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20 protocols using ma3 916

1

High-Resolution 3D Imaging of Skeletal Muscle

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Our approach for preparation and labeling of tissue is detailed in the Supplemental Data. We used wheat germ agglutinin (WGA) conjugated to a fluorophore for labeling of the sarcolemma, t-tubules and the interstitial space. RyRs were labeled with a monoclonal antibody (MA3-916, ThermoFisher Scientific, Waltham, MA, USA). After labeling, tissue sections were placed on a glass slide, embedded in Fluoromount-G (Electron Microscopy Science, Hatfield, PA, USA) and covered with a #1.5 coverslip. Three-dimensional image stacks were obtained from labeled tissue sections using a Zeiss LSM 5 Live Duo confocal microscope (Carl Zeiss, Jena, Germany) with a 63× oil immersion objective (numerical aperture: 1.4). Alexa Fluor 488 and 555 were excited using a 488 nm and 543 nm laser, respectively. Emitted light was band-pass filtered at 505 to 530 nm and long-pass filtered at 560 nm, respectively. Typical stack dimensions were 1024×1024×240 voxels at a resolution of 0.1×0.1×0.1 μm.
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2

Immunostaining and Immunoblot Antibodies

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The following antibodies were used for immunostaining or immunoblot analysis: anti-TRPV2 (1:200 dilution, AB5398, Millipore); anti-vinculin (1:100 dilution, V9131, Sigma); anti-connexin 43 (1:100 dilution, C6219, Sigma); anti-N-cadherin (1:100 dilution, 3B9, life technologies); anti-Cav3 (1:1,000 dilution, 610420, BD Pharmingen,); anti-LTCC (1:1,000 dilution, ACC033, Alomone); anti-SERCA (1:1,000 dilution, MA3919, Thermo); and anti-RyR (1:1,000 dilution, MA3916, Thermo). The anti-NCX antibody was generated in our laboratory (1:1,000 dilution).
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3

Molecular Profiling of Cardiac Calcium Handling Proteins

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Homogenates were prepared from the left atrial or cell samples and lysed using mixed cell lysates (RIPA: PMSF: phosphatase inhibitor cocktail = 100: 1: 1, Solarbio, China). Protein concentration was measured using a BCA assay kit (PC0020, Solarbio, China). Mini-PROTEAN Tetra (Bio-rad) electrophoresis was performed with 20 μg of protein loaded onto a 10% SDS-PAGE gel (80 V, 140 min). Proteins were transferred on PVDF membranes by wet transfer (300 mA, 90 min). The blocking process was performed in 5% BSA blocking solution at room temperature for 1 h, while the PVDF membranes were incubated with the primary antibodies overnight at 4°C. The following primary antibodies were utilized: anti-CaMKII (PA5-22168, Thermo Fisher, U.S.A.); anti-phospho-CaMKII (LS-C354565, Lifespan, U.S.A.); anti-RyR2 (MA3-916, Thermo Fisher, U.S.A.); anti-phospho-RyR2 (LS-C358303, Lifespan, U.S.A.); anti-SERCA (MA3-910, Thermo Fisher, U.S.A.); anti-PLB (MA3-922, Thermo Fisher, U.S.A.); anti-phospho-PLB (ab15000-50, Abcam, U.S.A.); NCX (MA3-926, Thermo Fisher, U.S.A.); and GAPDH (ab125247, Abcam, USA).
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4

