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81 protocols using βiii tubulin

1

Primary Neuron Transduction Assay

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Primary hippocampal neurons were cultured as described previously (Deng et al., 2013 (link)). The purity of neurons was determined by immunocytochemistry for βIII-tubulin, which indicated that 95% of cells in the cultures were βIII-tubulin (1:250; Millipore, Temecula, CA, USA) positive (data not shown). Then, the transduction ability of TAT-Ngn2 was assayed by an immunofluorescence analysis (Wang et al., 2009 (link)). In brief, the neurons were cultured with TAT-Ngn2 (125 μg/l) for 24 h, washed three times with PBS after fixation in 4% PFA (Dietz et al., 2002 (link)). Then incubated simultaneously with primary antibodies: anti-6× His antibody (1:2,000; Abcam, Cambridge, MA, USA) and βIII-tubulin (1:250; Millipore, Temecula, CA, USA) overnight at 4°C. The neurons were washed three times with PBS and then incubated with two secondary antibodies: FITC-labeled goat anti-rabbit IgG (1:200; Vector, Burlingame, CA, USA) and Alexa 594-labeled donkey anti-mouse IgG (1:500; Molecular Probes, Rockford, IL, USA) for 1 h at 37°C. Nuclei were visualized by DAPI staining. Images were viewed with a fluorescence microscope (BX60; Olympus). These measurements were made on cells present in six randomly selected fields in each experiment and repeated in at least three independent cultures.
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2

Optimizing SCAP-Induced Neurogenesis

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To induce SCAP neurogenesis, we seeded 1×106 cells into each ultralow adsorption dish (Corning, USA) and cultured them for 9 days. The neuron induction medium was described in our previous work.56 (link) Half of the neuron induction medium was changed every 3 days. After neuron induction, dynamic changes in neuron-like cells were observed for 3 days, 6 days, and 9 days under a microscope. After 9 days of neuron induction, immunofluorescence staining was applied to detect the markers of neurogenesis as described in our previous work.56 (link) The primer antibodies were as follows: Nestin (Cat No. ab 6320, Abcam, UK), βIII-tubulin (Cat No. T3952, Sigma, USA). At the conclusion of the experiment (5 weeks post-SCI), animals were euthanized by transcardiac perfusion with 4% paraformaldehyde in 0.9% sodium chloride. The spinal cord tissues, which had been previously embedded, were then sectioned into 5 μm slices and subjected to immunofluorescence staining. Immunofluorescence staining was performed according to a previous study.28 (link) The primer antibodies were as follows: Nestin (Cat No. ab 6320, Abcam, UK), βIII-tubulin (Cat No. T3952, Sigma, USA), NEFM (Cat No. OMA1-06110, Invitrogen, USA), and h-mitochondria (Cat No. ab 92824, Abcam, UK).
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3

Neurite Outgrowth Assay for Embryonic Mouse Cortical Neurons

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E18 mouse cortical neurons were plated on poly-L-Lysine (PLL)-coated glass coverslips treated with laminin (Invitrogen; 10 mg/ml) for 24hr and then immunostained with βIII-tubulin (Sigma; 1:500), AE12-1 (1:250), AE12-1Y (1:250) or hIgG (1:250). Embryonic cortical neurons were also stained with F-actin (Molecular Probes; 1:100) and Neogenin (Santa Cruz; 1:200). For the neurite outgrowth assay, E18 mouse cortical neurons were plated on PLL-coated glass coverslips treated with laminin (Invitrogen; 10 mg/ml) and RGMa proteins (5 mg/ml) and incubated for 24hr at 37 °C with control hIgG antibody (1 mg/ml) or anti-RGMa (AE12-1 or AE12-1Y; 1 mg/ml). Cultures were fixed with 4% paraformaldehyde 24hr after plating, and neurons were immunostained with βIII-tubulin (Sigma; 1:500). Experiments were done in duplicates and repeated 3 times. Thus 6 coverslips of neuronal cultures were counted from several areas of the coverslip, and at least 20 neurons were measured per coverslip, as previously described14 (link), 16 (link). Fiber length was quantified using Image Pro 5.0.
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4

