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7 protocols using ab4069

1

Antibodies for Cellular Localization Studies

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Primary antibodies used in this study were: aPKC (610207; 1:200; BD), ezrin (3C12) (ab4069; 1:200; Abcam), GM130 (610822; 1:200; BD), N-cadherin (610920; 1:200; BD), MPM-2 (05-368; 1: 200; Millipore), pan-Crb (1:200; produced in the lab), Pals1 (amino acids 450 – 461 of human Pals1 (YNANKNDDYDNE) ; 07-708; 1:200; Millipore), Pals1 (N) (rabbit; previously produced using synthetic N-terminal peptides (amino acids 11-23 of mouse Pals1 (TEESDSGIKNLDL); 1: 200; (Chae et al., 2004 (link))), Par3 (07330; 1:200; Millipore), Patj (gift of Dr. le Bivic), ZO-1 (610966; 1:200; BD). The Pals1 antibody from Millipore was used for most of the studies, except for some of the co-localization experiments shown in Fig. 4. Pan-Crb antibodies were produced using an oligopeptide (20 amino acids) common to all three forms of Crb, Crb1, 2 and 3 (Makarova et al., 2003 (link)). Therefore, pan-Crb staining represents the sum of all three Crb isoforms. Secondary antibodies were: Alexa Fluor 488 conjugated to goat anti-mouse or anti-rabbit (A11001, 1:200; Life technologies or A11008, 1:200; Life technologies) and Cy3 conjugated to goat anti-mouse or anti-rabbit (115-165-146; 1:300; Jackson ImmunoResearch, 111-165-045; 1:300; Jackson ImmunoResearch).
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2

Immunohistochemical analysis of Radixin

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The following primary antibodies were used: rat anti-radixin (R21, gift from S. Tsukita, WB 1:50, ICC 1:50); rabbit anti-radixin (Sigma-Aldrich, #R3653, IHC 1:200); rabbit anti-radixin (Abcam, EP 1862Y, #ab52495, IHC 1:200); mouse anti-γ-adaptin (BD Biosciences, #610386; WB 1:5,000); mouse anti-ezrin (Abcam, #ab4069, clone 3C12, WB 1:1,000); mouse anti-neuN (Millipore, clone A60, #MAB377, IHC 1:1,00). The following secondary antibodies were used: peroxidase-conjugated donkey anti-rabbit (Dianova, Hamburg, Germany, #711-036-152, WB 1:10,000); peroxidase-conjugated donkey anti-rat (Dianova, #712-036-153, WB 1:10,000); peroxidase-conjugated donkey anti-mouse (Dianova, #715-036-151, WB 1:10,000); IRDye 800CW goat anti-rabbit (LI-COR, IgG, #926-32211, WB 1:10,000); IRDye 680RD goat anti-mouse (LI-COR, IgG, #926-68070, WB 1:10,000); Alexa-488 goat anti-mouse (Dianova, #115-545-146, IHC 1:500); Cy3 donkey anti-rabbit (Dianova, #711-166-152, IHC 1:500); Cy3 donkey anti-rat (Dianova, #712-166-150, IHC 1:500); Atto488-labelled FluoTag-X4 anti-rabbit nanobody (NanoTag, IgG, #N2404, IHC 1:200). Alexa-633-coupled phalloidin (Thermo Scientific, #A22284) or Tritc-coupled phalloidin (Tebu-bio, #PHDR1) was used to visualize actin-containing stereocilia. Diamidino-2-phenylindole (DAPI, Sigma, #D9542) was used to stain the nucleus.
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Western Blot Analysis of Cell Signaling Proteins

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Standard western blot techniques were performed as previously described (27 (link)) using NuPAGE 4–12% Bis-Tris Protein Minigels (Invitrogen). The antibodies used are listed below. Primary antibodies: 1) Podocalyxin-like 1 (3D3) mouse monoclonal antibody (Santa Cruz Biotechnology, sc-23904, 1:500). 2) PODXL (EPR9518) rabbit monoclonal antibody (Abcam, ab150358, 1:1000). 3) Dynamin-2 (DYN2–11) mouse monoclonal antibody (Sigma Aldrich, SAB4200661, 1:500). 4) Dynamin-2 rabbit polyclonal antibody (Abcam, ab3457, 1:1000). 5) Ezrin (3C12) mouse monoclonal antibody (Abcam, ab4069, 1:500). 6) NHERF2 (D3A5) rabbit monoclonal antibody (Cell Signaling, 9568, 1:1000). 7) GST (26H1) mouse monoclonal antibody (Cell Signaling, 2624, 1:2000) 8) 6x-His tag (4E3D10H2/E3) mouse monoclonal antibody (ThermoFisher Scientific, MA1–135, 1:2000). 9) RhoA (7F1.E5) mouse monoclonal antibody (Cytoskeleton, ARH04, 1:500). 10) Rac1 mouse monoclonal antibody (Cytoskeleton, ARC03, 1:500). 11) Actin (C4) mouse monoclonal antibody (BD Transduction, 612656, 1:10000). Secondary antibodies: 1) Anti-mouse IgG, HRP-linked antibody (Cell Signaling, 7076S, 1:2000). 2) Anti-rabbit IgG, HRP-linked antibody (Cell Signaling, 7074S, 1:2000).
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Western Blot Analysis of Cell Signaling