Cardiac Protein Profiling Protocol

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Heart lysates were prepared as previously described [22 (link)]. Briefly, the whole hearts were homogenized and sonicated in lysis buffer (in mmol/L: Tris-HCl 50 [pH 7.4], NaCl 150, NaF 10, Na3VO4 1, EGTA 5, EDTA 5, 0.5% Triton X-100, 0.5% Na deoxycholate, 0.1% SDS, and protease inhibitors (#P8340, Sigma-Aldrich)). After standing on ice for 1 h allowing lysis, the homogenates were centrifuged at 13,000g 4 °C for 15 min. The supernatants were kept as whole cell proteins. Protein concentration was measured by BCA assay.
Proteins were separated on 4–12% Bis-Tris gels and transferred to PVDF membrane. The membrane was probed with primary antibodies against MG53 (provided by Dr. Jianjie Ma), NCX1 (1:1000, #R3F1, Swant, Switzerland), RyR2 (#MA3-916, Thermo Scientific), SERCA2a (#MA3-919, Thermo Scientific), Junctophilin-2 (JP2, #SC51313, Santa Cruz Biotechnology), Amphiphysin 2 (Bin1, #SC23918, Santa Cruz Biotechnology) and GAPDH (1:10,000, #G8975, Sigma-Aldrich) overnight at 4 °C, followed by incubation with appropriate horseradish peroxidase (HRP)-conjugated secondary antibodies (1:5000–1:10,000 dilution in PBS solution). The immunoreactions were visualized using an enhanced-chemiluminescent detection kit and the protein bands were quantified with Quantity One 1-D Analysis Software (Bio-Rad, USA).
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5

Cardiac Biomarker Expression Analysis

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Total RNA was extracted using TRIzol (Invitrogen) following the provider's recommendations and retrotranscribed into cDNA using iScript Supermix (Bio-Rad) following the manufacturer's instructions. Real-time qPCR was performed using Taq-man probes (Applied Biosystems) for Tnnt2, Myh6, and Actc1, and Kapa Sybr Fast (Kapa Biosystems) for IL33 using the primers Fw 5′-TCC AAC TCC AAG ATT TCC CCG-3′ and Rv 5′-CAT GCA GTA GAC ATG GCA GAA-3′. For input normalization, we used Gapdh Fw 5′-AGG TCG GTG TGA ACG GAT TTG-3′ and Rv 5′-TGT AGA CCA TGT AGT TGA GGT CA-3′. Western blot analyses were performed as described by Nelson et al. (2016) (link), using SERCA2 ATPase antibody (1:1,000, MA3-919, Thermo Scientific), ryanodine receptor antibody (1:1,000, MA3-916, Thermo Scientific), and MEF2C antibody (1:500, ab79436, Abcam). ELISA was performed using Mouse IL33 DuoSet from R&D.
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6

Histological Analysis of Neuroinflammation Markers

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A standard procedure was carried out as described previously [36 (link)]. Briefly, coronal sections (8 μm) were prepared at the level of the dorsal hippocampus (1.90–2.50 mm posterior to the bregma). Paraffin sections were dried, washed, permeabilized, blocked in 5% goat serum, and incubated overnight at 4 °C with antibodies against goat anti-SerpinA3N (RD; AF4709), mouse anti-NeuN (Millipore; MAB377), rabbit anti-Olig2 (Abcam; ab109186), rabbit anti-GFAP (Abcam; ab4648), rabbit anti-IBA1 (Huabio; ET1705-78), rabbit anti-phospho-RYR2 (Ser2808) (Biorbyt; orb1093816), and mouse anti-RYR2 (Thermo Fisher Scientific, MA3-916), followed by an Alexa Fluor 680-, 594-, or 488-conjugated secondary antibody (Thermo Fisher Scientific, A-21057, A-11058, A-11001, A-11008) for 1 h at room temperature. Finally, the cells were incubated with mounting medium (with DAPI) (Cat#S2110, Solarbio, Beijing, China) at room temperature for 15 min. Histological images were captured using a Pannoramic MIDI scanner (3D Histech, Hungary). The experiment was repeated in triplicate. ImageJ software was used to manually count positive cells in the same size field of view.
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7

Cardiomyocyte Immunostaining Protocol

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Cardiomyocytes were enzymatically isolated and fixed with 2% paraformaldehyde (Sigma-Aldrich) (w/v) according to a protocol detailed previously [7 (link)]. Fixed cells were permeabilized with 0.1% Triton X-100 (Sigma-Aldrich) in phosphate-buffered saline (PBS) for 10 min and then blocked with 10% filtered normal goat serum (NGS, Thermo Fisher Scientific) in PBS for 1 h. Samples were incubated with primary antibodies (type-2 RyR: MA3-916; JPH2: 40-5300, Thermo Fisher Scientific) overnight at 4°C, diluted 1 : 200 and 1 : 250, respectively, in incubation solution containing (w/v or v/v) 0.05% NaN3, 2% bovine serum albumin, 2% NGS and 0.05% Triton X-100 dissolved in PBS. Samples were washed in PBS and then incubated with secondary antibodies (anti-mouse Alexa Fluor 488, anti-rabbit Alexa Fluor 594, Thermo Fisher Scientific) for 2 h at room temperature, diluted 1 : 200 in incubation solution. Samples were washed in PBS and imaged to obtain pre-expansion images.
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8

