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35 protocols using ab81321

1

Immunoprecipitation of NRP1 from Murine Splenocytes

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Ten million of activated Murine splenocytes where washed with PBS at 4°c, then lysed in buffer: EDTA 1mM, NaCl150mM, Tris HCl 25mM, glycerol 10%. Antiproteases, antiphosphatases and detergent (final concentration 0.1% NP40) were added extemporaneously. Lysate was centrifuged at 20,000 G for 15 min at 4°c to remove debris. Preclearing was performed: 15μL of Protein G Sepharose 4 Fast Flow beads (Sigma-Aldrich) were added to the lysate and incubated for 1h at 4°c under rotating wheel. Supernatant was divided in two conditions for incubation with 2μG of antibodies: either rabbit anti-mouse NRP1 (ab81321, AbCam) or rabbit IgG control, for 1h at 4°c under rotating wheel. Then, lysates were respectively incubated with 15μL of Protein G Sepharose for 90 min at 4°c under rotating wheel. Beads were washed with PBS at 4°c. Protein complexes were eluted by adding 4X Laemmli buffer followed by heating at 95°c for 5 min. Beta-mercaptoethanol was added and the whole eluate was reheated for 1min and centrifugated. Proteins were resolved on 10% PAGE and analyzed by immunoblotting. Antibodies used included rabbit anti-mouse NRP1 (ab81321, AbCam) and rabbit Anti mouse PD1 (PRS4065, Sigma-Aldrich), diluted in TTBS BSA 5%.
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2

Western Blot Analysis of NRP1, Na/K-ATPase, GDNF

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After blocking by 5% skimmed milk, the samples were incubated with primary antibody (rabbit anti-NRP1, ab81321, Abcam, 1:250; mouse anti-alpha 1 Na/K-ATPase, ab7671, Abcam, 1:250; rabbit anti-GDNF, ab18956, Abcam, 1:100; mouse anti-β-actin, sc47778, Santa cruz, 1:1000; rabbit anti-Histone H3 antibody, BS1660, bioworld, 1:500) at 4°C overnight [57 (link)]. Then, the samples were incubated with IRdye secondary antibodies (goat anti-Rabbit, LI-COR, Odyssey, 1:1000; goat anti-Mouse, LI-COR, Odyssey, 1:1000) at room temperature for 2h. Finally, the protein bands were scanned by Odyssey imaging system (LI-COR, USA) and quantified with ImageJ software (National Institutes of Health, USA).
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3

Immunofluorescence Analysis of 3D Angiogenic Markers

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The distribution and localization patterns of NRP1, LATS1, YAP, and Ki67 in HDMECs cultured in 3D cell culture hydrogels were detected using immunofluorescence. The gels were fixed in 4% paraformaldehyde for 30 min, washed thrice with PBS, and incubated with 0.2% (v/v) Triton X-100 in 5% BSA at 37 °C for 1 h. The hydrogels were incubated with anti-rabbit NRP1 (1:100, ab81321, Abcam, Cambridge, UK), anti-rabbit LATS1 (1:100, bs-7913R, Bioss Antibodies, China), anti-rabbit YAP (D8H1X) (14074, Cell Signaling Technology, 1:100, Danvers, MA, USA), anti-rabbit Ki67 (1:100, 14-5698-82, RRID: AB_10854564, Thermo Fisher Scientific, Waltham, MA, USA) at 4 °C overnight, washed thrice with PBS, and incubated with Alexa Fluor 555- and 488-conjugated goat anti-rabbit secondary antibodies (1:500; P0179 and P0176, respectively; Beyotime Institute of Biotechnology, Shanghai, China) at 37 °C for 1 h in the dark. All sections were counterstained with 4′,6-diamidino-2-phenylindole (DAPI) (1:1000, C1005, Beyotime Institute of Biotechnology, Shanghai, China) for 5 min. Images were captured using a Zeiss LSM 880 confocal microscope and processed using LSM image software.
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4

Western Blot Analysis of NRP1 and NRP2

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Equal amounts of protein were subjected to electrophoresis using Mini-Protean TGX Stain-Free Gels (Bio-Rad, Hercules, CA, USA) and then transferred onto polyvinyl fluoride membrane. Blocking was performed with 5% non-fat milk in Tris-Buffered Saline. Primary antibody incubations were carried out at +4°C for overnight (NRP1 at dilution 1:1,500, ab81321, Abcam; NRP2 at dilution 1:800, sc-13117, Santa Cruz). Secondary antibody incubation was performed at room temperature for 1 h (1:10,000; #115-005-062 or #111-035-144, Jackson ImmunoResearch, West Grove, PA, USA). Protein bands were illuminated utilizing the Enhanced Chemiluminescence detection kit (Amersham ECL reagent; GE Healthcare, Barrington, IL). Quantification was performed with Image Lab Software 6.0 (Bio-Rad). NRP1 and NRP2 band intensities were normalized to amount of total protein in corresponding lane (Supplementary Figure 1) utilizing stain-free technology (37 (link)).
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5