Laminin Immunofluorescence and Cell Staining

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For laminin immunofluorescent staining, SA fibrous scaffolds were blocked with 3 v/v % goat serum (Sigma-Aldrich) for 30 min, followed with primary antibody, laminin (1:1000; Abcam) for 1 h, and secondary antibodies (Alexa Fluor dyes; Thermo Fisher Scientific) for 30 min. For cell culture experiments, cells with scaffolds were fixed in 4 v/v % paraformaldehyde (Sigma-Aldrich) for 20 min, permeabilized with 0.2 v/v % Triton X-100 (Sigma-Aldrich) for 15 min, and blocked with 3 v/v % goat serum for 45 min. Cells were then incubated for 1.5 h with primary antibodies, nestin (1:500; Millipore, U.K.), βIII-tubulin (1:1000; Sigma-Aldrich), and Ki67 (1:1000; Abcam), followed with DAPI (Sigma-Aldrich) and secondary antibodies for 45 min. The stained samples were mounted on slides with FluorSave Reagent (Millipore) and stored at 4 °C. Images of laminin immunofluorescent staining were acquired with an epifluorescent microscope (EVOS FL Cell Imaging System; Life Technologies, U.K.), whereas images of the cell experiments were acquired with a SP5MP/FLIM inverted confocal microscope (Leica, Germany) by sequential scanning. The thickness of the acquired sample sections was about 40 μm, and z stacks of typically 20 2 μm slices were imaged.
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5

Immunocytochemical Characterization of Differentiated Neurons

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Differentiated human neurons were fixed and stained with antibodies directed against neurofilament (1:1000; Sigma, Germany), βIII tubulin (1:500; Sigma, Germany), microtubule-associated protein 2 (MAP2; 1:200; Millipore, Germany), vesicular glutamate transporter 1 (vGLUT1; 1:300; Synaptic Systems, Germany), gamma aminobutyric acid (GABA; 1:500; Sigma, Germany), tyrosine hydroxylase (TH; 1:1000; Sigma, Germany), choline acetyltransferase (ChAT; 1:100; Millipore, Germany), glial fibrillary acidic protein (GFAP; 1:500; DAKO, Denmark) or the ionized calcium binding adapter molecule 1 (Iba1; 1:500; Wako, Japan) followed by the corresponding Alexa488-conjugated antibodies (1:500; Invitrogen, Germany). Neurons were counterstained with an antibody directed against human neuronal nuclei (NeuN; 1:50; Millipore, Germany) or βIII tubulin (1:500) followed by the corresponding Cy3-conjugated secondary antibody (1:500; Dianova, Germany). Nuclei of cells were subsequently labeled with 4´,6-diamidino-2-phenylindole (DAPI; 1:10,000; Sigma, Germany). Images were taken by confocal laser scanning microscopy (Fluoview 1000, Olympus) or fluorescence microscope (AxioImager.Z1).
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6

Immunocytochemistry of Stem Cell Markers

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Immunocytochemistry was as previously described (Weick et al., 2013 (link)). Briefly, coverslips were fixed with 4% paraformaldehyde for fifteen minutes, rinsed three times with phosphate-buffered saline (PBS) and permeabilized using 0.2% Triton for five minutes. Cells were blocked with 10% donkey serum in PBS for 30 minutes, followed by an overnight incubation of primary antibody in 5% donkey serum at 4°C. Primary antibodies consisted of monocloncal Oct4 (1:100, Thermo Fisher Scientific, Waltham, MA), polyclonal Pax6 (1:500, developmental studies hybridoma bank), monoclonal βIII-Tubulin (1:2000, Sigma), and polyclonal GABA (1:100, Sigma). Cells were then washed with 1x PBS and incubated for one hour at 4°C with secondary antibody in 5% donkey serum. Secondary antibodies (anti-mouse DyLight 488 and anti-rabbit DyLight 550 (1:500; Thermo Fisher Scientific). Cells were washed with 1x PBS and then treated with DAPI at 1:10,000 (Thermo Fisher Scientific), followed by three washes with 1x PBS, and mounted on glass cover slides using Fluoromount-G (SouthernBiotech, Birmingham, AL).
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7

