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43 protocols using smad2 3

1

Western Blot Analysis of Kidney Proteins

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Total proteins were extracted from the kidneys or HK‐2 cells and the concentration was measured by BCA protein assay kit (Beyotime, Shanghai, China). Western blot assay was performed with the standard method. Briefly, proteins were separated via sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS‐PAGE). PVDF membrane (Millipore, Bedford, MA, USA) was used to electro‐transfer. After blocking with 5% skim milk, the membrane was incubated overnight at 4°C with primary antibodies: anti‐Klotho (1:500, Abcam, #203576), TGF‐β1 (1:1000, Abcam, #92486), TGFβ‐RI (1:800, Abcam, #31013), TGFβ‐RII (1:1000, Abcam #186838), α‐SMA (1:1000, CST, #56856), Collagen I (1:2000, Abcam, #34710), Collagen IV (1:1500, Abcam, #6586), Smad 2/3 (1:1000, Santa Cruz, #398844), p‐Smad 2/3 (1:800, Abcam, #63399), Smad 4 (1:1000, CST, #38454) and Smad 7 (1:1000, Santa Cruz, #365846), followed by incubation with secondary antibody at room temperature for 1 hour. Glyceraldehyde 3‐phosphate dehydrogenase (GAPDH) was used as the internal control. Protein bands were visualized by enhanced chemiluminescence (ECL) reagent and exposed using BioImaging Systems (UVP, Upland, CA, USA). The relative protein levels were quantified using the Image J software (National Institutes of Health, Montgomery, MD, USA). All the assays were performed in triplicate.
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2

Immunohistochemical Analysis of Ovarian Development

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Ovaries derived from gilts at age of 30–400 days were fixed in 10% (w/v) paraformaldehyde with 0.02 MPBS (pH 7.2) at 4°C for about 2 h. Next, they were cut into vertical slices of about 0.5 cm thickness and fixed in fresh 10% (w/v) paraformaldehyde for a cumulative period of 24 h. These slices were mounted in paraffin, and serially cut into 5 μm-thick sections by Rotary Microtome (MICROM, Germany), and stained with HE. Ovarian HE sections were observed and photographed under a fluorescent microscope (Zeiss, Germany).
Immunohistochemistry detection was performed by using the anti-Rabbit HRP-DAB Cell and tissue staining kit (R&D, CTS005) and anti-Goat HRP-DAB Cell and tissue staining kit (R&D, CTS008). Immunohistofluorescence examination was performed by using TSA plus Fluorescein (PerkinElmer, NEL741001KT) and Cyanine3.5 (PerkinElmer, NEL763001KT) kit. Antibodies of BMP15 (Eterlife, EL806306-100), GDF9 (Eterlife, EL901942-100), FSHR (Eterlife, EL912710), luteinizing hormone receptor (LHR) (Eterlife, EL904141), Caspase3 (Abcam, ab13847), 3βHSD (Abcam, ab154385), p-Smad1/5 (CST, 9516), Ki67 (Abcam, ab15580) and LC3B (Arigo, ARG55799) were diluted 1:100 with PBS. Other antibodies including ALK6 (Santa Cruz, sc5679), BMPR2 (Santa Cruz, sc5683), Smad2/3 (Santa Cruz, sc8332), Smad1/5/8 (Santa Cruz, sc6031R), and p-Smad2/3 (Santa Cruz, sc11769) were diluted 1:50 in PBS.
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3

Immunoblotting of key cellular proteins

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Nuclear and cytosolic extracts or total cell lysates were prepared as described before [49 (link)]. After electrophoresis and semi-dry electroblotting onto PVDF membranes, the following primary antibodies were used for immunodetection at 1:1000-fold dilution in 5% (w/v) non-fat milk powder, 0.05% Tween20 in TBS (Tris-buffered saline; 50 mM Tris/HCl, pH 7.6, and 150 mM NaCl): Nrf2, Slug, lamin-A/C, Smad2/3, vimentin and Hsp90 (all from Santa Cruz Biotechnology, Heidelberg, Germany), E-cadherin and JNK (both from Cell Signaling, Frankfurt/a.M., Germany) or L1 (clone L1-9.3, provided by Gerd Moldenhauer, DKFZ Heidelberg). In addition, the following antibodies diluted at 1:500 in in 5% (w/v) bovine serum albumin, 0.05% Tween20 in TBS were used: phospho-JNK, phospho Smad2 (Ser465/467) and phospho Smad3 (Ser423/425) (all from Cell Signaling). After incubation overnight at 4°C, blots were exposed to the appropriate horse-radish peroxidase-conjugated secondary antibody (Santa Cruz) diluted (1:1000) in blocking buffer and developed using the Dura detection kit (Perbio Sciences, Bonn, Germany). Data acquisition was done with the Chemidoc-XRS gel documentation system (BioRad, Munich, Germany) using the Quantity One software (Bio-Rad). Hsp90 and lamin-A/C served as loading control for total cell lysates and nuclear extracts, respectively.
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4

