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12 protocols using anti pan cadherin

1

Immunostaining of Cadherin and F-Actin

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Cells were fixed for 15 min in 4% paraformaldehyde at 37°C, washed three times in PBS and stored at 4°C prior to immunostaining. The antibodies were anti-N-cadherin (BD Biosciences, 610920, 1 : 250) or anti-Pan-cadherin (Sigma, C-1821, 1 : 100). F-actin staining was carried out with 647N-Phalloidin (Sigma, 65906, 1 : 300). Cells were washed twice in PBT (0.1% Tween20 in PBS), blocked for 30 min and then incubated for 2–3 h with primary antibodies in 2.5% goat serum, 1% DMSO in PBT. After washing eight times in PBT during 1 h, cells were incubated for 2 h in secondary antibody (donkey anti-mouse Cy5 conjugated, Jackson ImmunoResearch, 1 : 400) together with DAPI nuclear counterstain. The cells were then washed eight times in PBT and mounted in FluorSave. Immunostained cells were imaged using a Zeiss LSM710 confocal microscope and images processed using ImageJ. Fiji was used to plot the intensity profile of cadherin and F-actin staining in boundary assays. Western blotting was carried out with N-cadherin (1 : 1000) or Pan-cadherin (1 : 500) antibodies.
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2

Immunofluorescence Analysis of Cell-Cell Junctions

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SCE cells were cultured on collagen-coated 8 well chamber slides at a density of 1 × 104 cells per well in DMEM containing 10% FBS. Following overnight culture, when cells had reached confluence, K-115 at 1, 5, or 25 μmol/L, Y-27632 at 5 or 25 μmol/L, or fasudil at 5 or 25 μmol/L were added to culture media and cells were incubated for 30 min. PBS was used as a control vehicle. Cells were fixed with 4% paraformaldehyde in PBS for 15 min then washed with cytoskeletal buffer and serum buffer. Cells were permeabilized with 0.5% Triton X-100 in PBS for 12 min at room temperature. After washing in serum buffer, cells were blocked with serum buffer for at least 2 h at 4 °C. Cells were incubated overnight at 4 °C with the following primary antibodies: rabbit anti-ZO-1 (1.25 μg/mL; Invitrogen, Carlsbad, CA), anti-β-catenin (1:1000 dilution; Sigma-Aldrich), and anti-pan-cadherin (1:100 dilution; Sigma-Aldrich). Cells were washed in serum buffer and then incubated with secondary antibody (Alexa Fluoro 488; Invitrogen) for 30 min at room temperature. After washing in PBS, cells were mounted with mounting medium contained DAPI and observed using a fluorescence microscope. The exposure to take images for ZO-1, β-catenin, pan-cadherin and DAPI were 0.5, 0.5, 0.8 and 0.05 sec, respectively.
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3

Immunofluorescent Analysis of Kidney Tissues

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For immunofluorescent analysis, kidneys were harvested and fixed in 4% formaldehyde overnight at 4°C, and then embedded in OCT (optimal cutting temperature compound) to obtain frozen-sections at 100 μm on Micron HM550 cryostat. The primary antibodies used were anti-Cox2 (100034-lea, Cayman), anti-Pax2a (ab229318, Abcam), anti-β-catenin (C7207, Sigma), anti-p-Ser9-GSK3 beta (ab107166, Abcam), anti-Pan-cadherin (C3678, Sigma), and anti-phospho-β-catenin (ser675) (D2F1) XP Rabbit mab (4176T, CST). The secondary antibodies used goat anti-mouse IgG H&L Alexa Fluor 647 (ab150115, Abcam), donkey anti-goat IgG Alexa Fluor 647 (ab150131, Abcam), goat anti-rabbit IgG (H+L) Alexa Fluor 633 (A11008, Invitrogen), and goat anti-rabbit IgG (H+L) Alexa Fluor 488 (A21070, Invitrogen), at 1:500. Images were taken using the Nikon A1 confocal microscope. Fluorescent intensities per unit area were measured using ImageJ.
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4

