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12 protocols using s302380

1

Histological Analysis of Muscle Tissue

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Tissue cross sections (10 μm) were cut from the muscle midbelly in a cryostat at –20°C and adhered to SuperFrost Plus slides. Sections were air-dried and then stained with H&E. Slides for immune cell staining were fixed in acetone for 10 minutes at –20°C and then air-dried. MuSC slides were fixed in 4% PFA for 15 minutes at room temperature and quenched with hydrogen peroxide, and heat-mediated antigen retrieval was performed. Unfixed tissue sections were used for muscle fiber type staining. Prepared slides were blocked in 10% normal goat serum (Invitrogen, Thermo Fisher Scientific, 10000C) or Mouse on Mouse blocking reagent (VECTOR Laboratories, MKB-2213) before overnight incubation at 4°C with primary antibodies. The following day, slides were incubated with appropriate secondary antibodies and mounted using Fluorescence Mounting Medium (Agilent Dako, S302380). Fluorescent images were captured using a Nikon A1 confocal microscope.
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2

Immunofluorescence Staining of pS65-Ub and pS129-αsyn

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Following target retrieval and blocking, brain sections were incubated in primary antibodies against pS65‐Ub (in‐house, 1:650) and pS129‐αsyn (Wako Chemicals USA, 015‐25191; 1:3000) at 4°C overnight and in secondary antibodies (Invitrogen, A‐11034 and A‐11004; 1:1000) with DAPI (Sigma–Aldrich, D9542; 1:1000) at room temperature for 1.5 h. 3% Sudan black (SPI Supplies, 02560‐AB) was used to quench autofluorescence before slides were coverslipped in fluorescence mounting medium (Agilent, S302380). After immunofluorescence staining, super‐resolution confocal (Airyscan) images were taken with a LSM 880 microscope (Zeiss, Oberkochen, Germany) with z‐stack.
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3

Dual Immunofluorescence Staining of CK19 and Ki67

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Antigen retrieval was performed similarly to the immunohistochemistry procedure above. Tissue sections were blocked with a mixture of goat serum and bovine serum albumin for 1 h. Tissue sections were incubated with a mixture of antibodies for CK19 (DSHB TROMA-III, RRID: AB_2133570,1:100) and Ki67 (Cell Signaling #12202, RRID: AB_2620142, 1:500) for 2 h at room temperature. After washing, tissue sections were incubated with a mixture of goat anti-rat Alexa Fluor 594 (ThermoFisher, RRID: AB_10561522 #A-11007, 1:200) and goat anti-rabbit AlexaFluor 488Plus (ThermoFisher #A-32731, RRID: AB_2633280 1:200) secondary antibodies and protected from light. Sections were incubated with DAPI (#D1306 ThermoFisher) for nuclear counterstain and mounted in fluorescence mounting media (#S302380, Agilent). Images were acquired with the EVOS M5000 (ThermoFisher) fluorescence microscope using a 40X lens. At least 10 sections were acquired per tissue section, and ImageJ was used to analyze the double-positive CK19 and Ki67 areas.
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4

Immunolocalization of Mitochondrial Proteins

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Human and frog ovaries were fixed in 4% PFA in PBS overnight at 4 °C, washed, embedded in paraffin blocks and cut into 5 µM sections. After deparaffinization, antigen retrieval was performed by heating the slides for 15 min in 10 mM sodium citrate at pH 6. Sections were blocked and permeabilized in 3% BSA, 0.05% Tween-20 and 0.05% Triton X-100 for 1 h at room temperature. Sections were incubated overnight at 4 °C in the presence of primary antibodies (1:100): anti-ATP5A1 (Abcam, ab14748) and anti-HSPE1 (Thermo, PA5-30428); then 2 h at room temperature with secondary antibodies (1:500). Antibodies and dyes used were as follows: goat anti-rabbit Alexa488 or Alexa555 (1:500, Thermo, A-11008, A-21428), goat anti-mouse Alexa647 (Thermo, A21236) and Hoechst dye (1:500, Abcam, ab145597). A droplet of mounting medium (Agilent, S302380) was added onto the section before imaging using the LAS X software (Leica, v3.5.5.19976) in a Leica TCS SP8 microscope equipped with 40× (NA 1.30, Leica 506358) and 63× (NA 1.40, Leica 506350) objectives.
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5

Immunostaining of Mitochondrial Stress

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Cells were seeded on glass coverslips coated with poly-D-lysine hydrobromide (Sigma-Aldrich, P6407) and incubated with or without 10 µM CCCP in medium for 4 h. After fixation with 4% paraformaldehyde, cells were permeabilized with 0.05% Triton X-100 in PBS and blocked with 10% normal goat serum. For immunofluorescence, cells were incubated with primary antibodies against p-S65-Ub (in-house; 1:260) [25] and TOMM20 (Santa Cruz Biotechnology, sc-17764; 1:50), followed by incubation with secondary antibodies (Invitrogen, A-11034 and A-11004; 1:1000). Nuclei were stained with Hoechst 33342 diluted 1:5,000. Coverslips were mounted onto microscope slides using fluorescence mounting medium (Agilent, S302380). For immunocytochemistry, cells were incubated with primary antibody against p-S65-Ub (in-house; 1:500) [25] and then in Envision-Plus rabbit-labeled polymer HRP (Agilent, K4011). Peroxidase labeling was visualized with 3,3ʹ-diaminobenzidine (Agilent, K4011). Cells on coverslips were then counterstained with Lerner 1 hematoxylin mounted with Cytoseal mounting medium after dehydration and clearing.
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6