Western Blot Analysis of Cellular Signaling

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Aliquots of treated cells as indicated were treated with whole-cell lysis buffer (10 mM Tris-HCl, 250 mM sodium chloride, 50 mM sodium fluoride, 0.5% Triton X-100, 0.1% sodium dodecyl sulfate, 10% glycerol, 1 complete pill of protease inhibitor mixture (Roche), 1 mM phenylmethysulfonyl fluoride, 100μM sodium orthovandate, 2mM iodoacetic acid, and 5 mM ZnCl2). Protein concentration was determined by Thermo Scientific Pierce BCA Protein Assay Kit following supplier stipulations. Equal amounts of protein for each sample were separated on a 4 to 12% Bis-Tris precast acrylamide gel (BioRad) and transferred to a nitrocellulose membrane. Western blots were probed with antibodies against the following antigens: Actin, Bip/GRP78, SMAD2/3, SMAD2/3 S423 and p27KIP (Santa Cruz Biotechnology); 4E-BP1, 4E-BP1 Thr37/46, p70S6K Thr 389, ERK Thr202/204, FAKTyr861 and Y397, Src Tyr416 AMPK Thr172 (Cell Signaling); p21 (CIP1/WAF) (Neomarkers); LC3 I-II antibody (Novus Biologicals). The secondary antibodies were horseradish-peroxidase–conjugated anti-mouse (GE Healthcare), anti-rabbit (GE Healthcare) or anti-goat (Santa Cruz Biotechnology). Detection was performed by an enhanced chemiluminescent method (Immobilon Western, Millipore). Protein bands were quantified using ImagesJ 1.44p (Wayne Rasband, NIH) software and normalized to Actin.
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5

Evaluating Odontogenic Differentiation Markers

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The HDPCs (2 × 105) were treated under different conditions for different time points. The EMPs (1 µM) were also added to the HDPCs as an extra control group. Then the cells were harvested and lysed in 200 µL lysis buffer (Beyotime, Shanghai, China) and centrifuged (12 000 rpm for 10 min, at 4°C). The protein concentration was evaluated with a BCA kit (Solarbio, Beijing, China). The protein was mixed with 5× loading buffer and heated at 95°C for 5 min, separated by precast PAGE gel (Beyotime, Shanghai, China) and transferred to polyvinylidene fluoride membranes. After blocked at room temperature for 15 min, then incubated with the primary antibody (DSPP, DMP-1, Smad2/3, c jun, p-c jun, c fos, p-c fos, c jun B) (Santa Cruz, California, USA), [p-ERK1/2, ERK1/2, alkaline phosphatase (ALP), p-Smad2/3, GAPDH] (Beyotime, Shanghai, China). Then, the membranes were incubated with the goat anti-rabbit IgG-HRP secondary antibody or goat anti-mouse IgG-HRP secondary antibody for 1 h, respectively. Then, an ultrasensitive chemiluminescence kit (Beyotime, Shanghai, China) was used to detect the protein bands. A chemiluminescence imager (Bio-Rad, California, USA) was used to scan the protein bands. The Image Lab software was used to analyze the relative protein expression levels.
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6

Molecular markers in EMT signaling

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Antibodies against CXCR7 (ABcam; ab38089), GAPDH (Santa Cruz Biotechnology, Dallas, TX, USA; sc-25778), E-cadherin (Cell Signaling Technology, Danvers, MA, USA; 3195), Ep-CAM (Santa Cruz Biotechnology; sc-25308), N-cadherin (Cell Signaling Technology; 13116), α-smooth muscle actin (Sigma Aldrich, St. Louis, MO, USA; A5228), Slug (Cell Signaling Technology; 9585), Twist (Santa Cruz Biotechnology; sc-81417), Vimentin (Cell Signaling Technology; 3932), phosphorylated-AKT at Ser473 (Cell Signaling Technology; 9271), AKT (Cell Signaling Technology; 9272), phosphorylated-ERK1/2 (Cell Signaling Technology; 9101), ERK1/2 (Cell Signaling Technology; 9102), phosphorylated-JNK (Cell Signaling Technology; 4668), JNK (Cell Signaling Technology; 9251), phosphorylated-p38 (Cell Signaling Technology; 9211), p38 (Cell Signaling Technology; 9212), TGF-β1 (Cell Signaling Technology; 3711), phosphorylated-Smad2/3 (Cell Signaling Technology; 8828), Smad2/3 (Cell Signaling Technology; 8685), MMP2 (ABcam; ab37150), and MMP9 (ABcam; ab38898) were used in Western blotting and immunofluorescence. Small interfering (si) RNAs for controls, CXCR7, and Smad2/3 were purchased from Santa Cruz Biotechnology and Thermo Fisher Scientific (St. Louis, MO, USA). For inhibition of protein kinases, LY294002 and wortmannin were purchased from Sigma Aldrich.
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7

