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80 protocols using vectorshield

1

Immunohistochemical Analysis of Lymphoid Tissues

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Lymph node, spleen, lung, and liver tissue samples were snap-frozen with optical cutting temperature compound (OCT) in liquid nitrogen and stored at −70°C until use. Frozen sections (8 µm) were prepared using a cryostat and immediately used or stored at −70°C until use. The sections were fixed with ice-cold acetone for 1 min, washed with PBS for 10 min, and blocked for 30 min with 3% BSA-PBS as a blocking solution. The anti-HEV marker PNAd-Alexa Fluor 488 and anti-B cell B220-APC antibodies (eBioscience) were diluted (1:200) in the blocking solution. Sections were incubated with these antibodies for 1 hr at room temperature or overnight at 4°C. Sections were washed with PBS. After washing, a coverslip was placed with Vectorshield (Vector Laboratories) mounting medium containing DAPI, and sections were analyzed using a Nikon C1 laser confocal microscope. For negative controls, the sections were stained by omitting the primary antibody.
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2

Immunofluorescence Staining of Cell Markers

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Cells were seeded into 8-chamber culture slides (LabTek®) at 5 × 104 cells/ml per chamber overnight. Then, samples were fixed with 1% (w/v) of paraformaldehyde in PBS for 10 min at room temperature (RT). Fixed cells were washed with PBS and cell permeabilization were performed with 1% (v/v) Triton X-100 in PBS for 5 min. Unspecific interaction sites were blocked with 3% (w/v) BSA/PBS. After washing, the slides were incubated with anti-O-GlcNAc, anti-CD133 or anti-CD44 primary antibodies (Abcam) diluted in 1% (m/v) BSA/PBS overnight at 4°C in darkness. Cells were washed with PBS, followed by incubation with secondary Alexa Fluor 647-conjugated goat anti-rabbit or Alexa 488-conjugated goat anti-mouse antibodies (Invitrogen) for 2 h at RT. Chambers were incubated with DAPI (SIGMA Aldrich) in PBS for 5 min at RT. After washing three times with PBS, the slides were mounted with Vectorshield® (Vector Labs, CA). Cells were examined under a Nikon A1R+ STORM confocal microscopy. Pictures were analyzed with ImageJ.
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3

Visualizing Repo and Mitochondria or Caspase-3 in CNS

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To visualize repo and mitochondria or active caspase-3 in the CNS, male third instar larvae were dissected in PBS (calcium-free saline) and fixed in 4% PFA in PBS at 25 °C for 20 min. After fixation, samples were washed 3 times with PBST for 10 min. They were then incubated in PBS containing 0.15% Triton X-100 and 10% NGS for 30 min, and reacted with mouse anti-reversed polarity (repo) IgG (1: 200, 8D12, DSHB) and rabbit anti-GFP IgG (1: 200, 598, MBL) or rabbit anti-cleaved caspase-3 IgG (1: 200, 5A1E, Cell Signaling Technology) at 4 °C for 16 h. After the reaction, samples were fluorescently labeled with anti-mouse IgG labeled with Alexa 594 (1: 200) and anti-rabbit IgG labeled with Alexa 488 (1: 200, A-11034, Molecular Probes) or anti-mouse IgG labeled with Alexa 488 (1: 200, A-11029, Molecular Probes) and anti-rabbit IgG labeled with Alexa 546 (1: 200, A-11035, Molecular Probes). After washing 3 times with PBST for 10 min, stained samples were mounted with Vectorshield (Vector Laboratories) and observed using a confocal laser scanning microscope (Fluoview FV 10i, Olympus).
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4

