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7 protocols using goat anti rabbit ir dye 800

1

Immunoblotting of Cellular Proteins

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Protein was resolved in 10% Bis-Tris SDS-PAGE gels in MOPS buffer (250 mM MOPS pH 7.0, 250 mM Tris, 5 mM EDTA, 0.5% SDS) before being transferred to nitrocellulose membrane. The membranes were then blocked in immunoblot buffer consisting of 4% nonfat milk (Carnation) in TBS buffer (150 mM NaCl, 50 mM Tris pH 7.5). Membranes were then incubated with primary antibodies diluted in immunoblot buffer at 4°C overnight. After primary antibody incubation, membranes were washed extensively in TBS, followed by secondary antibody incubation in immunoblot buffer for 1 hr at room temperature. After washing in TBS, blots were scanned using a LI-COR Odyssey imager. Immunoblot primary antibodies included mouse anti-tubulin (1:500, DM1A, Calbiochem, Billerica, MA), mouse anti-FLAG (1:4,000, F1804, Sigma), rabbit anti-TCAB1 (1:2000, NB100-68252, Novus Biologicals, Littleton, CO), mouse anti-Coilin (1:250, IH10, Abcam, Cambridge, United Kingdom), and mouse anti-TERT (1:2000 (Wu et al., 2015 (link))). Secondary antibodies included goat anti-mouse Alexa Fluor 680 (1:2000, Life Technologies, Carlsbad, CA) and goat anti-rabbit IR Dye 800 (1:10,000, Rockland Immunochemicals, Pottstown, PA).
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2

Evaluation of Protein Acetylation by Western Blotting

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For Western blotting, cells were grown in the presence of plain synthetic medium with 2% raffinose or 2% galactose (supplemented as indicated with 1% DMSO [dimethyl sulfoxide] or 1% DMSO + 50 μM TSA) for 16 h to log phase and harvested by centrifugation. Cells were lysed with 0.1 M NaOH and resuspended in reducing sample buffer. The equivalent of 1–2 OD600 of culture was separated on a 15% SDS–PAGE, blotted onto a nitrocellulose membrane, and labeled with an antibody against anti-acetylated proteins (Cell Signaling #9441) at 1:1000 dilution and anti-Fibrillarin antibody (ThermoFisher Scientific 38F3) at 1:2000 dilution. Secondary antibodies were goat anti–mouse-Alexa680 (ThermoFisher Scientific A-21057) used at 1:10,000 dilution and goat anti–rabbit-IRDye800 (Rockland) used at 1:5000 dilution. Staining was visualized on an Odyssey CLx Infrared Imaging System (Li-Cor).
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3

Quantifying Mas Receptor Expression in Retinal Development

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To quantify the level of Mas receptor protein expression during development, retinal tissue was collected from P1, P15, P21, and P60 wild-type mice in cold RIPA buffer (Sigma, St Louis, MO) supplemented with protease inhibitors and were homogenized by sonication. Homogenized tissues were centrifuged at 12,000 ×g for 15 min at 4 °C, and the supernatant was collected. The protein concentration was detected with the Bio-Rad Protein Assay kit (Hercules, CA). Forty microns of protein samples were loaded and separated on 4–12% gradient gels for 1 h at 120 V in Tris-glycine buffer and electrophoretically transferred onto polyvinylidene difluoride membrane. Immunodetection was performed on blots blocked in fluorescence blocking buffer for 1 h (Rockland Immunochemicals, Gilbertsville, PA) and then incubated with primary (rabbit anti-Mas; 1:2,000; Alomone Laboratories), and secondary (goat anti-rabbit IR Dye 800; 1:5,000; Rockland Immunochemicals) antibodies. β-Actin immunodetection was used as a loading control. Immunoblots were visualized by using a Li-Cor odyssey infrared imager (Odyssey; Lincoln, NE). We used Image J software to quantify the relative level of the Mas protein after normalizing it to β-actin.
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4