Muscle Histological Characterization

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Cross‐sections (10 µm) were cut from the muscle mid‐belly in a cryostat at −20°C and adhered to SuperFrost Plus slides. Sections were air‐dried and then stained with hematoxylin and eosin (H & E). Slides for immune cell staining were fixed in acetone at −20°C and then air‐dried. Satellite cell staining slides were fixed in 4% paraformaldehyde (PFA), quenched with hydrogen peroxide, and antigen retrieval performed. Unfixed tissue sections were used for muscle fiber type staining. Prepared slides were blocked in 10% normal goat serum (Invitrogen 10000C) or Mouse on Mouse (M.O.M) blocking reagent (Vector Laboratories, MKB‐2213) as appropriate prior to overnight incubation at 4°C with primary antibodies. The following day, slides were incubated with Alexa Fluor conjugated secondary antibodies and mounted using Fluorescence Mounting Medium (Agilent Dako, S302380). Fluorescent images were captured using a Nikon A1 confocal microscope.
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7

Dual Immunofluorescence Staining of CK19 and Ki67

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Antigen retrieval was performed similarly to the immunohistochemistry procedure above. Tissue sections were blocked with a mixture of goat serum and bovine serum albumin for 1 h. Tissue sections were incubated with a mixture of antibodies for CK19 (DSHB TROMA-III, RRID: AB_2133570,1:100) and Ki67 (Cell Signaling #12202, RRID: AB_2620142, 1:500) for 2 h at room temperature. After washing, tissue sections were incubated with a mixture of goat anti-rat Alexa Fluor 594 (ThermoFisher, RRID: AB_10561522 #A-11007, 1:200) and goat anti-rabbit AlexaFluor 488Plus (ThermoFisher #A-32731, RRID: AB_2633280 1:200) secondary antibodies and protected from light. Sections were incubated with DAPI (#D1306 ThermoFisher) for nuclear counterstain and mounted in fluorescence mounting media (#S302380, Agilent). Images were acquired with the EVOS M5000 (ThermoFisher) fluorescence microscope using a 40X lens. At least 10 sections were acquired per tissue section, and ImageJ was used to analyze the double-positive CK19 and Ki67 areas.
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8

Visualizing HeLa Cell Membrane and ER Structure

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HeLa cells were reseeded 24 h post-transfection on 12 mm glass coverslips (Fisher Scientific). The next day, cells are fixed for 20 min with 4% EM-grade paraformaldehyde (PFA; Electron Microscopy Sciences 15710) and 4% sucrose in PBS at room temperature and washed three times in PBS.
To visualize the plasma membrane, cells were incubated with wheat germ agglutinin (WGA) conjugated with Alexa Fluor 594 (1:200, Invitrogen w11262) for 10 min at room temperature and washed twice with PBS. Afterwards, the nuclei were stained with Hoechst 33342 (1:2,000; Invitrogen H3570) for 10 min at room temperature and washed twice with PBS. Coverslips were mounted using fluorescent mounting medium (Dako S302380) and stored at 4 °C before being subjected to fluorescence microscopy.
To visualize the ER, fixed cells were permeabilized with 0.5% Triton-X in PBS for 5 min. After washing with PBS, coverslips were blocked with 3% BSA in PBS for 1 h at room temperature. Next, cells were incubated for 2 h with a primary chicken anti-calreticulin antibody as a marker for the ER (1:500, Ab14234, Abcam, USA), followed by three washes with PBS and staining with an Alexa Fluor 594® conjugated goat anti-chicken IgY secondary antibody (1:500, A-11042, Thermo Fisher Scientific, USA) for 1 h. Nuclear staining and mounting were performed as described above.
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9

Visualizing Lipid Uptake in Subcutaneous WAT

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Mice were fasted for 4 hr and subjected to an oral gavage of BODIPY 500/510 C1, C12 fatty acids (2 μg/g BDW, #D3823; Molecular Probes). 3 hrs later, mice were euthanized and subcutaneous WAT was dissected. Tissues were immediately frozen in liquid nitrogen and stored at −80°C. Tissue pieces <2 mm were excised, mounted with fluorescence mounting medium (#S302380; Dako) on microscope slides with cover glasses, and examined for fluorescence with argon-ion laser excitation at 488 nm on a Leica TCS SP5 confocal microscope.
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10

Quantifying Neuronal Transduction with rAAV2/7

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The brains of 3 animals, that were injected with rAAV2/7-CAG-GCaMP6s, were dissected 3 weeks after injection, postfixed in 4% PFA for 10h and dehydrated in 30% sucrose for 3 days at 4°C (Sigma Aldrich, S9378). Brains were sectioned in the coronal plane on a sledge microtome (40 μm). The slides were incubated with primary antibodies anti-GFP (Abcam, ab6556, conc: 1:500) and anti-NeuN (Millipore, Mab377, conc: 1:1000) diluted in 0.3% Triton X-100 (Sigma-Aldrich, T8787) supplemented with 2% donkey serum (Abcam, ab7475) for 10 h at 4°C. After washing with PBS for 3 × 5 min, sections were incubated with secondary antibodies Alexa Fluor 488 anti-rabbit (Thermo Fisher, A-21206) and Alexa Fluor 568 anti-mouse (Thermo Fisher, A10037) for 1h at 4°C (both 1:500 diluted). Sections were counter-stained with DAPI, mounted with fluorescent mounting medium (Dako, S302380) and coverslipped. Slides were imaged using a confocal microscope (Zeiss, LSM 700). The number of GCaMP6s positive cells and NeuN positive cells around the injection site were counted on 3 sections per bird and the transduction rate determined.
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