Immunofluorescence Staining of Cell Cultures

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The following primary antibodies were used: mouse monoclonal antibodies against EGFP (Millipore, cat. MAB3580; 1:500), rabbit polyclonal antibodies against Lamin B1 (Abcam, cat. 16804; 1:200), βIII-tubulin (Sigma, cat. T-2200; 1:500), GFAP (Dako, cat. Z0334; 1:1000), platelet-derived growth factor receptor-α (PDGFR-α; SantaCruz, cat. 338; 1:250). Secondary antibodies conjugated with Alexa fluorophores (Invitrogen) or horseradish-peroxidase (HRP; Bio-Rad) were used. For nuclear counterstaining, 4′,6′-diamidino-2-phenylindole (DAPI; Invitrogen, cat. D3571; 1:1000) or Hoechst 33342 (Sigma, cat. 14533; 1:1000) were used.
Unless otherwise specified, general reagents and chemicals were from Sigma and reagents for cell cultures were from Invitrogen. Primers are listed in Supplementary Table S1.
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8

Immunofluorescence Imaging of Neurite Morphology

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After experimental treatment, neurons seeded on 24-well plates with coverslips were subjected to immunofluorescence. Cells were fixed with 4% paraformaldehyde for 15 min and then incubated for 1 h in blocking buffer (PBS containing 5% serum and 0.3% Triton X-100), followed by incubation with the primary antibody β-III tubulin (dilution 1:500, #T8578, Sigma-Aldrich) or MAP2 (1:1000, #T8578, Sigma-Aldrich) overnight at 4 °C. After washing 3 times with PBS, neurons were incubated with Alexa Fluor 488 or 546-conjugated secondary antibodies (Invitrogen) for 1.5 h at room temperature, rinsed 3 times with PBS and stained with DAPI (4′,6-diamidino-2-phenylindole) for 15 min. Images were obtained using a Leica SP8 confocal microscope. The length of neurite was measured by Image J.
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9

Immunofluorescence Staining Protocol for Cell Analysis

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Cells were fixed in 4% (wt/vol) paraformaldehyde for 10 min, permeabilized with 0.2% Triton X‐100 for 5 min and blocked in 3% (vol/vol) goat serum (Dako) or donkey serum (Sigma) for 45 min. They were then incubated in primary antibodies for 45 min followed by secondary antibodies for 30 min (Alexa Fluor dyes, 1:1000, Invitrogen). All antibodies were diluted in the blocking buffer. Nuclei were counterstained with DAPI (Sigma) for 5 min and coverslips were mounted on slides with FluorSave (Merck). All procedures were performed at room temperature. Primary antibodies used in this study were Vimentin (1:100, Millipore), NFIA (1:250, abcam), GFAP (1:500, Dako), GFAP (1:500, Sigma), S100B (1:500, Dako), βIII‐tubulin (1:1000, Sigma), TDP‐43 (1:250, Abnova), NANOG (1:250, R&D Systems), SOX2 (1:250, Millipore), TRA‐1‐60 (1:250, Santa Cruz), OCT3/4 (1:250, Santa Cruz), SOX1 (1:100, R&D Systems), Nestin (1:1000, Millipore), Brachyury (1:100, R&D Systems), EOMES (1:600, abcam), FOXA2 (1:100, R&D Systems), GATA‐4 (1:100, Santa Cruz), SMI32 (1:250, Covance), and Caspase‐3 (1:500, Abcam).
Fluorescent imaging was performed on fields of view containing uniform DAPI staining using either an Axio Observer.Z1 (Zeiss) epifluorescence microscope or an LSM710 confocal microscope (Carl Zeiss). Images were processed and blindly analyzed by using the ImageJ64 (v 1.47) software.
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10

Optimized Sensory Neuron Differentiation

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Human sensory neurons were generated using a version of the Studer protocol [12 (link)] that we have optimized to generate neurofilament-expressing sensory neurons. Differentiated neurons were replated into 96-well plates at a density of 6,000 cells/cm2 (2,000 cells/well). Neurons were treated with 2 μM diltiazem immediately after plating. After 24 hours, cultures were fixed and immunostained for βIII-tubulin (Sigma, T8660). Images were acquired, and the total neurite length per neuron was determined, using a Cellomics Arrayscan XTI (ThermoScientific). n = 3-4 wells per condition.
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