Western Blotting Protocol for Protein Detection

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RIPA extracts (20–40 µg protein per lane) and purified His-tagged proteins from conditioned media (equivalent of 20 µl conditioned medium) were subjected to PAGE on 8–10 % polyacrylamide gels and western blotting according to standard procedures. Nitrocellulose blots (Whatman Optitran BA-S85, GE Healthcare, Little Chalfont, UK) were blocked with PBS/Odyssey Blocking Buffer (LI-COR Biosciences, Lincoln, NE, USA) (1:1), followed by overnight incubation with primary antibodies at 4 °C. Antibodies used were against MET N-terminus (clone EP1454Y, Epitomics, Abcam, Cambridge, UK), MET C-terminus (clone D1C2), phosphorylated (P)-MET (Y1234/1235, clone D26), P-AKT (S473, clone D9E), P-ERK1/2 (T202/Y204, clone 20G11) (all CST), GAPDH (clone 6C5, Abcam), and α-tubulin (clone 236-10501, Molecular Probes, Life Technologies). Biotin groups and primary antibodies were visualized using, respectively, streptavidin-680 (Molecular Probes, Life Technology) and appropriate secondary antibodies [goat-anti-rabbit-IRDye800 (Rockland Immunochemicals, Gilbertsville, PA, USA) or Alexa Fluor 680 goat-anti-mouse IgG (Molecular Probes, Life Technologies)]. Blots were scanned on the Odyssey imager (LI-COR Biosciences).
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5

Antibody Characterization and Immunoblotting Protocol

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Anti-Hyal1 rabbit polyclonal antibody was raised and characterized by our laboratory [35 (link)]. Anti-dsRed rabbit polyclonal was from Takara Bio USA, Inc. (Mountain View, CA). Anti-integrin β1 clone P5D2 was from Abcam (Cambridge, MA). Antibodies to ATG5 (rabbit polyclonal), LC3B (rabbit polyclonal), N-cadherin (13A9, mouse monoclonal), β-catenin (mouse monoclonal), FAK (rabbit polyclonal) and phospho-FAK (Tyr397, rabbit polyclonal) were from Cell Signaling Technology (Danvers, MA). Goat anti-rabbit IRDye800 and donkey anti-mouse IRDye800 were from Rockland Immunochemicals (Limerick, PA), and goat anti-mouse DyLight680 was from Thermo Fisher Scientific (Waltham, MA). Anti-CD63 mouse monoclonal and type IV mouse collagen were from BD Biosciences (San Jose, CA). All other reagents were from Thermo Fisher Scientific unless noted otherwise.
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6

Western Blot Analysis of E-cadherin and Twist

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Cells (105) were incubated with 50 μL lysis buffer supplemented with phenylmethanesulfonylfluoride on ice. Samples were clarified by centrifugation at 22,000 × g for 5 min at 4°C. Lysates containing equal amounts of total protein (20 μg) were separated in Bio-Rad mini Protean gels (Hercules, CA). Gels were run and transferred onto polyvinylidene difluoride transfer membranes (Millipore, Bedford, MA). Membranes were blocked with the Odyssey infrared imaging system blocking buffer (LI-COR, Lincoln, NE) probed with primary antibodies to E-cadherin (ab53033; 1:500) or Twist (ab50887; 1:50), purchased from Abcam, Cambridge, MA, overnight at 4°C. Membranes were washed and incubated with goat anti-rabbit IRDye 800 (Rockland Immunochemicals, Gilbertsville, PA) or goat anti-mouse IRDye 680 Infrared (Li-COR) for 30 min at room temperature. Membranes were washed and fluorescence was detected using the Odyssey infrared imaging system (LI-COR).
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7

Neutralization Assay for Dengue Antibodies

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Ten-fold serial dilutions of mAbs were added to an equal volume of dengue virus (2500 PFU/ml) and transferred onto Vero cells in a 96-well micro-culture plate for 2 h in 5% CO 2 . Inoculum was then removed and media overlay (M199 + 1.5% carboxymethyl cellulose + 2.5% FBS) was added to cells. Cells were subsequently incubated in 5 % CO 2 , 37 C for 3 days. Cells were then fixed with 80% acetone in PBS and virus foci were stained with rabbit anti-NS1, followed by goat anti-rabbit IRdye800 (Rockland). Finally, plates were scanned on the Odyssey Imager (Li-Cor Biosciences) . The 50% inhibition concentration (IC 50 ) values for mAbs were calculated by nonlinear regression analysis using Graphpad Prism 5 software.
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