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12 protocols using anti p16ink4a

1

Detailed Antibody Characterization Protocol

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The following primary antibodies were used: anti‐p53 (Abcam, UK), anti‐p16INK4a (Abcam, UK), anti‐p16INK4a (Abcam, UK), anti‐p21CIP1/WAF1 (Abcam, UK), anti‐GATA4 (Santa‐Cruz, USA), anti‐GATA4 (Abcam, UK), anti‐CCN1 (Abcam, UK), anti‐γ‐H2AX (Abcam, UK), anti‐γ‐H2AX (CST, USA), anti‐GAPDH (Proteintech, China), anti‐β‐actin (Boster, China), anti‐interleukin (IL)‐1α (Proteintech, China), anti–monocyte chemotactic protein‐1 (Abcam, UK), anti–tumor necrosis factor‐α (TNF‐α) (Abcam, UK), and anti‐α‐actin (Proteintech, China). All secondary antibodies were from ZSGB‐BIO Company (China). Reagents wheat germ agglutinin and Alda‐1 were purchased from Sigma‐Aldrich, USA. All of the catalog numbers of the antibodies are listed in Table S1.
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2

Protein Expression Analysis in Tissues

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After extracting the total protein from tissues and cellular samples using RIPA buffer with protease inhibitors, BCA quantitative measurements of protein concentrations were conducted. The relative expressions of the target proteins were normalized to β-actin. A total of 20 μg protein for each sample was separated by SDS-PAGE and transferred onto PVDF membrane (Cat No.: IEVH00005, Millipore, USA). After incubating with the milk in TBS for blocking, the membrane would be incubated the corresponding primary antibody, including anti-p16INK4a (Cat No.: ab108349, Abcam, UK), p21Waf/Cip1 (Cat No.: ab109520, Abcam, UK), SIRT1 (Cat No.: 2310, Cell Signaling, USA), NLRP3 (Cat No.: ab263899, Abcam, UK), apoptosis-associated speck-like protein (ASC, Cat No.: 13833, Cell Signaling, USA), pro-caspase-1 (Cat No.: ab179515, Abcam, UK), caspase 1 (Cat No.: ab207802, Abcam, UK) and β-actin (Cat No.: sc-47724, Santa Cruz, USA), at 4°C overnight. On the second day, the membrane was washed three times with TBST and incubated with the secondary antibody (Cat No.: sc-2357 and sc-2005, Santa Cruz, USA) for 1 h. The density of the bands was quantified using Labworks image acquisition software (UVP, USA) and was quantized using ImageJ software (NIH, USA).
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3

Western Blot Analysis of EMT Markers

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Cells collected by FACS were washed by PBS and lysed in RIPA buffer. Protein content was determined by the Bradford assay (Beyotime Institute of Biotechnology, Haimen, China). 50μg proteins were separated in a 15% SDS-polyacrylamide gel electrophoresis and transferred to PVDF membrane. The membranes were first blocked with 5% (w/v) nonfat dry milk in TBST and then probed with the indicated primary antibodies with gentle shaking at 4°C overnight. After washing 3 times, the membranes were incubated with the HRP-conjugated secondary antibodies for 1 h. The signals were detected using an enhanced chemiluminescence detection kit (Thermo Scientific, Illinois, USA). The anti-E-Cadherin (1: 500 dilution), ani-Vimentin (1: 1000 dilution), anti-IL-8(1: 200 dilution), anti-p16INK4a (1: 500 dilution) and anti-GAPDH (1: 5000 dilution) antibodies were purchased from Abcam Co., MA, USA (Cat # ab323410, ab8069, ab18672, ab108349 and ab8245).
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4

Immunohistochemical Analysis of Aortic Aging

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Slides containing serial cross‐sections of thoracic descending aortic tissue or HAECs were immunostained with antiphosphorylated histone H2AX (anti‐γH2AX) antibody (Cell Signaling Technology) and then with Alexa‐488 conjugated secondary antibody. Hoechst 33342 or DAPI (4′,6‐diamidino‐2‐phenylindole) was used to stain nucleic acids and to assess the formation of senescence‐associated heterochromatin foci. Anti–LOX‐1 (Santa Cruz Biotechnology, Dallas, TX), anti‐TP53 (Cell Signaling Technology), anti‐p16INK4a (Abcam Inc., Cambridge, MA), and anti‐3‐nitrotyrosine (EMD Millipore, Darmstadt, Germany) antibodies were used to determine in situ the abundance of LOX‐1, TP53, p16INK4a, and 3‐nitrotyrosine in aortic tissue samples. Anti‐hTERT monoclonal antibody (EMD Millipore, Billerica, MA, USA) was used to detect hTERT expression in HAECs. (Klokov, MacPhail, Banath, Byrne, & Olive, 2006). The semi‐quantification of immunofluorescence staining is described in the Supplemental Methods.
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5

Western Blot Analysis of SIRT1 and p16

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Western blotting analysis was performed according to standard protocols [36 (link)] using anti-SIRT1 (Cell Signaling, Danvers, MA) and anti-p16INK4a (Abcam, Cambridge, MA). After incubation with horseradish peroxidase-conjugated secondary antibody (GE Healthcare Life Sciences, Pittsburg, PA) bands were detected using the enzymatic chemiluminescence reagent ECL (GE Healthcare, Pittsburg, PA).
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6

