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18 protocols using calyculin a

1

THP-1 monocyte immune response assay

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Briefly, THP-1 human monocytes (TIB-202; ATCC) were cultured in RPMI-1640 (189-02025; Wako) supplemented with 10% fetal bovine serum (175012; Nichirei), penicillin (100 U/mL) (168-23191; Wako), and streptomycin (100 mg/mL) (168-23191; Wako). F. nucleatum was cultured as previously described (43 (link)). THP-1 monocytes were pretreated with 100 μM FAC (RES20400-A7; Sigma-Aldrich), 100 μM DFO (D9533; Sigma-Aldrich), or the indicated concentration of calyculin A (038-14453; Wako) for the indicated time, followed by stimulation with 100 ng/mL LPS (tlrl-eblps; InvivoGen) for the indicated time. THP-1 monocytes were differentiated into macrophages using 6 ng/mL phorbol 12-myristate 13-acetate (AG-CN2-0010; AdipoGen) for 48 hours. Differentiated cells were pretreated with 100 μM FAC, 100 μM DFO, or 5 μM TAK-242 (13871; CAYMAN) for the indicated times, followed by treatment with F. nucleatum at a multiplicity of infection of 10 for 3 hours.
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2

Breast Cancer Cell Culture Protocol

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The invasive breast cancer MDAMB231 cells, non-invasive tumorigenic breast cancer MCF7 cells, and normal mammary epithelial MCF10A cells were used. MCF10A cells were cultured in growth medium composed of Dulbecco’s modified Eagle’s medium/Ham’s F-12 containing HEPES and L-glutamine (DMEM/F12, Invitrogen) supplemented with 5% horse serum (Invitrogen), 1% penicillin/streptomycin (Invitrogen), 10 μg/mL insulin (Sigma), 0.5 μg/mL hydrocortisone (Sigma), 20 ng/mL EGF (Peprotech) and 0.1 μg/mL cholera toxin (Sigma) and maintained under humidified conditions at 37 °C and 5% CO2. MDAMB-231 and MCF7 cells were cultured in growth medium composed of Dulbecco’s modified Eagle’s medium (DMEM, Invitrogen), supplemented with 10% fetal bovine serum (Invitrogen) and 1% penicillin/streptomycin (Invitrogen) and maintained under humidified conditions at 37 °C and 5% CO2. Cells were passaged regularly by dissociating confluent monolayers with 0.25% trypsin-EDTA (Invitrogen). Cells were passaged at 1:4 in growth medium. Blebbistatin (Sigma) dissolved in dimethylsulfoxide (DMSO) was used at 5 μM in growth media for the myosin II inhibition experiments. Calyculin A (Wako) dissolved in dimethylsulfoxide (DMSO) was used at 0.1 nM in growth media for the myosin II enhancement experiments.
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3

Quantitative Telomere Length Analysis

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After treatment, chromosome spreads were obtained following 30 min incubation in 30 μM calyculin-A (Wako, Germany) [68 (link)]. Spreads of these prematurely condensed chromosomes (PCC) were prepared by a standard procedure, consisting of treatment with a hypotonic solution (75 mM KCl) followed by fixation in freshly prepared Carnoy solution. Q-FISH staining was performed as described by Berardinelli et al. [69 (link)] with minor modifications. Briefly slides and probes (Cy3 linked telomeric and chromosome 2 centromeric Peptide Nucleic Acid PNA probes; PANAGENE, Republic of Korea) were co-denatured at 80 °C and hybridized for 2 h at room temperature in a humidified chamber. Slides were counterstained with DAPI in Vectashield. Images were captured at a 63× magnification with Axio Imager M1 microscope equipped with a CCD camera. The telomere size was analyzed with ISIS software (MetaSystems, Altlußheim, Germany). In particular, the software calculates telomere lengths as the ratio between the total telomeres fluorescence (T) and the fluorescence of the centromere of the two chromosomes 2 (C), thus data were expressed as a percentage (T/C%). Experiments were repeated at least three times, and at least 10 metaphases were scored for each experiment.
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4

Actomyosin Manipulation Affects Organ Elongation

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The following chemical compounds were used to manipulate actomyosin activity: (i) Y-27632 (Wako, 257-00513) to inhibit myosin light chain phosphorylation, (ii) calyculin A (Wako, 038-14453) to inhibit myosin light chain dephosphorylation (i.e., activate myosin activity), and (iii) blebbistatin (Sigma-Aldrich, B0560) to suppress myosin contractility. Y-27632 (100 μM), calyculin A (100 nM), or blebbistatin (100 μM) was added to the culture system at SS6. Results for Y-27632 treatment are shown in the main text and figures. blebbistatin treatment similarly inhibited OV elongation, and the phenotypes were similar; OV was somewhat widened in the A-P direction in addition to the suppressed elongation in the M-L direction (fig. S4). In ventral tissues of embryos treated with calyculin A, the orientation angle of both phosphorylated myosin localization and cell shape polarity shifted a few tens of degrees from the A-P axis to the M-L direction, and, as a phonotype, OV elongation was suppressed similarly to that seen for Y-27632 or blebbistatin (fig. S4). These results support that polarity in phosphorylated myosin localization and cell shape, as well as myosin contractility are essential for OV elongation.
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5