Immunolabeling of Isolated Cardiac Myocytes

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Single cardiac myocytes were isolated from right atrial tissue by enzymatic digestion (Lancaster et al., 2004 (link)). Cells or 10 μm frozen sections were subjected to immunolabelling as previously described (Jones et al., 2002 ). Details of the primary antibodies utilised are listed in Table 1. FITC-conjugated anti-rabbit or anti-mouse antibodies, as appropriate for the primary antibody (Dako, Denmark) were used to fluorescently tag the primary antibody. Following immunolabelling, myocytes were incubated for 2 h with wheat germ agglutinin (WGA) conjugated to rhodamine, a lectin that binds to N-acetylglucosamine within membranes (Vector, Burlingame, USA) to permit visualisation of membrane morphology.
To prevent photo-bleaching, myocytes were mounted in vectorshield (Vector, USA) and all slides were stored in the dark at 4 °C prior to examination by laser scanning confocal microscopy (Zeiss, Hertfordshire, UK). All fluorescent images were individually collected for each optical slice, using the same microscope and settings for the lasers and detector, from superimposing 6–10 optical slices taken at ≤1 μm intervals at each wavelength. Images of each intercalated disc were analysed by measuring their axes and area using the confocal software (LSM, Zeiss). Analysis of images such as density of label were performed using ImageJ v2.11x (NIH, USA).
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5

Retinal Immunohistochemistry Assay

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Eyes were enucleated, fixed in 4 % PFA (overnight, 4 °C), and washed in PBS, and retinas were isolated and cryoprotected in 30 % sucrose. Cryostat sections (10 μm) were collected, permeabilized with 1 % Triton (20 min), and blocked in 10 % normal goat serum (1 h). Sections were then incubated overnight at 4 °C with the primary antibody glial fibrillary acidic protein (GFAP) conjugated with Cy3 (1:200; Sigma Aldrich, Saint Louis, Mo, USA), tubulin B3 (1:300; mouse; Millipore), cleaved caspase-3 (1:100; rabbit; Cell Signaling Technology Inc., Danvers, MA, USA) or Iba1 (1:200; rabbit; Wako, Osaka, Japan). The nuclei were stained with 4′, 6-diamidino-2-phenolindole (DAPI), and incubated on the following day (1 h) in goat anti-mouse IgG conjugated with FITC (1:400; Santa Cruz Biotechnology Inc., Dallas, Texas, USA) or goat anti-rabbit IgG conjugated with Rhodamine (1:400; Biomedical Technologies Inc., Stoughton, MA, USA) or goat anti-rabbit IgG conjugated with Alexia Fluor 647 (1:1000; Cell Signaling Technology) secondary antibody, washed in PBS, and mounted with mount medium (Vectorshield; Vector Laboratories, Burlingame, CA, USA).
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6

Endothelial Progenitor Cell Labeling

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PbMNCs and PbMNCs‐QQ were suspended in EGM‐2MV medium containing 5% FBS and depleted hydrocortisone (1 × 106 cells/mL), and were cultured in a human fibronectin‐coated 96‐well Primaria plate (1 × 105 cells/100 μL/well) for 7 days. On day 7, the medium was replaced with fresh medium containing FITC‐labeled Ulex europaeus agglutinin I (FITC‐UEA‐I, 10 μg/mL, Vector Lab., Burlingame, California) and 1,1′‐dioctadecyl‐3,3,3′,3′‐tetramethylindo‐carbocyanine perchlorate‐labeled acetylated low‐density lipoprotein (DiI‐acLDL, 10 μg/mL, Biomedical Tech., Stoughton, Massachusetts). The attached cells were cultured for 4 hours for EPC labeling. The cells were washed with PBS twice and fixed with 4% paraformaldehyde phosphate buffer solution (PFA, Wako, Osaka, Japan) at 4°C for 30 minutes. The wells were then covered by Vector shield with DAPI (Vector) to avoid fluorescence decay and nuclear staining. The plates were kept at 4°C in the dark prior to observation. In each well, three to five micrographs with random fields were acquired using a fluorescence microscope (Keyence, Osaka, Japan). The FITC‐UEA‐1 and DiI‐acLDL double‐positive cells were counted as early EPC.
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7

Radioprotection Assay with γ-H2AX Foci Quantification

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NS-SV-AC were seeded on coverslips (Warner Instruments) in 12-well plates, and allowed to attach overnight. Cells were exposed, or not, to 8 Gy on ice, and were either immediately washed in cold PBS and fixed in 4% paraformaldehyde/PBS for 20 minutes, or placed at 37 °C and treated with, or without, drug 30 minutes post-radiation. After 16 h drug treatment, cells were washed and fresh medium was added. Twenty-four hours after irradiation, cells were fixed and processed for immunostaining. Non-specific protein interactions were blocked with 5% serum before incubation with anti-mouse γ-H2AX (Millipore) at 4°C, overnight. coverslips were washed in PBS before addition of Texas Red-conjugated anti-mouse antibody (Vector labs). Cells were washed and mounted with Vector Shield (Vector Labs). Images were acquired using TRITC and DAPI filter sets, and images were overlaid in ImageJ (NIH). The γ-H2AX foci counts were conducted using ImageJ Foci Count, and data analyzed by 2-way ANOVA to determine effects of radiation and drug on phospho-H2AX foci.
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8

