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9 protocols using phalloidin atto 633

1

Immunofluorescence Staining of Fixed Cells

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Cells were fixed in 4% PFA for 15 minutes at room temperature. After washes, cells were permeabilized with PBS/0.2%-TritonX for 5 minutes at room temperature and blocked with IF buffer (PBS/0.05%-Tween20/3%BSA for Ki67 or PBS/3%BSA for other staining) for 1hr. Primary antibodies were incubated in IF buffer overnight at 4°C in a wet chamber. The day after, cells were washed several times with IF buffer and incubated with secondary antibodies for at least 1hr at room temperature together with DAPI (1mg/ml stock, 1:500, Sigma-Aldrich D9542) and Phalloidin (Phalloidin-Atto633, 20μM stock, 1:1000, Sigma-Aldrich 68825) when indicated. Images were acquired with a Zeiss LSM 780 using ZEN software. Antibodies used in this study are: Ki-67 (1:1000, Abcam ab15580), Fibronectin (1:500, Sigma F3648), phospho-SRC Y418 (1:100, Invitrogen, 44-660G).
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2

Cell Adhesion Protein Conjugation Protocol

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Bovine serum albumin (BSA), N-(3-dimethylaminopropyl)-N’-ethylcarbodiimide hydrochloride (EDC), 2-(N-morpholino)ethanesulfonic acid monohydrate (MES), Triton X-100, and sorbitan monooleate (Span 80) were purchased from Carl Roth (Carl Roth GmbH und Co. KG, Karlsruhe, Germany). Isopar M was obtained from Caldic (Caldic Ingredients Deutschland GmbH, Düsseldorf, Germany). Dulbecco’s modified eagle medium (DMEM) supplemented with fetal bovine serum (FBS, 10% (w/v)), penicillin-streptomycin (100 U mL−1, 1% (w/v)), eagle’s minimum essential medium non-essential amino acids (MEM NEAA) (1% (w/v)) were received from Life Technologies (Carlsbad, CA, USA). Phosphate-buffered saline (PBS) was purchased from Life Technologies (Carlsbad, CA, USA). Rhodamine B, trypsin-EDTA solution, resazurin, phalloidin Atto 633, and formaldehyde solutions were obtained from Sigma-Aldrich (St. Louis, MO, USA). Rhodamine phalloidin was received from Thermo Fisher Scientific (Waltham, MA, USA). DY-495-NHS-Ester was purchased from Dyomics (Dyomics GmbH, Jena, Germany).
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3

Imaging of Tumor Microtissues

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Microtissues in mono- and co-cultures were harvested as described above and washed once with PBS. Afterwards, tumour microtissues were fixed with 4% PFA for two hours at 4°C and washed three times with PBS. Now, they were blocked by incubation with PBS containing 2% BSA (Sigma) /0,3% Triton X-100 (Roche) for one hour at room temperature. Microtissues were then incubated 40 minutes with 50 μg/ml phalloidin Atto 633 (Sigma) at room temperature in the dark. Thereafter, they were washed again five times with PBS and were then incubated five minutes with 1,5 μg/ml DAPI (Invitrogen) at room temperature in the dark. After washing one time with PBS microtissues were brought onto an object slide with fluorescent mounting medium (Dako Glostrup, Denmark) and were analysed on a LSM 510 Meta Confocal Microscope (Zeiss).
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4

Muscle Cell Differentiation Visualization

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The differentiation status of the primary muscle cells was evaluated after fluorescence staining assay, with the confocal microscope (Olympus FV1000, Tokyo, Japan). After 5 days of culture, cells were fixed in 4% paraformaldehyde in PBS (Life Technologies, Houston, USA; 10 min, RT), and washed with ice-cold PBS. Next, the cells on slides were permeabilised in Triton X-100 (Sigma-Aldrich, St Louis, USA) and washed with PBS (Sigma-Aldrich, St Louis, USA). Finally, cell nuclei were stained with 4′,6-diamidino-2-phenylindole (DAPI; Thermo Fisher Scientific, Waltham, USA) and actin filaments with phalloidin-Atto 633 (Sigma-Aldrich, St Louis, USA). After staining, the cells were washed with PBS, and slides were mounted under Fluoromount-G medium (Southern Biotech, Birmingham, USA). On the stained slides, the fusion index was calculated as a ratio of nuclei in the multinucleated myotubes (more than 2 myonuclei) to the total number of nuclei (mononucleated and multinucleated) [51 (link), 52 (link)] in the randomly selected visual fields (n = 8). Next, the relative to control fusion index was calculated from the obtained results, as a ratio of the fusion index, for each group, compared to the control results. The nuclei were counted manually.
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5

