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8 protocols using mouse anti ha 11

1

Antibody Panel for Vascular Signaling Analysis

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List of antibodies with application and dilutions (IHC, immunohistochemistry; WB; western blot): pVEGFR2 Y1175 (WB 1:1000, Cell Signaling #2478), pVEGFR2 Y1059 (for HUVEC, WB 1:1000, Cell Signaling #3817, ), pVEGFR2 Y1059 (for mouse ECs, WB 1:1000, EMD Millipore #ABS553), pVEGFR2 Y951 (WB 1:1000, Cell Signaling #4991 ), VEGFR2 total (WB 1:1000, Cell Signaling #2479), VE-Cad (for HUVEC, WB 1:200, Santa Cruz #sc-9989 (F-8) ), VE-Cad (for mouse ECs, WB 1:500, BD Pharmingen #555289), mouse Sdc2 (WB 1:200, R&D #AF6585 - polyclonal raised against mouse Sdc2 ED), human Sdc2 (WB 1:200, R&D # AF2965, polyclonal raised against mouse human ED), mouse PTP1b (WB 1:200, Santa Cruz #sc-1718-R (N19-R)), human PTP1b (WB 1:500, BD Pharmingen #610139), VEPTP ( VE-PTP-C pAb69 and VE-PTP 1–8 pAb70 were gifts from Prof. Dietmar Vestweber, Max Plank Institute for Molecular Biomedicine, Münster, Germany), DEP1 (WB 1:200, Santa Cruz #sc-21761 (143–41)) NRP1 (WB 1:1000, Cell signaling #3725,), HA-tag (WB 1:1000, Cell signaling #3724), rabbit anti-Rab5 (Cell Signaling, #3547, IHC 1:200); goat anti-VEGFR2 (R&D, #AF357, IHC 1:100); mouse anti-HA.11 (Covance, #MMS-101P, IHC 1:200); rabbit anti-HA (Cell signaling, #3724, IHC 1:200); rabbit anti-VE-Cadherin (Cell Signaling, #2500, IHC 1:200); goat anti-mouse VE-Cadherin (R&D Systems, #AF1002, IHC 1:100); rat anti-mouse Flk1 (BD, #555307, IHC 1:100).
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2

Western Blot Analysis of Protein Expression

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Samples were subjected to SDS-PAGE and transferred to nitrocellulose (pore size: 0.45 μm; Amersham Protran) or PVDF (pore size: 0.45 μm; Amersham Hybond) membranes. The blots were then blocked for 1 h with 5% (w/v) skim milk-PBST (0.1% Tween in phosphate-buffered saline), incubated with the primary antibody (diluted in 5% skim milk-PBST, for 1 h, at room temperature, unless otherwise indicated), washed, and then incubated with the secondary antibody (diluted in 5% skim milk-PBST, for 1 h, at room temperature). Chemiluminescence was detected with EZ-ECL reagents (Biological Industries). The following primary antibodies were used: mouse anti-HA (Abcam Inc.), diluted 1:1,000; mouse anti-HA.11 (Covance), diluted 1:1,000; mouse anti-V5 (Invitrogen), diluted 1:1,000; mouse anti His (Pierce), diluted 1:2000; mouse anti-JNK (BD Pharmingen), diluted 1:1,000 in Tris-buffered saline (TBS); and mouse anti-actin (MPBio), diluted 1:10,000. Antibodies directed against T3SS components included mouse anti-EspA, mouse anti-EspB and mouse anti-Tir, all a generous gift from Prof. B. Brett Finlay (University of British Columbia, Canada). Horseradish peroxidase-conjugated (HRP)-goat anti-mouse (Abcam Inc.), diluted 1:10,000, was used as the secondary antibody. Representative western blots of at least three independent experiments are presented in the results section.
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3

Immunocytochemistry Staining of HA-tagged Proteins

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For immunocytochemistry, all steps were performed at RT. HEK-293 cells grown on poly-L-lysine–coated coverslips were fixated for 10 min with 4% paraformaldehyde in 0.2 M phosphate buffer. After three washing steps in PBS, cells were incubated with the blocking solution (2% bovine serum albumin and 10% goat serum in PBS) for 30 min. The primary antibody solution (mouse anti-HA.11; 1:1000; Covance) was added in the carrier solution (0.3% Triton X-100, 1% bovine serum albumin, 1% goat serum in PBS) for 1 h. After washing three times in PBS, the secondary antibody, which was conjugated to a fluorescent probe (Alexa Fluor 488 goat anti-mouse; 1:1000; Thermo Fisher), was incubated for 1 h. After three washes in PBS, cells were mounted onto glass slides with Mowiol (Roth) and 4′,6-diamidin-2-phenylindol (1:1000; Roth). Photomicrographs were taken using a BioZero fluorescence microscope (Keyence).
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4