Immunofluorescent Staining of Tight Junctions

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Cells were stained for the presence of the tight junction protein ZO-1 (O'Rourke et al., 2016 (link)). Cells were fixed with 4% (w/v) formaldehyde then quenched and permeabilized using NH4Cl/Triton-X100 solution (50 mM/0.2% v/v). Cells were washed twice with phosphate buffered saline pH 7.4 (PBS), blocked with 1% (w/v) bovine serum albumin (BSA) in PBS for 30 min, and incubated with primary antibody (ZO-1, Rabbit mAb, Biolabs, UK), diluted 1:1000 in a blocking buffer at room temperature for 1h. After incubation, cells were washed three times with the wash buffer (PBS with 0.05% Triton-X100) for 5 min each time on a rocking plate, and incubated at room temperature for 1h with the secondary antibody conjugated with AlexaFluor 488 (anti-rabbit IgG, Biolabs) diluted 1:500. Concanavalin A (ConA) conjugated with rhodamine (1:500 Vector labs, UK) was used for visualization of membranes, Alexa-488 conjugated Phalloidin (1:1000) was used for visualization of actin filaments (Abcam) and nuclei were visualized using Hoechst 33342 (ThermoFisher). Counterstains were incubated on the cells for 30 min before washing in PBS and the addition of the mounting medium (Vectorshield, Vector Labs, UK). Slides were imaged using a Zeiss LSM710 or LSM880 confocal microscope equipped with 63×/1.4 oil DIC objective and Zen black software (Zeiss).
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9

Immunohistochemical Analysis of VEGFR2 and PGP9.5 in Dorsal Root Ganglia and Plantar Skin

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Dorsal root ganglia Lumbar (L) 5 and plantar surface of hindpaws were excised and immersion fixed in 4% paraformaldehyde. This was followed by tissue immersion in 30% sucrose for 24 hours 4°C. Tissue was frozen in OCT and stored at −80°C until processing. Tissue sections were cut to thickness of 6 μm for dorsal root ganglia and 20 μm for plantar skin. Slides were washed in PBS and was followed by PBST for five minutes prior to incubation in blocking solution (5% FBS and 10% BSA in PBST) for one hour at room temperature. Sections were then washed three times in PBS for five minutes. Primary antibodies were prepared in blocking solution and sections were incubated overnight at 4°C. Primary antibodies used were: rabbit anti- vascular endothelial growth factor receptor 2 (VEGFR2: 1:100; Cell Signalling) and mouse anti- protein gene product 9.5 (PGP9.5; 1:10; Abcam). Slides were then washed in PBS three times for five minutes per wash. Sections were incubated with secondary antibody (1:1000; anti-rabbit alexafluor 488 or anti-mouse alexafluor 555) in PBST for 90 minutes at room temperature. Slides were washed in PBS and mounted with vectorshield (Vector Laboratories). Images were acquired using a Leica SPE confocal microscope.
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10

Subcellular Localization of Signaling Proteins

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To visualize the subcellular localization of endogenous or transfected YAP/TAZ, MAVS, or TBK1, NMuMG or HEK293A cells were infected with gVSV virus at 8 hpi, or transfected with plasmid specified in the results section for 24 hours, fixed in 4% paraformaldehyde, permeablized, blocked in 10% horse serum in PBS for 2 hours, and incubated sequentially with primary antibodies anti-YAP/TAZ or anti-Flag and Alexa-labeled secondary antibodies with extensive washing. Slides were then mounted with Vectorshield and stained with DAPI (Vector Laboratories). Immunofluorescence images were obtained and analyzed using the Nikon Eclipse Ti inverted microscope or by the Zeiss LSM710 confocal microscope. FACS analysis of GFP+ cells was performed at BD FACSCalibur, according to manufacturer’s manual. Detailed information of antibodies used in immunofluorescence assays is provided in Supplementary Table 2.
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