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59 protocols using col1a1

1

Molecular Profiling of Cardiac Tissues

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Antibodies for ACTN2, ANK2, ATXN1, COL1A1, COL4A4, COL6A2, CXCL12, SNCA, VDR, WFS1 were purchased from Abcam (Cambridge, MA, USA). The genotyping primers of these genes were listed in Supplementary Table 1. GAPDH was used as interior references for myocardial tissues, which were also purchased from Abcam (Cambridge, MA, USA). The ROS fluorescent probes and JC-1 fluorescent probes were purchased from Beyotime Biotechnology (Shanghai, CHINA). MitoTracker Deep Red was purchased from Invitrogen (Carlsbad, CA, USA). The TUNEL detection kit was purchased from Roche (Indianapolis, IN, USA). All other chemicals were purchased from Sigma unless specifically mentioned otherwise.
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2

Immunoblotting Analysis of Protein Targets

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Proteins were separated via SDS-PAGE (10-12%). The relevant primary antibodies that were specific for p66Shc (BD Biosciences, USA); cleaved caspase-1 (Affinity Biosciences, USA); Col1a1 (Abcam Ltd., Cambridge, UK);IL-18 (ABclonal Biotechnology, Wuhan, China); α-SMA, NLRP3, adaptor apoptosis- associated speck-like protein (ASC), superoxide dismutase 2 (SOD2), mitochondrial uncoupling protein 1 (UCP1), IL-1β, Cytochrome c, β-actin and voltage-dependent ion channel (VDAC, Proteintech Group, Wuhan, China), followed by secondary antibodies incubation.
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Protein Expression Analysis by SDS-PAGE

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Equal amount of protein was separated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and transferred to polyvinylidene difluoride (PVDF) membranes. Bovine serum albumin (5%) or skimmed milk was performed to block membranes. Primary antibodies include Fzd2 and CD44 (1:5,000; Abcam); interleukin-6 (IL-6), Stat3, p-Stat3 (Tyr705), non-phospho β-catenin, E-cadherin, vimentin, Slug, Wnt5a/b, Yes-associated protein 1 (Yap1), TGF-β1, Smad3, and ABCG2 (1:1,000; Cell Signaling Technology, Boston, MA, USA); Wnt3, Col1a1, and Col6a1 (1:1,000; Abcam); Zeb1 (1:500; Sigma-Aldrich, St. Louis, MO, USA); and glyceraldehyde-3-phosphate dehydrogenase (GAPDH) (1:500; Proteintech, Chicago, IL, USA) were incubated with the membranes overnight. SuperSignal Chemiluminescent Substrates (Thermo Fisher Scientific) and imaging systems were used to analyze the results.
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Western Blot Analysis of Protein Expression

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Total protein was extracted from cells using RIPA lysis buffer. The proteins were separated by 10% SDS-PAGE and then transferred to PVDF membranes. The membrane was incubated with primary antibodies COL1A1 (1:1000, Abcam, Cambridge, UK), cyclin D1 (1:1000, Abcam), Bax (1:1000, Abcam), Bcl-2 (1:1000, Abcam), E-cadherin (1:1000, Abcam), N-cadherin (1:1000, Abcam), and β-actin (1:2000, Abcam) at 4°C overnight. The membrane was then incubated with donkey anti-rabbit IgG (1:10,000; Abcam) for another 1 h. The Western blot images were visualized using an ECL reagent (Millipore, Billerica, MA, USA). β-actin was used as an internal control.
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5

Western Blot Analysis of Osteogenic Regulators

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Cells were lysed in RIPA buffer supplemented with a proteasome inhibitor (Beyotime). Equal amounts of proteins were separated by 10% sodium dodecyl sulfate polyacrylamide gel electrophoresis and then transferred to a polyvinylidene fluoride membrane (Millipore, Shanghai, China). After blocking in 5% non-fat milk for 2 h, the membranes were incubated overnight at 4 °C with antibodies specific to GAPDH (1 : 1500; Cell Signaling Technology, Shanghai, China), SIRT7 (1 μg/ml; Abcam, Shanghai, China), RUNX2 (1 : 1600; Cell Signaling Technology), COL1A1 (1 : 1000; Abcam), non-phosphorylated (active) β-catenin (1 : 1000; Cell Signaling Technology), or total β-catenin (1 : 1000; Cell Signaling Technology). After washing in TBST four times (5 min each), the membranes were incubated with horseradish peroxidase-conjugated secondary antibodies (anti-mouse or anti-rabbit; Beyotime) for 1 h at room temperature. After washing five times with TBST, we detected proteins using enhanced chemiluminescence blotting reagents according to the manufacturer’s instructions. The immunoreactive bands were detected using an enhanced chemiluminescent detection reagent (Millipore). Signal intensity was measured using the Bio-Rad XRS chemiluminescence detection system (Bio-Rad, Hercules, CA, USA).
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Osteogenesis Induction in BMSCs

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Cells (3 × 104/cm2) were cultured in a 12-well plate, and RUNX2, COL1A1, and p-AKT were detected using a fluorescence microscope (EU5888; Leica, Wetzlar, Germany) on day 3 after the induction of osteogenesis. Briefly, BMSCs were fixed in 4% paraformaldehyde (Sigma) for 15 min at room temperature. Then cells were permeabilized for 30 min in 0.05% Triton X-100 and blocked with 5% bovine serum albumin (BSA) for another 30 min. Fixed cells were then washed 3 times with PBS and incubated at 4 °C overnight with anti-RUNX2 (1:1600; CST), COL1A1 (1:500; Abcam, Shanghai, China), or p-AKT (1:400; CST). Cells were then incubated with a fluorescence-conjugated secondary antibody (Beyotime) for 2 h at room temperature, and the nuclei were then stained with 4′,6-diamidino-2-phenylindole (KeyGen Biotech, Nanjing, China) for 4 min. The results of IF were then observed and recorded under a fluorescence microscope (Leica, Solms, Germany).
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7