Investigating Cellular Signaling Pathways

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NHDFs were treated with UVB irradiation (144 mJ/cm2) and PVE (1, 10, 100 μg/mL) and then checked for alterations in the level of signaling molecules in the MAPK/AP-1, NF-κB, and TGF/Smad pathways, respectively. Cells were lysed using RIPA Lysis buffer (Cell Signaling Technology, Danvers) and the protein concentration was measured using Bradford reagent (Bio-Rad, Hercules, CA) as described by the manufacturer. The proteins were separated on 10% SDS-PAGE and transferred onto PVDF membranes. The membrane was incubated with various primary antibodies after blocking. Protein bands were visualized with enhanced chemiluminescence detection reagents after hybridization with HRP-conjugated secondary antibodies. Antibodies against ERK, phosphor-ERK, JNK, phosphor-JNK, p38, and phosphor-p38, as well as anti-rabbit-HRP and anti-mouse-HRP antibodies were purchased from Cell Signaling Technology, and those against NF-κB p65, c-Fos, phosphor-c-Fos, c-Jun, phosphor-c-Jun, TGF-β1, Smad2/3, phosphor-Smad2/3, Smad7, and β-actin were purchased from Santa Cruz Biotechnology (Dallas). Each experiment was repeated at least three times.
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8

Protein Expression Analysis by Western Blot

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After 48 hours of transfection/overexpression, cells were collected and lysed with cell lysing buffer containing protease inhibitors on ice. The lysate was centrifuged at 14,000 rpm for 15 minutes at 4 °C, and the supernatant was collected. After determining the protein concentration, the sample was subjected to polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to a Poly vinylidene fluoride (PVDF) membrane. The membrane blocked with 5% skimmed milk for 1 hour. Then, the membrane was incubated with primary antibodies (mouse anti-human) of Act B, endothelin-1 (ET-1), thrombospondin-1 (Tsp-1), TGF-β1, Oncostatin M (OSM), and Smad2/3 (Santa Cruz, CA) overnight at 4 °C. After washing, the membrane was incubated with the secondary antibody at room temperature for 1 hour. The membrane was finally colored with chemiluminescence reagent. The protein bands were visualized in a gel imager (Bio-Rad Laboratories Inc., Hercules, CA).
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9

Immunofluorescence Analysis of Tight Junctions

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After cells were confluent, they were washed with ice-cold PBS (pH 7.4), followed by 4% PFA for 15 min. After being further washed three times in PBS, they were incubated with 3% BSA in PBS for 1 hour. Cells were then incubated with primary antibody against ZO-1 (1∶200, Invitrogen) or Smad2/3 (1∶200, Santacruz) at 4°C overnight. After washing with PBS, they were incubated with secondary antibodies conjugated with fluorescein isothiocyanate for 1 hour at room temperature. Finally, nuclei were counterstained with DAPI. Image was analyzed with a fluorescence microscope (Nikon) interfaced with a digital charge-coupled device camera and an image analysis system.
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10

Immunofluorescence Analysis of EMT Markers

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PC3 cells were cultured on FN-coated glass slide chamber (2×105 cells/well in 500 µl of medium free-serum) and incubated at 37°C, in 5% CO2 for 24 hours then, treated with each test sample for 48 hours. The treated-cells were 4% paraformaldehyde fixed for 20 minutes, and 15 minutes permeabilized with 0.1% Triton X-100 in PBS solution. Cells on cover slips were blocked with 5% BSA/0.25% Triton X-100 for 30 minutes, then co-incubated with 1:500–1:200 dilution of the primary antibodies, β-catenin, α-tubulin, vimentin, F-actin or pFAK (all from Cell Signaling, Danvers, MA, USA); Snail1/2 (Abcam, Cambridge, UK); or Smad2/3 (Santa Cruz Biotechnology, Santa Cruz, CA, USA) in blocking solution, at 4°C overnight. They were then incubated with 1:1,000 dilution FITC-conjugated or Alexa Fluor 555 conjugated secondary antibodies in TBS for 1 hour, incubated with Alexa Fluor 488-Phalliodin for 15 minutes, washed and counter-stained with DAPI. Then, mounted cover slips on slides, and examined the slides by laser scanning confocal microscopy (Olympus FV1000; Olympus, Tokyo, Japan).
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