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12 protocols using a5228

1

Histopathological Evaluation of Liver Tissue

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The formalin fixed and paraffin-embedded liver tissue slices (5 μm thickness) were deparaffinized and rehydrated for histopathological evaluation [21 (link),22 (link)]. For sirius red staining, the sections were stained by hematoxylin and sirius red. For immunohistochemical staining, the sections were incubated with 0.3% hydrogen peroxide/phosphate-buffered saline for 30 min and blocked with 10% BSA (Sangon, AD0023-100). Slides were first incubated using the antibody for CTHRC1 (Huabio), α-SMA (Sigma, A5228) or desmin (Abcam, ab15200) at 4 °C overnight with optimal dilution, labeled by HRP second antibody of mouse (Cell Signaling, 5470S) or rabbit (Abcam, ab136817) at room temperature for 1 h. Then the sections were treated with DAB substrate liquid (Thermo, S21024-2) and counterstained by hematoxylin. All the sections were observed and photographed with a microscope (Carl Zeiss).
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2

Immunophenotyping of Ovarian Cancer-Associated Fibroblasts

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Immunocytochemistry of cytokeratin 19 (CK19), α-smooth muscle actin (α-SMA), vimentin (VIM) and fibroblast activation protein (FAP) was performed to verify the purity of OVCAFs and OVNFs. Briefly, cells on sterile glass coverslips were fixed in ice-cold methanol and then incubated overnight at 4°C in a humid chamber with the indicated primary antibodies as follow: 1:200 mouse anti-human CK-19 antibody (sc-6278, Santa Cruz Biotechnology Inc.), 1:500 anti-α-SMA antibody (A5228, Abcam), 1:500 anti-VIM antibody (sc-6260, Santa Cruz Biotechnology Inc.), and 1:500 rabbit anti-human FAP (ab53066, Abcam). After washing out the excess primary antibody, the coverslip was incubated for 3 h at room temperature with the appropriate secondary fluorescent antibody including goat anti-mouse IgG-Cy3 antibody (1:2,000, #115-166-071, Jackson ImmunoResearch Laboratories Inc.) or the goat anti-rabbit IgG-FITC antibody (1:2,000, ab6717, Abcam). Hoechst 33342 solution (Invitrogen; Thermo Fisher Scientific, Inc.) was added to stain the nucleus. Fluorescence was captured using an Inverted microscope model IX71 (Olympus Corporation).
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3

Immunofluorescent Analysis of TEVG Neotissue

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Frozen TEVGs were sectioned using a cryo-microtome at an 8 μm thickness prior to being mounted on gelatin coated slides and stained using standard indirect immunofluorescent chemistry. Primary antibodies utilized were as follows: von Willebrand Factor (vWF) [1:250; US Biological #V2700-07], smooth muscle alpha-actin (SMA) [1:1000; Sigma #A5228], calponin [1:250; Abcam #ab46794], and elastin [1:100; EPC #RA75]. The following secondary antibodies were utilized: [Rockland #611-1202 (1:1000)], [Invitrogen #A10521 (1:1000)], [Sigma #C2821 (1:300)]. Explants were also stained with H&E. All images were taken using a 20x objective with an epifluorescent microscope utilizing NIS Elements software. Analysis was restricted to the newly developed luminal tissue within TEVGs (termed as “neotissue”).
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4

Kidney Histology and Immunostaining Analysis

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Kidneys were harvested from CTL and FA-injected mice or human kidneys. Histological analysis was examined on formalin-fixed, paraffin-embedded kidney sections stained by PAS and Picrosirius red (Polyscience #24901). Immunofluorescence staining was performed with antibodies against JAG1 (Abcam #ab109536; 1:500) or NOTCH2 (Abcam #ab8926; 1:100). Tubule specific markers were used as previously described [18 (link),63 (link)]. Immunohistochemistry staining was performed with antibody against αSMA (Sigma #A5228; 1:500) and COX IV (Abcam # ab16056; 1:200) in paraffin-embedded kidney sections. For each section, five random fields were quantified in an unbiased manner using ImageJ.
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5

Immunofluorescence Staining of Frozen Tissues

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The frozen sections were warmed at room temperature after being taken from the − 20℃ fridge. Samples were washed and permeabilized with Triton X100 (0.1%) in PBS for 30 min, blocked with goat serum (10%) at RT for 1 h, and incubated with primary antibody at 4℃ overnight. The next day, after washing, the samples were incubated with a secondary antibody at 37℃ for 1 h in darkness, counterstained with mixed DAPI & Mounting solution (1:1), and mounted for observation (Nikon ECLIPSE 80i). The following antibodies were used: αSMA (1:100; Sigma; A5228) and lysozyme (1:200; Abcam; ab108508). CRS4C (1:100) was generated in Dr. Junping Wang’s lab.
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6

Immunofluorescent Staining of Extracellular Matrix

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Cells were fixed in 4% paraformaldehyde for 10 min on glass coverslips and were permeabilized with .2% TritonX-100 for 10 min and blocked with 5% goat serum for 1 h before staining with primary antibodies against Fibronectin (BD Biosciences 610077, 1:100), αSMA (Sigma A5228, 1:100), and PDGFRβ (Abcam ab32570, 1:100). Secondary antibodies used were anti-mouse 647 (Life Technologies A21240, 1:500) and anti-rabbit 546 (Life Technologies A11010, 1:500). Mounted coverslips were examined using a Zeiss Axio Observer Z1. Images were acquired using a 10X objective and a Zeiss Axiocam 702 camera. Images were processed using Zeiss Zen software.
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7