Quantifying VSMC Contractility Dynamics

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After being cultured on a glass-bottom dish for 60–72 h, VSMCs were treated with normal medium supplemented with 10 nM calyculin A (032–14451, Wako Pure Chemicals) to induce actomyosin contraction28 (link) or 20 µM Y-27632 (257-00511, Wako Pure Chemicals) to inhibit actomyosin contraction41 (link). Images of phase contrast and retardation were captured every 10 min for 50 min after the treatment. At each time point, the cell area, ACell, was measured by manually outlining the shape of the VSMCs in the phase contrast images. Then, the cells were selected in the retardation image, and the spatially averaged cell retardation, RetCell, was calculated. To consider the changes in the cell area due to the administration of contraction and relaxation reagents, the total cell retardation, RetCellTotal, was obtained by multiplying the averaged cell retardation, RetCell, by the cell area, ACell. The average and total cell retardations were normalized by the values before treatment in each cell.
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6

Chromosomal Spread Analysis Protocol

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Chromosome spreads were obtained following 30 min incubation in Calyculin-A (30 μM; Wako Chemicals, Japan). Only G2 condensed chromosomes have been scored in cytogenetic analysis. Prematurely condensed chromosomes (PCC) were collected by a standard procedure consisting of treatment with hypotonic solution (75 mM KCl) for 28 min at 37 °C, followed by fixation in freshly prepared Carnoy solution (3:1 v/v methanol/acetic acid). Cells were then seeded onto slides and utilized for cytogenetic analysis.
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7

Pharmacological Characterization of Cardiac Contractility

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The following chemicals were used: phenylephrine hydrochloride (Sigma Chemical Co.), guanethidine (Tokyo Kasei, Tokyo, Japan), atenolol (Sigma Chemical Co.), nifedipine (Sigma Chemical Co.), BAY K 8644 (Tocris Bioscience, Bristol, UK), ryanodine (Wako Pure Chemical, Osaka, Japan), calyculin A (Wako Pure Chemical, Osaka, Japan).
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8

NSC Dissociation and Culture Optimization

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After washing with sterile PBS, the NSCs were dissociated into single cells with Accutase. Before seeding the cells on poly-d-lysine, laminin, and fibronectin-coated 12-well plates, the wells were filled with 500 μL of Neurobasal plus B27 medium (Thermo Fisher Scientific) with 0.5% Dimethyl sulfoxide (DMSO), 500 μL of 20 μM Y27632 (Wako, Osaka, Japan) in Neurobasal plus B27 medium with 0.5% DMSO, or 50 μM blebbistatin (Sigma Aldrich, MO, USA) in Neurobasal plus B27 medium with 0.5% DMSO, or 0.2 nM Calyculin A (Wako) in Neurobasal plus B27 medium with 0.5% DMSO. Then, 500,000 cells in 500 μL of Neurobasal plus B27 medium were added to each well. The medium was changed to 500 μL of Neurobasal plus B27 medium with 0.25% DMSO, 500 μL of 10 μM Y27632 in Neurobasal plus B27 medium with 0.25% DMSO, or 500 μL of 25 μM blebbistatin in Neurobasal plus B27 medium with 0.25% DMSO, or 500 μL of 0.1 nM Calyculin A in Neurobasal plus B27 medium with 0.5% DMSO of daily. After 3 days of culture, the cells were analyzed.
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9

In Vitro Treatment of Embryonic Scalps

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After incubating E12 heads for 30 min in culture medium containing only 0.5% DMSO (Sigma‐Aldrich), 0.5% DMSO plus 20 μM blebbistatin (Calbiochem), 0.5% DMSO plus 20 μM Y27632 (Wako), 0.5% DMSO plus 2 mg/mL collagenase (Worthington), or 0.5% DMSO plus 2 U/mL elastase (Wako), a circular incision was made on each head. The excised scalps were further incubated under the same conditions for 30 min (total incubation time: 60 min). Cultured epidermal or mesenchymal cells were treated with culture medium containing only 0.1% DMSO (Sigma‐Aldrich) or 0.1% DMSO plus 5 nM calyculin A (FUJIFILM Wako). For E12 or E13 heads, calyculin A was applied at 1 μM for 60 min or 100 nM for 4 h.23 Throughout the incubation of the heads or scalps, the medium was carefully oxygenized with 95% O2/5% CO2 to prevent the intramesenchymal or perimeningeal vessels from contracting in response to hypoxia, as reported in embryonic mesenteric regions.52
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10

G2/M-Phase Chromosome Collection Protocol

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The PCC technique was used to collect G2/M-phase chromosomes as previously described [63 (link),70 (link),71 (link)]. After irradiation, fibroblasts were allowed to recover for 24 h under static or μG conditions and then subcultured at low density. After 33 h incubation, cells were arrested in mitosis by adding KaryoMAX® Colcemid® solution (Thermo Fisher Scientific) to a final concentration of 90 ng/mL in the culture media, and then cells were incubated for an additional 7 h. Approximately 30 min before collection, 50 nM of Calyculin A (FUJIFILM Wako Pure Chemical Co., Osaka, Japan) was added to the culture media to condense the chromosomes in the G2 phase of the cell cycle.
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