehyde and permeabilized with cold methanol, anti-MYH3 (Developmental Studies Hybridoma Bank, clone F1.652, 1:1000), anti-MYHC (Merk Millipore, clone 05-716, 1:1000) and anti-lammnin (Abcam, clone B00648, 1:1000) antibodies were used as primary antibody, respectively. The cells and sections were next stained with Alexa 488-, 561- or 647-labeled anti-mouse or -rabbit antibodies (Invitrogen). All images were acquired by confocal microscopy (Leica).
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4

Immunofluorescence Imaging of Fly Brains

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Fly brains were collected, fixed, mounted, and imaged using Leica confocal microscopy as previously described (Saez et al., 2011 (link); Top et al., 2016 (link)). Briefly, fly heads were fixed in PBS with 4% paraformaldehyde and 0.5% Triton X-100. Brains were dissected and washed in PBS with 0.5% Triton X-100 and blocked in the same solution supplemented with 5% donkey serum. Brains were then probed with 1:200 dilution of PER antibody, or 1:1000 dilution of PDF antibody (DSHB, Iowa City, IA). Washed brains were re-probed using 1:200 diluted secondary antibodies conjugated to Alexa-488 (PER) or Alexa-647 (PDF). Brains were mounted using Fluoromount (Beckman Coulter, Brea, CA) and imaged using Leica confocal microscopy at 40X magnification. Fluorescence intensity was quantified using ImageJ, with bright and dark reference points to maintain consistent relative quantification across all images. In quantifying protein expression, entire cells were analyzed with no distinction between nuclear and cytoplasmic signal.
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5

Immunostaining and Imaging of Brain Sections

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Immunostainings of brain sections and image acquisition were performed according to standard procedures as described earlier by Nordström et al. (2013) (link) and Herzer et al. (2015 (link), 2016 (link)). Blocking (RT, 1 h) and antibody incubations (4°C, o/n) occurred in 1%BSA/0.05% Triton-X/PBS. Primary antibodies were mouse-α-Aβ (6E10; 1:200, Covance), rabbit-α-Aβ42 (1:50, Millipore), rabbit-α-GFP (1:50, Invitrogen), rabbit-α-Iba1 (1:200, WAKO), mouse-α-GFAP (1:200, Millipore), and oligomer-specific antibody rabbit-α-A11 (1:50, Invitrogen). Secondary antibodies used were donkey-α-mouse Alexa-Fluor488, donkey-α-rabbit Alexa-Fluor488, goat-α-rabbit Alexa-Fluor555, goat-α-mouse Alexa-Fluor555 (1:200, Invitrogen). For immunohistochemistry, subsequent staining was performed with biotin-α-mouse or biotin-α-rabbit (1:150, Jackson Immuno Research) and horseradish peroxidase streptavidin (1:200, Vector). For histochemistry, AEC reagent (BioGenex) was used. Coverslips were mounted with ProLongGold® (Invitrogen) and subsequently analyzed by fluorescence or brightfield (Keyence) or confocal microscopy (Leica).
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6

Quantifying MRSA Biofilm Disruption

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The construction of MRSA biofilm was described previously (Alalaiwe et al., 2018 (link)). After the CoQ0 (78–312 µg/ml) or cetylpyridinium chloride (CPC, 75 µg/ml) treatment for 24 h, the biofilm was rinsed using PBS to remove the loosely adherent planktonic MRSA and was then suspended in PBS. The recovered MRSA outside the biofilm and the MRSA inside the biofilm were placed in an agar plate for 24 h to count CFU. The CoQ0- or CPC-treated biofilm was stained using Live/Dead BacLight®. The 3D structure, thickness, and fluorescence of the biofilm were observed by confocal microscopy (Leica).
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7

Quantification of γ-H2AX in OCI-LY10 Cells

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The formation of γ-H2AX was detected by immunocytochemistry. The cell slides were treated with polylysine for 24 h. Simultaneously, OCI-LY10 cells were seeded into 6-well plates and treated with the indicated concentrations of TEOA for 12 h. Then cells were harvested and seeded on cell slides and incubated for 2 h. Cells were fixed with 4% paraformaldehyde for 15 min and permeabilized with 1% Triton X-100 for 5 min at room temperature. After being blocked with 5% BSA, the cells were stained with 1:200 of γ-H2AX primary antibody and 1:500 of FITC-labeled Goat Anti-Rabbit IgG (H+L) secondary antibody (Beyotime, USA). DAPI was used for the staining of the nucleus. Images were acquired using confocal microscopy (Leica, Germany).
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8

Zebrafish Angiogenesis Assay for Anti-Angiogenic Compounds

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A transgenic zebrafish Tg (fli1:EGFP) model was used to assess in vivo anti-angiogenesis activity, according to our previously reported method [38 (link)]. After breeding, embryos at 6 hpf were treated with the indicated concentrations of compound 1b (0.3, 1, and 3 μM) and incubated for 48 h at 28.5 °C. Following incubation, the embryos were anesthetized with 0.02% tricaine. Confocal microscopy (Leica, Wetzlar, Germany) was used to observe the formation of intersegmental vessels (ISVs). The total average length of the ISVs was measured using Image J software (NIH, Bethesda, MD, USA). All animal procedures were approved by the Institutional Animal Care and Use Committee of Nankai University.
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9

Vascular Smooth Muscle Cell Imaging

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VSMCs grown on coverslips were fixed in 4% paraformaldehyde and then were permeabilized with 0.1% Triton X-100 in PBS at room temperature for 10 min, followed by tetramethyl rhodamine isothiocyanate (TRITC)-phalloidin (Sigma) staining for 30 min in the dark. Nuclei were stained with DAPI (1:50, 157574, MB biomedical) to visualize nuclear localization. Images were captured by confocal microscopy (Leica) and processed by LAS AF software.
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10

Immunofluorescence Analysis of Kidney Biopsy Samples

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Cryosections of kidney biopsy from patients were fixed with pre-cooled ice old acetone for 10 min. The sections were wash twice with PBS and then incubated with block solution (5% goat serum and 5% donkey serum in PBS) for 30 min. Afterwards, the sections were incubated with anti-synaptopodin antibody (American Research Products, INC) at room temperature for 1 hour, followed by rabbit polyclonal anti-Angptl4 antibody (Catalog number#sc-66806, Santa Cruz, 1:50) for 1 hour. After 3 times of PBS wash, each for 5 minutes, the sections were incubated with chicken anti-mouse 488 and chicken anti-rabbit 594 Alexa Fluor secondary antibodies (Thermo Fisher, 1:1000) for 1 hour. After 3 times of PBS wash, 5 minutes each, the sections were incubated with DAPI for counterstaining. The images were then taken and analyzed with confocal microscopy (Leica). Clinical data of patients whose renal tissue was stained are provided in S5 Table.
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