Investigating Synaptic Protein Regulation

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(RS)-3,5-DHPG and dynasore were purchased from Tocris Bioscience (Bristol, UK). AP5 (D-2-amino-5-phosphonopentanoate), MPEP, cholesterol, and methyl-β-cyclodextrin (Mβ-CD) were obtained from Sigma (St. Louis, MO, USA). We used the following antibodies: anti-FMRP (MAB2160; Millipore, Billerica, MA, USA), anti-Cav1 (ab2910, Abcam, Cambridge, UK), anti-GluA1 (ab31232; Abcam), anti-GluA2 (ab20673; Abcam), anti-pan-cadherin (C1821; Sigma), anti-ERK1/2 (sc514302; Santa Cruz Biotechnology, Santa Cruz, CA, USA), anti-pERK1/2 (sc81492; Santa Cruz Biotechnology), anti-mTOR (sc517464; Santa Cruz Biotechnology), anti-pmTOR (sc293133; Santa Cruz Biotechnology), and anti-β-actin (A5316; Sigma).
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5

Immunostaining of Zebrafish Embryos

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Mutant and wild-type siblings were anesthetized and washed for 1.5 min in PBS with .3% Triton X-100 for permeabilization, then fixed with 2% formaldehyde in 0.1 M PIPES, 1.0 mM MgSO4 and 2 mM EGTA overnight at 4 °C. The embryos were manually deyolked under a dissecting microscope and blocked for 1 hour in PBS with 4% BSA and 0.3% Triton X-100. Primary and secondary antibodies were incubated overnight. Washes were done after each step with 0.3% Triton X-100 in PBS for 3 h to remove excess antibodies. Antibodies used include mouse monoclonal anti-Nkx6.1 (1:20; Developmental Studies Hybridoma Bank (DSHB), Iowa), rabbit polyclonal anti-Prox1 (1:200; Millipore), goat polyclonal anti-Hnf4a (1:50, Santa Cruz), rabbit polyclonal anti-pan-Cadherin (1:5000; Sigma), mouse monoclonal anti-Islet1/2 (1:20; DSHB), mouse monoclonal 2F11 anti-Anxa441 (link), 70 (link) (1:1000; gift from J. Lewis, Cancer Research UK), mouse monoclonal anti-Alcama (1:20; DSHB), mouse anti-ZO1 (1:200, Zymed), chick or rabbit polyclonal anti-GFP (1:300; Torrey Pines Biolabs), rabbit anti-cleaved Caspase-3 (1:50; Cell Signaling). Imaging was done with a Zeiss 710 confocal microscope with Zen9 software and images were processed with Adobe Photoshop CS3.
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6

Quantifying Virus-Induced Cytoskeleton Changes

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Cells seeded onto μ-24 well plates (Ibidi) were infected with indicated viruses. After infection, monolayers were washed twice with PBS, covered with semisolid medium (DMEM, 0.7% nobel agar, 2% FCS) and maintained under normal culture conditions. At the indicated times PI, the semisolid medium was carefully removed, monolayers washed twice with PBS, fixed with methanol/acetone (v/v) for 5 min at -20°C, and then air-dried. Fixed monolayers were blocked for 20 min using a solution of PBS containing 5% FCS, and incubated with rabbit anti-VP2 for 1 h. After extensive washing with PBS, monolayers were incubated with a mouse monoclonal against cadherin (anti-Pan cadherin; Sigma) for 1 h. Thereafter, samples were incubated with goat anti-rabbit IgG coupled to Alexa 488 (green) and goat anti-mouse IgG coupled to Alexa 594 (red). Cell nuclei were stained with 2-(4-amidinophenyl)-1H-indole-6-carboxamidine (DAPI; Sigma) diluted in PBS for 30 min. All incubations were performed at room temperature (RT). Finally, wells were covered with PBS. Samples were visualized by epifluorescence using a Leica TCS-Sp5 microscope confocal system. Fluorescent signals detected by CLSM were recorded separately by using appropriate filters. Images were captured using the LAS-AF v.2.6.0 software package (Leica Microsystems).
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7