Confocal Microscopy Analysis of Cellular Structure

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The changes in the structure of the cell skeleton and nucleus were evaluated by confocal microscopy (Olympus FV1000, Tokyo, Japan). Cells were grown on a coverslip in a 6-well plate for 4 days and then the test reagents were added. After 24 h of incubation with MEL, complex cells were fixed with 4% paraformaldehyde in PBS (Life Technologies, Texas, TX, USA) for 10 min at room temperature and washed with ice-cold PBS. The next step was incubation in Triton X-100 (Sigma-Aldrich, Missouri, MO, USA) and washing with PBS (Sigma-Aldrich, Missouri, MO, USA). Then, the cells were incubated with normal goat serum as a blocking solution (Chemicon International, California, CA, USA). Actin filaments were stained with phalloidin-Atto 633 (Sigma-Aldrich, Missouri, MO, USA) and cell nuclei with 4′,6-diamidino-2-phenylindole (DAPI) (Thermo Fisher Scientific, Massachusetts, MA, USA). Each group was prepared in 5 replications. The photos were taken in 7 randomly selected fragments.
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6

Quantifying Myogenic Differentiation by Confocal Microscopy

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The differentiation of cells was evaluated using a confocal microscope (Olympus FV1000, Tokyo, Japan). For imaging, cells were fixed after 5 days of culture using 4% paraformaldehyde in PBS (Life Technologies, Texas, TX, USA) for 10 min at room temperature and washed with ice-cold PBS. Then cells were incubated in Triton X-100 (Sigma-Aldrich, Missouri, MO, USA) and washed with PBS (Sigma-Aldrich, Missouri, MO, USA). Subsequently, cells were incubated with blocking solution, i.e., normal goat serum (Chemicon International, California, CA, USA). Cell nuclei were stained with 4′,6-diamidino-2-phenylindole (DAPI) (Thermo Fisher Scientific, Massachusetts, MA, USA) and actin filaments with phalloidin-Atto 633 (Sigma-Aldrich, Missouri, MO USA). After staining, the cells were washed with PBS. The fusion index was calculated for the control group and cells with CEME supplementation from randomly selected visual fields (n = 7) and presented as the number of nuclei in the multinucleated myotubes divided by the total number of nuclei. The nuclei were counted manually.
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7

Immunofluorescence Staining of Fixed Cells

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Cells were fixed in 4% PFA for 15 minutes at room temperature. After washes, cells were permeabilized with PBS/0.2%-TritonX for 5 minutes at room temperature and blocked with IF buffer (PBS/0.05%-Tween20/3%BSA for Ki67 or PBS/3%BSA for other staining) for 1hr. Primary antibodies were incubated in IF buffer overnight at 4°C in a wet chamber. The day after, cells were washed several times with IF buffer and incubated with secondary antibodies for at least 1hr at room temperature together with DAPI (1mg/ml stock, 1:500, Sigma-Aldrich D9542) and Phalloidin (Phalloidin-Atto633, 20μM stock, 1:1000, Sigma-Aldrich 68825) when indicated. Images were acquired with a Zeiss LSM 780 using ZEN software. Antibodies used in this study are: Ki-67 (1:1000, Abcam ab15580), Fibronectin (1:500, Sigma F3648), phospho-SRC Y418 (1:100, Invitrogen, 44-660G).
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8

Immunofluorescence Staining of YAP1 and FLAG

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All immunofluorescence experiments were performed on cells seeded on glass in MatTek plates. Cells were fixed in 4% paraformaldehyde, washed with phosphate-buffered saline (PBS) containing 0.01% Triton X-100, and permeabilised by incubation in PBS containing 0.2% Triton X-100 for 20 min at room temperature. Samples were subsequently blocked for 1 h with PBS containing 5% BSA and 0.01% Triton X-100 before incubation with Phalloidin–Atto633 (Sigma; 68825-10NMOL) and DAPI (Sigma; d9542-5 mg) in PBS containing 5% BSA and 0.01% Triton X-100 for 1 h at room temperature. Primary antibodies used were anti-YAP1 (D8H1X; 14074; Cell Signaling Technology; 1:500), and anti-Flag (F1804; Sigma; 1:100), and were incubated overnight at 4°C. Primary antibody was washed off in three washes of 5 min using PBS containing 0.01% Triton X-100. Secondary antibodies used were donkey anti-rabbit IgG Alexa Fluor 488 (Thermo Fisher Scientific; A21206; 1:200) and donkey anti-mouse IgG Alexa Fluor 555 (Thermo Fisher Scientific; A31570; 1:200). Samples were retained in PBS until imaging.
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9

Visualization of Actin Ring Formation

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The formation of the actin ring was visualized on Days 6 and 15. The cells were fixed with 2% paraformaldehyde in PBS for 20 min. Thereafter, 0.5% Triton-X-100 was incubated with the cells for 2 min, with subsequent thorough PBS washing. Phalloidin-Atto 633 (10 nM, Sigma Aldrich, Steinheim, Germany) 1:500 was added for 45 min. Cell nuclei were visualized using Hoechst 34580 (10 ng mL−1, Invitrogen, Carlsbad, CA, USA), diluted 1:1500 for 15 min. The cells were visualized using an epifluorescence microscope (Olympus U-RFL-T, IX-51, Olympus, Tokyo, Japan).
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