Histological Analysis of Knee Joints

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Knee joints were harvested and fixed in 10% neutral buffered formalin for 3 days, decalcified in Formic Acid Bone Decalcifier (Immunocal, Decal Chemical Corp.) for 7–10 days, paraffin processed, and embedded for sectioning. Tissues were sectioned at 5 µm and stained with ABH/OG. IHC analyses were performed on sections using traditional antigen retrieval and colorimetric development methodologies with the following primary antibodies: SOX9 (Santa Cruz), COL2A1 (Thermo Scientific), COL10A1 (Quartett), COL1A1 (Abcam), COL3A1 (Abcam), MMP-13 (Thermo Scientific), IL6 (Abcam), and phosphorylated STAT3 (Cell Signaling). TUNEL cell death assay was performed on sections using the in situ Cell Death Detection Kit, Fluorescein (Roche) according to the manufacturer’s instructions. IF analysis and β-galactosidase staining was performed on frozen sections. Knee joints were harvested and fixed in 4% paraformaldehyde (PFA) for 2 hours at 4 °C and decalcified with 14% EDTA at 4 °C for 10 days. Tissues were washed in sucrose gradient, embedded with Tissue-TEK OCT medium, snap frozen in liquid nitrogen and sectioned at 10 µm using a Lecia CM 1850 cryotome. The NOTCH1 primary antibody (Santa Cruz) was used for IF analysis. Beta-galactosidase staining was performed as previously described (63 (link)).
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Western Blot Analysis of hADSCs

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The hADSCs were lysed on ice for 15 min using Radio Immunoprecipitation Assay (RIPA) lysis buffer (BeyoTime, Shanghai, China) supplemented with protease inhibitor cocktail (Roche, Basel, Switzerland). The protein concentration of the lysate was then measured using the BCA Protein Assay Kit (BeyoTime, Shanghai, China) according to the manufacturer’s protocol. Protein sample were subjected to SDS-PAGE and transferred to polyvinylidene difluoride membranes (Millipore, Billerica, United States), which were blocked with 5% fat-free milk and then incubated with specific primary antibodies overnight at 4°C An anti-rabbit-horseradish peroxidase (HRP) secondary antibody was added, and the staining was visualized using an enhanced chemiluminescence detection system (Millipore, Billerica, United States). The primary antibodies used in this study were as follows: SIRT6, RUNX2, SP7, COL1A1, NOTCH1, NOTCH2, NOTCH3, NOTCH4, JAG1, HEY1 (Abcam, Cambering, United Kingdom), HA, Flag, GAPDH (BeyoTime, Shanghai, China) DNMT1, Acetylated Lysine (Ac-K) (Cell Signaling Technology, Danvers, MA, United States).
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9

Protein Expression Analysis in Aortic Tissue

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Protein-extracts from iPSC-derived or aortic root/ascending aortic tissue lysates (MFS patients: n = 3; donor control: n = 1) were resolved by SDS-PAGE (10% A/BA Novex Bis/Tris gels, Thermo Fisher). Protein fractions separated onto the gels were transferred to PVDF membranes (Thermo Fisher). The membranes were blocked with SeaBlock solution (Thermo Fisher) for 60 min and then probed with primary antibodies to detect: MRC2 (Abcam, Cambridge, MA), MMP2 (Cell Signaling Technology, Boston, MA), Col 1A1 (Abcam), Integrin αV (Abcam), and GAPDH (Cell Signaling Technology) as loading control/house-keeping marker. Secondary anti-rabbit-HRP (Sigma-Aldrich) and anti-mouse-HRP (Sigma-Aldrich) antibodies were used to detect primary immuno-complexes. Detection was performed using the ECL system (Thermo Fisher).
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10

Visualizing Cell-Biomaterial Interactions via Immunofluorescence

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After transfection of PEI/MC and BP NCDs/MC nanocomplexes, the digested cell suspension was transferred to the confocal culture dish. After PBS washing, 4% polyformaldehyde fixed 1h, after PBS washing, with 0.2% of Triton X-100 rupture in 1h at room temperature, with PBS washing three times, add a goat serum albumin (GSA, Shanghai, China, Beyotime), down closed 2h at room temperature, out of confining liquid washing after adding suitable amount of COL1A1 (1:200; Cambridge, UK, Abcam), cTnI (1:500; Cambridge, UK, Abcam). The antibodies in each petri dish were then placed in a wet box and incubated overnight at 4°C. And then incubated with secondary antibodies (Goat Anti-Mouse IgG H&L (Alexa Fluor 488); Goat Anti-Mouse IgG H&L (Alexa Fluor 647), Cambridge, UK, Abcam) and 4ʹ,6-diamidino-2- phenylindole (DAPI) for 1h at room temperature. After washed with TBST (Shanghai, China, Beyotime), the cells were visualized under a Nikon fluorescence microscope.
For immunohistochemistry, heart tissues were stained with CD31 (1:200; Cambridge, UK, Abcam) for 24h at 4°C and then incubated with secondary antibodies (Goat Anti-Mouse IgG H&L (Alexa Fluor 647), Cambridge, UK, Abcam) and DAPI for 1h at room temperature. Sections were observed under a universal Nikon fluorescence microscope.
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