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Cells were collected and lysed using RIPA buffer solution (Abcam Inc., ab156034). Protein content was measured using the BCA method and 30 μg protein aliquots of each sample was separated by SDS-polyacrylamide gel electrophoresis (Solarbio Company, China). Separated proteins were transferred to PVDF membranes (Merck Millipore, Billerica, MA, USA), which were blocked for 1 h and then incubated with primary antibodies specific for Ezrin (1:500) (Abcam Inc., ab4069), YAP1 (1:500) (Abcam Inc., ab52771), CTGF (1:700) (Proteintech, USA, 23936-1-AP), and GAPDH (1:500) (Abcam Inc., ab181602) overnight at 4°C. Subsequently, secondary antibodies were added and incubated at room temperature for 1 h. The chemiluminescence signals were generated by X-ray film. Finally, protein expression was quantified using Image J software.
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5

Protein Quantification and Western Blot Analysis

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Tissues and cells were lysed in RIPA buffer (cat. no. R0020; Solarbio Science and Technology, Beijing, China) to recover total protein. Then the protein quantification was measured using a bicinchoninic acid assay kit (cat. no. 23227; Thermo Fisher Scientific). Twenty micrograms of protein was loaded onto SDS‐PAGE and transferred to polyvinylidene difluoride membranes (cat. no. 1620177; Bio‐Rad). After blocking, protein levels were detected by specific primary antibodies from Abcam (Cambridge, MA, USA) against PDPN (ab236529, 1:1000), ezrin (ab4069, 1:500), Ki67 (ab16667, 1:1000), E‐cadherin (ab40772, 1:10000), N‐cadherin (ab76011, 1:1000), cleaved‐caspase 3 (ab2302, 1:5000), α‐smooth muscle actin (α‐SMA; ab5831, 1:1000), fibroblast activation protein (FAP; ab207178, 1:1000), fibroblast‐specific protein 1 (FSP‐1; ab124805, 1:1000) and GAPDH (ab8245, 1:2500), followed by the corresponding horseradish peroxidase‐conjugated secondary antibodies (ab6721/ab205719, 1:5000) and visualization. GAPDH was used as the internal control.
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6

Ezrin and Cytoskeletal Protein Analysis in Stem Cells

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Harvested ES cells and EBs were lysed with RIPA lysis buffer (50mM Tris pH8.0, 150mM NaCl, 01% SDS, 0.5% Sodium deoxycholate, 1% NP40, complete protease inhibitor (Roche, 11697498001), and PhoSTOP phosphatase inhibitor (Roche, 04906845001)). A DC™ Protein assay reagent kit (BioRad, 500–0111) was used for measuring protein concentration. Equal protein amounts were separated by SDS/PAGE gel and transferred on PVDF membrane (BioRad, 1620177). The membranes were blocked and incubated overnight at 4oC with 1:50 anti-Ezrin (Abcam, ab4069), 1:1000 anti-alpha-Tubulin (Abcam, ab15246), 1:1000 anti-E-cadherin, 1:1000 anti- ß-catenin, and 1:1000 anti-LC3 (MBL, PD014). Antibody binding was detected by ECL. Protein quantification was analyzed with Image J.
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7

Visualizing Cytoskeletal Proteins in Cell Lines

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Forty-eight hours after seeding the cells (HSC-3 and HSC-4: 1 × 105 cells per mL) into a 12-well plate, the culture medium was replaced with a medium containing FR180204 (50 μmol•L-1). Twenty-four hours after replacing the culture medium, the cells were fixed for 30 min in PBS containing 10% formalin. After membrane permeation treatment for 1 h with PBS containing 0.1% Tween 20, blocking with Histofine Blocking Reagent II (Nichirei Biosciences Inc., Tokyo, Japan) and 10% normal goat serum was carried out for 30 min. The cells were incubated at 4 °C overnight before reacting with the primary antibodies. The primary antibodies used were anti-cortactin rabbit antibody (1:1 000, ab81208; Abcam) and anti-ezrin mouse antibody (1:100, ab4069; Abcam). Cells were then incubated with the secondary antibodies for 1 h at room temperature. The secondary antibody used was Alexa Fluor 488 or 594-labelled anti-mouse IgG antibody or rabbit IgG antibody (Invitrogen). Rhodamine–phalloidin (Invitrogen) was employed for labelling actin. DAPI (4′,6-Diamidino-2-phenylindole dihydrochloride) (Wako Pure Chemical Industries, Osaka, Japan) was employed for nuclear labelling, and ProLong® Diamond Antifade Mountant (Life Technologies, Carlsbad, CA, USA) was used for mounting. A confocal laser scanning microscope (FV-1000D IX-81; Olympus, Tokyo, Japan) was used to visualize the cells.
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