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Avidin d

Manufactured by Vector Laboratories
Sourced in United States, United Kingdom

Avidin D is a high-affinity biotin-binding protein derived from egg whites. It exhibits a strong, noncovalent interaction with biotin, making it a useful tool for various bioanalytical and research applications.

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13 protocols using avidin d

1

Surface Immobilization of NCBD and ACTR Proteins

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Adhesive silicone hybridization chambers (Secure Seal Hybridization Chambers, SA8R-2.5, Grace Bio-Labs) were cut in half and bound to PEGylated, biotinylated quartz coverslips (Bio_01, MicroSurfaces, Inc.) to form 150-µl reaction chambers. For surface immobilization experiments, 10 nM NCBD-Avi was pre-coupled to 1 µM Avidin D (Vector Labs) in NaP buffer (50 mM sodium phosphate pH 7.0, 0.01% Tween 20), and immobilized for 10 min in a reaction chamber at a concentration of 20 pM NCBD-Avi/2 nM Avidin D. ACTR-Avi was immobilized by incubating 3 µM Avidin D (Vector Labs) in NaP buffer for 5 min in a reaction chamber, followed by three washing steps with NaP buffer to remove unbound Avidin. Afterwards, the surface was treated with 10 pM ACTR-Avi. With these protocols, a surface coverage of 0.1–0.3 molecules/µm2 was achieved.
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2

Chromosome Analysis of Sugarcane Hybrids

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Chromosome preparation, chromosome spreading and GISH experiments were performed as described in D’hont et al. [24] (link). Genomic DNA from E. arundinaceus HN 92-77 and HN 92–105 was labeled with digoxigenin-11-dUTP (Roche) and genomic DNA from Badila and CP 84–1198 was labeled with biotin-16-dUTP (Roche) using the Nick Translation Kit (Roche). To detect signal from biotin-labeled probes, Avidin D, Rhodamine 600 (XRITC) and biotinylated anti-avidin antibody (Vector Laboratories, Burlingame, CA) were used. To detect signal from digoxigenin-labeled probes, sheep-anti-digoxin-FITC (Roche, Lewes, UK) and rabbit-anti-sheep-FITC (Roche, Lewes, UK) were used. Chromosomes were then counter stained using DAPI in Vectashield anti-fade solution Vectashield (Vector Laboratories, Burlingame, CA). The hybridization signals were observed on an AxioScope A1 Imager fluorescent microscope (Carl Zeiss, Gottingen, Germany). Images were captured digitally with an AxioCam MRc5 and AxioVision v.4.7 imaging software (Carl Zeiss, Gottingen, Germany).
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3

Immunohistochemical Analysis of Key Renal Proteins

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Frozen 8-mm sections were washed with PBS, blocked with 5% (w/v) BSA/PBS (1 h at RT), incubated with a primary antibody anti-Xbp1s (1:50; 619502, BioLegend, San Diego, CA), anti- NKCC2 (1:200; NKCC21-A, Alpha Diagnostic International, San Antonio, TX), or anti-NCC (1:200; SPC-402D, StressMarq, Biosciences Inc., Victoria, Canada) at 4°C overnight, and detected by secondary antibodies conjugated with Alexa Fluor 594 or Alexa Fluor 488 (1:500; Molecular Probes, Eugene, OR). Sections stained with Lotus Tetragonolobus Lectin (LTA) were incubated with fluorescein-labeled LTA (1:500; FL-1321, Vector Laboratories, Burlingame, CA) at RT for 30 min before washing. Sections stained with Dolichos Biflorus Agglutinin (DBA) were incubated with biotinylated DBA (1:400; B-1035, Vector Laboratories, Burlingame, CA) at 4°C overnight, and detected by fluorescein Avidin D (1:500; A-2001, Vector Laboratories, Burlingame, CA).
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4

Multicolor Immunofluorescence Staining of Spinal Cord Sections

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Mice were perfused with Tyrode’s solution followed by 4% paraformaldehyde in PBS. The spinal column was removed, post-fixed, decalcified, cryoprotected, embedded and frozen in OCT (Cellpath, Newton, UK). 12 μm sections were blocked with Avidin D and biotin (Vector Labs, Burlingame, CA), and stained with the following primary and secondary antibodies: goat anti-MBP (1:300, Millipore), Alexa Fluor 488-conjugated rabbit anti-goat IgG (1:300, Life Technologies), biotinylated rat anti-CD45 (1:100, eBioscience), and Alexa Fluor 647-conjugated streptavidin (1:300, Life Technologies). Nuclei were labeled with DAPI (Life Technologies). Images were acquired on a Nikon A1 confocal microscope (Nikon, Tokyo, Japan).
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5

Intracellular Biotin-MHCII Visualization

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Before intracellular staining, samples were incubated with Avidin-D (10ug/ml, Vector laboratories) in staining buffer for 15 minutes on ice to saturate all unbound surface biotin. Subsequently, cells were prepared for intracellular staining using an intracellular staining kit (eBioscience). Cells were stained with streptavidin-Alexa647 to visualize the intracellular biotin-MHCII. Ab to EEA1, Lamp1, and RAB5 or RAB7 followed by the appropriate secondary stain were included for colocalization studies at this point (table III). At the end of the staining, cells were fixed in 1% formaldehyde in PBS for 20 minutes, washed, and resuspended in PBS for acquisition.
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6

