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6 protocols using ant020

1

Antibodies and Plasmid Constructs for USP5 and c-Jun

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The following antibodies were used: rabbit polyclonal anti-USP5 (10473-1-AP, Proteintech, Wuhan, China); rabbit monoclonal anti-c-Jun (ab40766, Abcam, Waltham, USA, 1:2000 dilution); mouse anti-HA (M180-3, MBL, Japan, 1:5000 dilution); mouse anti-Flag (M185-11R, MBL, Japan, 1:5000 dilution); mouse anti-Myc (M192-3, MBL, Japan,1:5000 dilution); mouse anti-GAPDH (ANT011, AntGene, Wuhan, China, 1:5000 dilution); HRP-labelled goat anti-mouse IgG (H + L) (A0216, Beyotime, Shanghai, China, 1:5000 dilution); and HRP goat anti-rabbit IgG (H + L) (ANT020, AntGene, Wuhan, China, 1:5000 dilution).
The plasmids PHAGE-3×Flag-USP5(FLAG-USP5), pHAGE-3×HA-USP5 and pHAGE-3×HA-USP5 C335A (HA-USP5 C335A) were constructed according to the methods in the “Molecular Cloning Experiment Guide”. The plasmid pcDNA3.1-3xFlag-c-Jun (FLAG-c-Jun) was purchased from Youbio (F118284).
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2

Western Blot Analysis of BDKRB2, VEGF

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The cells were harvested and lysed by radioimmunoprecipitation assay (RIPA) lysis buffer (Beyotime) supplemented with a protease inhibitor cocktail (Roche). The protein concentration was measured using the Coomassie brilliant blue G-250 (Biofroxx) staining method. Protein samples (40 μg each) were separated by 10% SDS-PAGE, transferred onto a polyvinylidene difluoride membrane and immunoblotted with primary antibodies. The primary antibodies used were as follows: Rabbit monoclonal anti-human BDKRB2 (1:500; ab134118, Abcam), rabbit polyclonal anti-human VEGF (1:1,000; 102643, Genetex), rabbit polyclonal anti-human α-tubulin (1:2,000; ANT014, Antgene). The primary antibodies were incubated overnight at 4°C. The membranes were then washed with phosphate-buffered saline Tween-20 (PBST, pH 7.5) and incubated with horseradish peroxidase-conjugated goat anti-rabbit IgG (1:2,000; ANT020, Antgene) for 1 h at 37°C. Finally, the proteins were detected using an enhanced chemiluminescence system (Pierce/Thermo Fisher Scientific).
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3

Protein Expression Analysis by Western Blot

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Tissue or cell proteins were harvested with RIPA Lysis Buffer (Beyotime, P0013B) supplemented with phenylmethyl sulfonyl fluoride (PMSF, Beyotime ST506) protease inhibitor and phosphatase inhibitor. Total protein concentration was measured by BCA Protein Assay Kit (Thermo Fisher Scientific, 23225). Total proteins were separated by sodium dodecyl sulfate polyacrylamide gel electrophoresis (SDS−PAGE) and transferred to a PVDF membrane, followed by blocking with 5% skimmed milk for 1 h. Then the membranes were incubated with ZO-1 (Invitrogen, 61-7300), occludin (Invitrogen, 42-2400), cladudin1 (GeneTex, GTX54539), LC3B (Cell Signaling Technology, 43566), p62 (GeneTex, GTX100685), caspase3 (Cell Signaling Technology, 9662), cleaved-caspase3 (Cell Signaling Technology, 9664), Bcl2 (Proteintech, 12789-1-AP), Bax (Proteintech, 50599-2-Ig), GAPDH (ABclonal, A19056) and ACTB (ABclonal, AC038) primary antibodies (all 1:1000 dilution) overnight under 4°C. After washing with TBST for 3 times, membranes were incubated with corresponding secondary antibodies conjugated HRP (Antgene, ANT020 and ANT019) for 1 h at room temperature. Protein bands were visualized by the Chemi-luminescence imaging system (UVP, USA) using enhanced chemiluminescent reagents (Beyotime, P0018).
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4

Quantification of MHC I and II expression

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As described above, the FFPE sections were deparaffinized and hydrated, and antigens were retrieved with Tris-EDTA buffer. Endogenous peroxidase activity was quenched with 3% H2O2. After blocking with goat serum, the slides were incubated with primary antibodies [major histocompatibility complex (MHC) I, ab134189/Abcam, 1:2000 or MHC II, ab170867/Abcam, 1:300], followed by incubation with HRP-conjugated secondary antibodies (AntGene, ANT020). Immunoperoxidase staining was performed using the 3,3′-diaminobenzidine (DAB) system (Servicebio, G1212). Finally, the slides were counterstained with hematoxylin and coverslipped with a mounting solution. The results were recorded using a TEKSQRAY scanner (SQS-40R) and quantified by three pathologists. The staining score was calculated as the area score × intensity score. Area scores were graded as 0–25% (1), 26–50% (2), 51–75% (3), and 76–100% (4); intensity scores were graded as negative (0), weakly positive (1), positive (2), and strongly positive (3).
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5

Immunohistochemical Analysis of VPS13C and ST6GAL2

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IHC was performed on paraffin‐embedded slides. Briefly, deparaffinized slides were rehydrated and incubated with a tris‐EDTA (pH 9.0) (10 mm tris base, 1 mm EDTA, and 0.05% Tween 20) antigen retrieval solution in a Pressure Cooker. Nonspecific antibody binding was blocked with 10% bovine serum albumin (Servicebio) for 1 h, followed by overnight incubation with anti‐VPS13C (1:300; abcam, ab130399), anti‐ST6GAL2 (1:20; R&D Systems, AF7747‐SP) primary antibodies. To visualize antigens, slides were washed and incubated for 1 h with horseradish peroxidase (HRP)–conjugated anti‐rabbit (antgene, ANT020) and DAB chromogen. All images were processed from Adobe Photoshop CC 2017.
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6

Western Blot Analysis of Histone Modifications

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Cells were lysed in SDS lysis buffer. After heating for 10 min at 100℃, 50 µg or the indicated amount of protein extract was loaded onto SDS-PAGE, followed by transfer to PVDF membranes. Membranes were blocked with 5% milk-TBST and incubated with primary antibodies against the following proteins: SETD8 (Proteintech, 14063-1-AP, 1:500), H4K20me1 (Abclonal, A2370, 1:1000), H4K20me2 (Abclonal, A2371, 1:1000), GAPDH (Abclonal, AC001, 1:20000), 53BP1 (Abclonal, A5757, 1:500), and γ-H2AX (Abclonal, AP0245, 1:1000). Membranes were incubated with the following secondary antibodies: HRP goat anti-mouse (antGene, ANT019, 1:6000) or HRP goat anti-rabbit (antGene, ANT020, 1:6000).
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