Embryonic Notch Signaling Visualization

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E9.5 embryos were collected in ice cold PBS, fixed in 4% formaldehyde in PBS and immunofluorescence staining was performed as described in Bone et al. (2014) (link). Used primary antibodies: anti-DLL1 (1F9; 1:50) (Geffers et al., 2007 (link)), anti-DLL4 (AF1389, R and D; 1:50), and anti-pan-Cadherin (C1821, Sigma; 1:250). Used secondary antibodies: Alexa488/555 conjugated antibodies (Invitrogen; 1:100). Images were taken using OLYMPUS FV1000.
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8

Immunofluorescence Imaging of K_IR2.1 and Cadherin

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HEK293T and MES-1 cells were cultured on pre-coated (0.1% gelatin) glass coverslips and transfected using Lipofectamin (Invitrogen, Breda, The Netherlands). Cell fixation, immunolabeling and imaging were performed exactly as described earlier [29 ]. Antibodies used were anti-KIR2.l (1:250; Santa Cruz Biotechnology, cat. no. sc-18708) and anti-Pan Cadherin (1:800, Sigma-Aldrich, St. Louis MO, USA, cat. No. C1821). HEK293T cells were imaged by confocal microscopy using a Zeiss LSM 700 confocal microscope (Carl Zeiss Microscopy GmbH, Germany) equipped with a 63× oil immersion objective (NA 1.4). Excitation was performed with an air-cooled Argon ion laser (LASOS, RMC 7812Z, 488 nm) for GFP and a HeNE (LASOS, SAN 7450A, 543 nm) laser for DyLight. MES-1 cells were imaged using a conventional Nikon eclipse 80i light microscopy equipped with a 40× objective (NA 0.75).
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9

Surface Biotinylation and Western Blot Analysis

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Surface biotinylation was carried out as explained earlier. [54 (link)]. In brief, C2C12 myoblasts were cultured for various differentiation times, after which the surface proteins were biotinylated by exposure to NHS-LC-biotin (Thermo) in PBS for 30min at 4°C. After quenching with 100mM glycine, cells were lysed in lysis buffer (10mM Tris-HCl pH7.2, 150mM NaCl, 1% Triton X-100, 1mM EDTA) with proteinase inhibitor (Roche Diagnostics) for 1hr at 4°C. Biotinylated proteins were collected from streptavidine-agarose beads (Pierce), then the samples were analysed by SDS-PAGE and PVDF-membrane transfer.
Western blot analysis was conducted as explained earlier [40 (link)]. In brief, cell lysis was performed with the lysis buffer composed of 10 mM Tris-HCl (pH 8.0), 150 mM NaCl, 1 mM EDTA, 1% Triton X-100 and complete protease inhibitor cocktail (Roche Diagnostics, Indianapolis, IN) and then, the prepared samples were separated by SDS-PAGE. The antibodies used were as follows. Anti-Kir2.1 (1:500), anti-Myogenin (1:500), anti-β-tubulin (1:1000) (Santa Cruz Biotechnology, Santa Cruz, CA), anti-pan-Cadherin (1:1000) (Sigma-Aldrich, St Louis, MO), anti-CDO (1:500) (R&D Systems, Minneapolis, MN) and anti-MHC (1:500) (MF20: Developmental Studies Hybridoma Bank, Iowa, IA).
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10

Cardiac Gene and Protein Expression

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Total RNA was extracted using Trizol Reagent (Thermo Scientific) and cDNA synthetized using the SuperScriptVilo cDNA synthesis kit (Thermo Scientific). Real-time PCR was conducted using SYBR Green chemistry (SYBR Select from Thermo Scientific) as previously described.9 (link)Protein expression analysis was performed by western Blot using the following antibodies: anti-CASQ2 (ABR, Golden, CO, USA and Sigma-Aldrich, St. Louis, MO, USA), anti-T2A (Millipore, Billerica, MA, USA), anti-pan Cadherin (Sigma-Aldrich) as described.6 (link)
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