Protein Expression Analysis of ASCs

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HFD and CD ASCs cells were grown to confluency on 10-cm plates in DMEM supplemented with 10% FBS and 1% antibiotic/antimycotic. Media were removed, and cells were washed with PBS twice. Proteins were extracted in RIPA buffer including protease and phosphatase inhibitors. Electrophoresis was performed with 4%-20% gel (Bio-Rad, 456-8093) with Tris/Glycine/SDS running buffer (Bio-Rad, 161-0772). Proteins were transferred to Amersham Hybond-ECL membrane (GE Healthcare, RPN303D). Membranes were blocked for 1 hour with 5% dry milk powder and 1% BSA (Sigma, A4503) in TBST. Membranes were probed for antibodies against SMA (Sigma-Aldrich, A5228, 1:5000), collagen I (abcam, ab34710, 1:5000), IGF-1 (R&D Systems, AF791, 1:250), or GAPDH (Invitrogen, MA5-15738, 1:5000). Secondary antibodies conjugated to horseradish peroxidase were goat anti-rabbit IgG (Invitrogen, 31460, 1:10,000), goat anti-mouse IgG (Invitrogen, 31430, 1:10,000), or rabbit anti-goat IgG (Invitrogen, 31402, 1:5000). Detection substrate used was SuperSignal West Pico Chemiluminescent Substrate (Thermo Scientific, 34080) or Clarity Western ECL Substrate (BioRad, 1705060). Amersham Hyperfilm ECL (GE Healthcare, 28-9068-38) film was used for development on the All-Pro Imaging Corp 100 Plus Automatic X-Ray Film Processor (All-Pro).
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8

Protein Expression Profiling of Kidney Cells

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Kidney tissue or cultured cell lysates were prepared with ice-cold lysis buffer (CST # 9806) containing protease inhibitor cocktail (cOmplete Mini, Roche #11836153001) and phosphatase inhibitor (PhosSTOP, Roche #4906837001), resolved on 8–12% gradient gels, transferred on to polyvinylidene difluoride membranes, and probed with the following antibodies: DPEP1 (Proteintech #12222-1-AP 1:500), CHMP1A (Proteintech #15761-1-AP 1:500), RIPK3 (Sigma #PRS2283 1:1000), Cleaved Caspase 1 (Santa cruz #sc-56036 1:500), Collagen III (Abcam #ab7778 1:1000), Fibronectin (Abcam #ab2413 1:1000), aSMA (Sigma #A5228 1:1000), ACSL4 (Abcam #ab155282 1:1000), CD63 (Abcam #ab193349 1:1000), GPX4 (Abcam #ab125066 1:1000), Actin (Sigma #A3854 1:20000), GAPDH (Proteintech #60004-1-Ig 1:1000), and Tubulin (BioLegend #801202 1:1000). Anti-rabbit IgG (H + L) (DyLight™ 800 4X PEG Conjugate) (CST #5151 1:10000) and Anti-mouse IgG (H + L) (DyLight™ 680 Conjugate 1:10000) (CST #5470) was used as a secondary antibody.
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9

Western Blot Analysis of Protein Targets

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Before harvesting, cells were washed twice with ice-cold PBS buffer. Cell pellet was obtained by spinning in a refrigerated centrifuge at 2,500 rpm for 10 min. Supernatant was discarded and cells was lysed in ice-cold RIPA buffer (1xPBS, 0.1% SDS, 1% NP-40, 0.5% sodium deoxycholate) supplemented with 100 μg/ml PMSF plus one protease inhibitor tablet (Roche, Mannheim, Germany) per 10 ml RIPA buffer as previously described (Li et al., 2018d (link); Yang et al., 2019a (link), b (link); Zhang et al., 2019 (link)). Typically, 50–100 μg of proteins were loaded and separated by 8% PAGE-SDS gel with all-blue protein markers (Bio-Rad). Proteins were transferred to nitrocellulose membranes (Bio-Rad) in a Mini-Trans-Blot Cell (Bio-Rad). The membranes were blocked with 5% fat-free milk powder in Tris-buffered saline at room temperature for half an hour and then incubated with the following primary anybodies at 4°C overnight: anti-CTGF (Proteintech, 23936-1), anti-HDAC11 (Abcam, ab166907), anti-α-SMA (Sigma, A5228), anti-KLF15 (Abcam, ab2647), anti-AP-2α (Abcam, ab52222), and anti-β-actin (Sigma, A2228) antibodies.
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10

Western Blot Analysis of Oral Myofibroblasts

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Proteins were extracted from TGF-β1-stimulated oral myofibroblasts with RIPA buffer (20 mM Tris-HCl (pH 7.5), 1 mM EDTA, 50 mM b-glycerophosphate, 150 mM NaCl, 1 mM Na3VO4, 1% NP-40, 25 mM NaF) containing protease and phosphatase inhibitors cocktail (Sigma-Aldrich). The solubilised proteins were resolved using SDS-PAGE and transferred onto polyvinylidene fluoride membranes (ATTO, Tokyo, Japan). Protein identification was performed by western blotting using primary antibodies raised against αSMA (1/1000; Sigma, A5228) and GAPDH (1/5000; Abcam ab185059), diluted in TBS containing 5% dried milk and 3% BSA, followed by secondary antibodies conjugated with horseradish peroxidase. Immunoreactive bands were detected using enhanced chemiluminescence reagents (GE Healthcare; Pittsburgh, PA, USA).
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