Western Blot Analysis of Semaphorin Pathway

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Tissue and cell samples were lysed in RIPA buffer (Beyotime Biotechnology, China). An equal amount (50 μg) of protein in each group was loaded and separated on 8–12% SDS-PAGE, then transferred onto 0.4 mm PVDF membranes (EMD Millipore, Billerica, MA, USA). After blocking in 5% skim milk for 1 h (h), membranes were incubated at 4 °C overnight with primary antibodies against Sema3A (ab199475, Abcam), Sema3A (ab23393, Abcam) neuropilin-1 (ab81321, Abcam), plexin-A1 (ab92346, Abcam), cyclinD1 (ab16663, Abcam), PCNA (ab29, Abcam, RRID: AB_303394), PDGFRβ (ab32570, Abcam, RRID: AB_777165), p-PDGFRβ (3173, Cell Signalling, RRID: AB_2252179), p53 (2524, Cell Signalling, RRID: AB_331743) and β-actin (A01010, Abbkine, RRID: AB_2737288). Then, membranes were incubated with secondary antibodies for 1 h at room temperature. All protein bands were visualized using ECL solution on a BioSpectrum Imaging System (UVP, Upland, CA, USA). The intensities of the bands were analysed using the ImageJ software package (National Institutes of Health, Bethesda, MD, USA). For immunoprecipitation, an equal amount (500 μg) of protein in each group was incubated with specific antibodies at 4 °C overnight with gentle rotation. The complexes were precipitated with Protein A/G agarose beads and analysed by western blotting.
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6

Immunoblot and Immunohistochemistry Antibodies

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For immunoblot, antibodies to SEMA3F (ab39956) and NRP-1 (ab81321) were purchased from Abcam (Cambridge, UK). Antibodies to NRP-2 (#3366), PLEXIN-A1 (#3813), Myc-Tag (#2276), phospho-ERK (#4370), ERK (#9102), phospho-p70S6K (#9234), p70S6K (#9202) and cleaved caspase-3 (#9664) were from Cell Signaling Technology (Beverly, MA, USA) and the antibody to α-Tubulin (T6074) was from Sigma-Aldrich (St. Louis, Mo, USA).
For immunohistochemistry, the antibody for SEMA3F (HP035008) was purchased from Atlas Antibodies. Anti-phospho-p70S6K (sc-7984) was from Santa Cruz Biotechnology (Santa Cruz, CA, USA). Anti-chromogranin A (M0869), anti-human Ki67 (MIB1 clone, M7240) and anti-mouse Ki67 (TEC-3 clone, M7249) were from Dako (Glostrup, Denmark). Anti-CD31 antibody was from AnaSpec (#53332) (Fremont, CA, USA). For immunofluorescence, the antibody to phospho-Histone H3 (pH-H3) was from Cell Signaling Technology (#9706).
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7

Myofibroblast Western Blot Analysis

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Western blot analysis was performed on transfected myofibroblast cell lysates as described previously (11 (link)), using the following primary antibodies: neuropilin-1 (no. ab81321, Abcam), α-smooth muscle actin (α-SMA; no. ab7817, Abcam), and β-actin (no. A2228, Sigma).
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8

Western Blot Analysis of NRP1 Protein

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RIPA lysis buffer (Beyotime Institute of Biotechnology, Haimen, China) was utilized to isolate total protein from tissue samples, cells, or tumor xenografts. The isolated total protein was quantified with the Bradford Kit (Beyotime Institute of Biotechnology). Protein samples containing equal amounts of protein were separated by sodium dodecyl sulfate polyacrylamide gel electrophoresis in a 10% gel and transferred onto polyvinylidene difluoride membranes. Blocking with 5% nonfat milk was performed at room temperature for 2 h to prevent nonspecific binding of antibodies. The membranes were next probed with primary antibodies against NRP1 (cat. # ab81321; 1:1000 dilution; Abcam) or GAPDH (ab181603; 1:1000 dilution; Abcam), followed by incubation with a goat anti-rabbit IgG horseradish peroxidase-conjugated antibody (ab6721; 1:5000 dilution; Abcam) (secondary antibody) at room temperature for 1 h and visualization with an enhanced chemiluminescence detection system (GE Healthcare, Chicago, IL, USA).
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9

Western Blot Analysis of ACE2, TMPRSS2, Kim-1, and NRP-1

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Protein lysates were prepared in sample buffer and loaded onto a 12% SDS-PAGE gel. The proteins were transferred onto nitrocellulose membrane (A13420267, GE Healthcare Life Science). The membranes were blocked with 5% non-fat milk at room temperature for 1 h, and then incubated with primary antibodies diluted at 1:1,000 in Tris-buffered saline with 0.1% Tween-20 (TBS-T) buffer containing 1% BSA overnight at 4°C. The primary antibodies used were a rabbit polyclonal antibody to ACE2 (ab15348, Abcam), rabbit monoclonal antibodies to TMPRSS2 [EPR3861] (ab92323, Abcam), Kim-1 (E1R9N) (14971S, CST) and NRP-1 [EPR3113] (ab81321, Abcam), and a mouse monoclonal antibody to β-tubulin. Following washing, the membranes were incubated with their respective secondary antibodies for 1 h at room temperature. Goat anti-rabbit horseradish peroxidase (HRP) conjugated IgG (7074V, CST) and horse anti-mouse HRP conjugated antibody (7076V, CST) were diluted at 1:5,000 in TBS-T with 1% BSA. After wash, the signal was detected with SuperSignal™ West Femto Maximum Sensitivity Substrate (34096, Thermo) and visualized with the ChemiDoc™ MP Imaging System (Bio-Rad). The intensity of the protein bands was quantified with the ImageJ Software.
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10

Quantifying BMDM Protein Levels

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For assessment of BMDM protein levels, we collected BMDM by scraping the cells in 1× RIPA on ice. Protein concentration was assessed by bicinchoninic acid (BCA) assay (Sigma‐Aldrich), and 30 μg protein was analyzed for each condition by standard SDS–PAGE technique. Anti‐NRP1 antibody (ab81321) (1:2,000) and Anti‐NF‐κB p65 (ab16502) (1:500) antibody were purchased from Abcam.
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