Antibody Panel for Vascular Signaling Analysis

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List of antibodies with application and dilutions (IHC, immunohistochemistry; WB; western blot): pVEGFR2 Y1175 (WB 1:1000, Cell Signaling #2478), pVEGFR2 Y1059 (for HUVEC, WB 1:1000, Cell Signaling #3817, ), pVEGFR2 Y1059 (for mouse ECs, WB 1:1000, EMD Millipore #ABS553), pVEGFR2 Y951 (WB 1:1000, Cell Signaling #4991 ), VEGFR2 total (WB 1:1000, Cell Signaling #2479), VE-Cad (for HUVEC, WB 1:200, Santa Cruz #sc-9989 (F-8) ), VE-Cad (for mouse ECs, WB 1:500, BD Pharmingen #555289), mouse Sdc2 (WB 1:200, R&D #AF6585 - polyclonal raised against mouse Sdc2 ED), human Sdc2 (WB 1:200, R&D # AF2965, polyclonal raised against mouse human ED), mouse PTP1b (WB 1:200, Santa Cruz #sc-1718-R (N19-R)), human PTP1b (WB 1:500, BD Pharmingen #610139), VEPTP ( VE-PTP-C pAb69 and VE-PTP 1–8 pAb70 were gifts from Prof. Dietmar Vestweber, Max Plank Institute for Molecular Biomedicine, Münster, Germany), DEP1 (WB 1:200, Santa Cruz #sc-21761 (143–41)) NRP1 (WB 1:1000, Cell signaling #3725,), HA-tag (WB 1:1000, Cell signaling #3724), rabbit anti-Rab5 (Cell Signaling, #3547, IHC 1:200); goat anti-VEGFR2 (R&D, #AF357, IHC 1:100); mouse anti-HA.11 (Covance, #MMS-101P, IHC 1:200); rabbit anti-HA (Cell signaling, #3724, IHC 1:200); rabbit anti-VE-Cadherin (Cell Signaling, #2500, IHC 1:200); goat anti-mouse VE-Cadherin (R&D Systems, #AF1002, IHC 1:100); rat anti-mouse Flk1 (BD, #555307, IHC 1:100).
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5

Monoclonal Antibody Validation Protocol

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The following monoclonal antibodies were used: mouse anti-TYRP1 (TA99) from ATCC; rat anti-LAMP1 (1D4B) and rat anti-LAMP2 (GL2A7) from Developmental Studies Hybridoma Bank; mouse anti-PMEL (HMB-45) from Lab Vision; and mouse anti-HA.11 from Covance. Anti-VAMP7 mAb (158.2) and pAb (TG50) have previously been described and validated using Vamp7−/− mice (Danglot et al., 2012 (link)). Polyclonal rabbit antisera to STX13 (Prekeris et al., 1998 (link)) have been previously described, and rabbit anti-Giantin was purchased from Abcam (ab24586). Species-specific secondary antibodies from donkey conjugated to Alexa Fluor 488, 594, or 647 or Dylite 488, 594, or 647 used in immuno-FM were obtained from Jackson ImmunoResearch Laboratories, Inc.
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6

Immunofluorescence Staining of Cellular Organelles

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The following antibodies were used in the study: mouse anti-Flag M2, mouse anti-EEA1 and polyclonal anti-IL2α (Sigma), mouse anti-HA.11 (Covance), polyclonal sheep anti-TGN46 (AbD Serotec), and polyclonal rabbit anti-CI-M6PR and mouse anti-LAMP1 (Abcam). Secondary donkey anti-rabbit IgG Alexa Fluor488, goat anti-mouse IgG Alexa Fluor568, goat anti-rabbit IgG Alexa Fluor568 and goat anti-sheep IgG Alexa Flour 488 were purchased from Life Technologies.
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7

Comprehensive Immunofluorescence Antibody Staining

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Antibodies and dilutions used were mouse anti-Ptc antibody 1:50 (DSHB, Apa1; 1/50); rat anti-Ci antibody 1:50 (DSHB, 2A1; 1/50); rabbit anti-Dpp prodomain (Akiyama and Gibson, 2015 (link); 1/100); rabbit anti-GFP (Invitrogen, A-11122; 1/1000); chicken anti-GFP (Abcam Cat# ab13970; 1/2000); rabbit anti-phospho-Smad1/5 (Ser463/465) (Cell Signaling Technology, 9516; 1/100); mouse anti-HA.11 (Covance, Cat#101P; 1/1000); rabbit anti-HA (Thermo Fisher Scientific, Cat# 71-5500; 1/1000); mouse anti-β-tubulin (DSHB, E7; 1/5000); mouse anti-β-galactosidase (Promega, Z378A; 1/100); mouse anti-Myc (Santa Cruz Biotechnology, 9E10; 1/200); mouse anti-FLAG (Sigma-Aldrich, M2; 1/200); rabbit anti-FLAG (Sigma-Aldrich, Cat# F7425; 1/200); HRP-conjugated and fluorophore-conjugated secondary antibodies were from Jackson ImmunoResearch Lab and Thermo Fisher. The antibody information is also listed in the Key resources table.
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8

Differentiation and Isolation of Human Monocytes

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(Invitrogen). The human monocytic U937 and THP1 cell lines were grown in RPMI (Invitrogen). Media were supplemented with 10% fetal calf serum (Invitrogen) and penicillin/streptomycin (100 U/mL). U937 and THP1 cell lines were differentiated by treatment with phorbol-12-myristate-13-acetate (PMA, Sigma-Aldrich) (100 to 300 ng/mL, 24h). All cell lines were tested mycoplasma-free (Mycoplasmacheck, GATC Biotech). Buffy coats from human healthy donors were obtained from the "Etablissement Français du Sang".
Monocytes were isolated using a CD14+ selection kit (Miltenyi Biotech) and cultured 12 days in DMEM supplemented with 10% Human Serum (inactivated) to generate MDMs. Antibodies used are the following: mouse anti-HA11 (Covance), sheep anti-SUMO1 (Enzo), rabbit anti-SUMO1, rabbit anti-SUMO2/3, mouse anti-SAMHD1, anti-HA HRP (Abcam), rabbit anti-pT592-SAMHD1 (Cell Signaling), rabbit anti-actin, anti-Flag HRP (Sigma-Aldrich), anti-HA HRP (Roche).
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