Cryopreserved Cardiac Tissue Imaging

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Samples were snap-frozen in optimal cutting temperature (OCT) compound (Sakura Finetek Europe B.V., Alphen aan den Rijn, Netherlands) and stored at −80°C until usage. Tissue sections of 100μm thickness were acquired with a cryotome (CM 1950, Leica AG, Wetzlar, Germany), immediately immersed in 1% paraformaldehyde for 15min and subsequently washed in PBS. RyRs were immunolabeled (MA3-916 and A-21121, ThermoFisher Scientific, Waltham, MA, USA), the sarcolemma and extracellular matrix stained with wheat germ agglutinin (WGA, ThermoFisher), and nuclei with DAPI as described previously.15 (link) To stain L-type Ca channels, we used the same protocol on non-fixed tissue slices and applied rabbit anti-CACNA1C (1:200, ab58552, abcam) as primary and goat anti-rabbit conjugated to AF488 (1:400, A27034, ThermoFisher) as secondary antibodies. Tissue slices were mounted on a glass slide, embedded in Fluoromount-G (#17984-25, Electron Microscopy Science, Hatfield, PA, USA) and then dried for at least 24h at room temperature and <40% relative humidity.
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9

dSTORM and DNA-PAINT Imaging of RyR2, JPH2, and CAV3

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All primary antibodies used here were previously characterized for both immunofluorescence imaging and in vitro analyses of the targets RyR2, JPH2, and CAV3. The RyR2 antibody was a mouse monoclonal IgG (catalog no. MA3-916; Thermo Scientific, DE). See details on antibodies under Supplemental Experimental Procedures.
For dSTORM imaging, a secondary antibody conjugated to Alexa Fluor 647 was used and imaged in switching buffer. In DNA-PAINT imaging, the sample was immersed in a buffer (“buffer C” as in Jungmann et al., 2014 (link)) containing typically 200 pM of either an ATTO 655 or ATTO 550 imager strand, complementary to the docking strand linked to the secondary antibody that we aimed to image. The imager strands reversibly bind to the complementary docking strands. Using TIRF illumination the fluorophores of hybridized imager strands were imaged, while transiently immobilized and appeared in the image as transient fluorescent spots whose shape matches the point spread function (PSF) of the microscope in its focal plane. These events were recorded as a series of image frames (Figure S1).
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10

Quantitative Western Blot Analysis of Cardiac Proteins

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Protein extraction and Western blotting were performed as previously described.2 (link) Briefly, mouse or human tissue lysates or SR fractions were subjected to sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS-PAGE) and transferred onto polyvinyl difluoride (PVDF) membranes. The membranes were then incubated with antibodies in 5% milk against the following proteins: RyR2 (1:5,000; MA3-916, Thermo Fisher Scientific, Houston, TX), Na+/Ca2+-exchanger type-1 (NCX1; 1:1,000; R3F1, Swant, Bellinzona, Switzerland), calsequestrin type-2 (CSQ2; 1:1,000; PA1-913, Thermo Fisher Scientific), Ca2+/calmodulin protein kinase II phosphorylated RyR2 at Serine2814 (pS2814; 1:1,000; custom-made),16 (link) and GAPDH (1:10,000; MAB-374, Millipore, Billerica, MA). Membranes were then washed in tris-buffered saline and incubated with secondary anti-mouse and anti-rabbit antibodies (both 1:10,000) conjugated respectively to Alexa-Fluor 680 (Life Technologies, Carlsbad, CA) and IR800Dye (Rockland Immunochemicals, Gilbertsville, PA). The fluorescence was visualized on an Odyssey infrared scanner (Li-Cor, Lincoln, NE) and the bands were quantified using ImageJ (National Institute of Health, Bethesda, MD).
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