Immunofluorescence Analysis of Senescence Markers

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Cells were fixed with 4% paraformaldehyde for 15 min at room temperature, and permeabilized with ice-cold methanol at −20 °C for 10 min. After washing the cells, cells were blocked with blocking solution (5% goat serum, 0.3% Triton-X 100) for 1 h. After removing the solution, cells were incubated with primary antibodies (anti-p16INK4a (ab81278; Abcam, Cambridge, MA, USA); ant-p21 (#2947; Cell Signaling, Beverly, MA, USA); anti-phospho-p38 MAPK (#4511; Cell Signaling); anti-phospho-histone H2A.X (#9718; Cell Signaling)) at 4 °C overnight. After washing the cells, they were next incubated with the secondary antibody (Alexa Fluor 555 F(ab’) fragment of goat anti-rabbit IgG; Life Technologies) at room temperature for 1 h. Following another washing, cells were incubated with 1 μg/mL of Hoechst 33342 solution at room temperature for 10 min. The images were analyzed using the IN Cell Developer Toolbox 1.9, and the results were depicted using SpotFire DecisionSite Client 8.2 Software.
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7

Western Blot Analysis of hADSC Treated with Linoleic Acid

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Briefly, hADSC were treated with 25 μmol LA or Ctrl for 24 h and 48 h (or 80 h) then lysed using RIPA buffer containing protease and phosphatase inhibitors at 4° C, followed by centrifugation for 10 min. The supernatant was collected and sample buffer (5×) was added at a ratio of 5:1. Samples were mixed well and boiled for 10 min, followed by storage at −40° C. Proteins were separated by 10% SDS polyacrylamide gel electrophoresis and transferred to PVDF membranes that were blocked by incubation with 2.5% dry skim milk, followed by overnight incubation with primary antibodies diluted in 2.5% dry skim milk at 4° C.
The following antibodies were used: monoclonal rabbit anti-RUNX2, anti-LPL, anti-P16ink4a, anti-GAPDH, anti-MMP14, anti-PKM, anti-PFKP, anti-AMPK, anti-p- AMPK (Abcam) at 1:1000 dilutions. The blots were then incubated with the secondary mouse or rabbit antibodies at room temperature for 1 h. Proteins were detected using the BioSpectrum 600 system. The western blots repeated 3 independent experiments.
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8

Western Blot Analysis of Cell Cycle Regulators

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After determining the sample concentration using a Micro BCA Protein Assay (Thermo Fisher Scientific, Waltham, MA, USA), 20 µg of proteins were separated by SDS-PAGE and transferred to polyvinylidene difluoride membranes (EMD Millipore, Billerica, MA, USA). After blocking with milk, membranes were incubated overnight at 4 °C with primary rabbit antibody: anti-p16INK4A (1:250, Abcam), anti-p21Cip1/Waf1 (1:1000, Cell Signaling, Beverly, MA, USA) and anti-GAPDH (1:10,000, Sigma-Aldrich). After three washes, membranes were incubated with the secondary goat anti-rabbit antibody (1:1000, Cell Signaling) at RT for 1 h. Reactions were revealed with the enhanced chemiluminescence detection reagent (ECL kit, Thermo Fisher Scientific). The intensity of each band was assessed by densitometry using the Image Studio Lite Software version 5.2 (Li-Cor Biosciences, Linkolin, NE, USA). GAPDH was used as a loading control.
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9

Senescence-associated β-Galactosidase and p16INK4a Expression

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Cells were spread on Superfrost plus slides (Menzel-Glaser, Braunshweig, Germany) at 1 × 105 cells/slide. Staining for SA β-Gal activity (Ozyme, Saint-Quentin-en-Yvelines, France) was performed as described14 (link). For p16INK4a expression analysis, cells were fixed and permeabilized by treatment, with PBS containing 4% formaldehyde, for 15 minutes at room temperature. The slides were then incubated overnight at 4 °C with anti-p16INK4a (1:250, Abcam, Cambridge, UK) in PBS-Triton X-100 (0,3%) and BSA (0,1%), and subsequently for 1 h at room temperature with Alexa 594 conjugated goat anti-rabbit antibody (1:200, Life Technologies, Saint Aubin, France). Staining for anti-phospho ERK1/2 was performed as described18 . After washings, slides were mounted with Prolong Gold + DAPI (Life Technologies, Saint Aubin, France) and analyzed on an Axioimager M2 microscope (Carl Zeiss, Oberkochen, Germany).
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10

Immunocytochemical Analysis of Cellular Markers

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Cells were fixed with 4% (w/v) paraformaldehyde and washed, and then the non-permeabilized cells were double-stained with an anti-IRα antibody and Alexa Fluor® 594-conjugated cholera toxin B subunit (Molecular Probes). After washing, cells were permeabilized with chilled methanol for 10 min at 4 °C and subsequently blocked with PBS containing 1% (w/v) BSA and 5% (v/v) normal goat serum. After washing, cells were incubated with primary antibodies, anti-p16INK4a (Abcam), or isotype control at 4 °C overnight. After washing, cells were stained with an Alexa Fluor® 488-conjugated secondary antibody (Molecular Probes) and an Alexa Fluor® 647-conjugated secondary antibody (Molecular Probes) and then counterstained with DAPI. Immunofluorescence images were taken using a fluorescence microscope (Leica Microsystems, Wetzlar, Germany).
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