Quantitative Anti-dsDNA Antibody ELISA

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Antibody concentrations were adjusted to 10 µg/ml, and four consecutive 1:3 dilutions in blocking solution (1% BSA in PBS) were prepared. ELISA assays were performed as described previously (Radic et al., 1993a (link)). Immulon 4 HBX ELISA plates (Thermo Fisher Scientific) were coated with 10 µg avidin D (Vector Laboratories) in PBS at 4°C overnight, blocked in PBS with 1% BSA at RT for 2 h, and washed with PBS with 0.05% Tween (PBS-T). Biotinylated dsDNA was bound to avidin-coated plates at 37°C for 1.5 h. Diluted antibodies were applied for 1.5 h at 37°C, plates were washed three times, and DNA–Ab complexes were detected with alkaline phosphatase–conjugated anti–human IgG (H+L) Ab (Bio-Rad Laboratories). After absorption for 90 min, plates were washed and the remaining anti-dsDNA Abs were quantified using AP substrate (Sigma-Aldrich). The OD was determined at 405 nm.
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7

Vocal Fold Collagen and Hyaluronic Acid Detection

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Ten-micrometer cryostat coronal sections of vocal folds were prepared and air dried. Double immunohistochemical staining was performed to detect HA and collagen type III in normal and scarred vocal folds, with nuclear counterstaining by TOTO-3 (Molecular probes, Eugene, OR). Sections were fixed for 1 minute at room temperature in 4% paraformaldehyde (PFA), and washed three times in phosphate-buffered saline (PBS). Sections were then blocked with 5% normal goat serum in 0.1% Triton-X in PBS for 1 hour, then incubated overnight at 4°C with mouse monoclonal anti-collagen type III antibody (1:4,000; Sigma-Aldrich, St. Louis, MO) and biotinylated HA binding protein (2.5 μg/mL; Seikagaku Co., Tokyo, Japan) with 1% normal goat serum in 0.1% Triton-X. Next day, the sections were washed in PBS and incubated for 1 hour with Cy3-conjugated anti mouse IgG (1:400; Amersham Biosciences, Piscataway, NJ), Avidin-D (1:1000, Vector Labs, Burlingame, CA), and TOTO-3 (200 nM). Finally, samples were washed three times in PBS, mounted in Vectashield and cover-slipped (Vector Labs) for observation under a laser-scanning confocal microscope (Bio-Rad H600, Hercules, CA). Rat skin was used as a positive control for each staining process. Omission of the primary antibody served as a negative control.
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8

GFAP and CD11b Protein Levels in BCAS Mice

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Protein levels of glial fibrillary acidic protein (GFAP) and CD11b in the sham/BCAS-treated wild-type and Btg2−/− mice brain were determined by ELISA as previously described [38 ]. In brief, pulverized brain samples were homogenized on ice using a Polytron homogenizer (Kinematica, Luzon, Switzerland) in ice-cold RIPA lysis buffer (10 ml/g of wet weight; MilliporeSigma, Burlington, MA, USA) containing 0.1% SDS and complete protease inhibitor cocktail (Roche). After centrifugation at 100,000g for 1 h at 4 °C, the supernatant was aliquoted and analyzed by ELISA with the appropriate sets of antibodies. Colorimetric quantification was performed on an iMark plate reader (Bio-Rad) after incubation with horseradish peroxidase (HRP)-linked Avidin-D (Vector Laboratories, Burlingame, CA, USA) or anti-rabbit IgG (H+L), HRP conjugate (Promega, Madison, WI, USA) and 3,3′,5,5′-tetramethylbenzidine substrate (Sigma Aldrich, St. Louis, MO, USA). Protein concentrations in each sample were performed using the Protein Assay BCA kit (Fujifilm Wako Pure Chemical).
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9

Single-molecule ACTR-NCBD binding assay

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The single-molecule binding experiments were conducted as described before (7 (link)). In short, adhesive silicone hybridization chambers (Secure Seal Hybridization Chambers, SA8R-2.5; Grace Bio-Labs) were fixed onto PEGylated, biotinylated quartz coverslips (Bio_01; MicroSurfaces, Inc.); 0.2 mg/mL Avidin D (Vector Labs) were incubated for 5 min in a reaction chamber, followed by addition of 10 pM ACTR–Cy3B to yield a surface coverage of 0.1 to 0.3 molecules per µm2. Binding experiments were conducted in the appropriate PEG solution, supplied with 16 nM CF680R-labeled NCBD, 0.01% Tween 20, 1% (wt/vol) glucose, 0.4 mg/mL glucose oxidase, 400 U/mL catalase as oxygen scavenging system, as well as 1 mM methyl viologen and 1 mM ascorbic acid as triplet quenchers. Addition of these components led to a 0.1-fold dilution of the PEG solution, which was taken into account.
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10

Liver Morphology and UGT1A Protein Analysis

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To analyze liver morphology, tissue samples were fixed in 10% buffered formalin phosphate (Fisher Chemicals, SF100-4), transferred to 70% ethanol, and processed at the UCSD Tissue Technology. Samples were embedded in paraffin, sliced into 5 μm sections, and stained with H&E (hematoxylin and eosin). For the staining of UGT1A proteins (Santa Cruz Technologies, sc-271268), paraffin liver sections were prepared in the UCSD Tissue Technology. Formalin-fixed, paraffin-embedded liver slides were deparaffinized and rehydrated, using xylene followed by alcohol and PBS washings. Antigen retrieval of tissue slides and the immunohistochemical staining with a primary antibody, secondary biotinylated antibody (BD Pharmingen, 550337), and Avidin D (Vector Laboratories, A-2004) were achieved as described previously (7) . Primary antibody was diluted 1:100, and secondary antibody was diluted 1:200. The images were captured on an upright light/fluorescent microscope (Zeiss) equipped with AxioCam camera.
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