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7 protocols using anti hp1α

1

Western Blot Analysis of Protein Targets

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Cells were lysed using SDS lysis buffer (containing 4% SDS and 100 mM Tris-HCl (pH=6.8)) and boiled at 105°C on a thermomixer for 10 min. Protein samples were diluted (ranging from 1:10 to 1:20) and protein concentration was measured by BCA kit. About 20 μg protein per sample was subjected to SDS-PAGE and electrotransferred to a PVDF membrane (Millipore). The membrane was blocked with 5% skim milk (powder from BBI Life Sciences) and incubated with primary antibodies for ∼12 hr at 4°C, then with horseradish peroxidase (HRP)-conjugated secondary antibodies. The visualization and data processing were performed by a ChemiDoc XRS system (Bio-Rad). Antibodies used in this study were as follows: anti-ZKSCAN3 (Santa Cruz, sc-515285), anti-HP1α (Cell Signaling Technology, #2616S) and anti-KAP1 (Abcam, Ab22553), anti-Lamin B1 (Abcam, Ab16048), anti-LBR (Abcam, Ab32535), anti-P16 (BD Bioscience, 550834), anti-P21 (Cell Signaling Technology, #2947), anti-β-actin (Santa Cruz, sc-69879), anti-Flag (Sigma, F1804) and anti-GAPDH (Sigma, G8795).
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2

Comprehensive Antibody Panel for Nuclear Protein Analysis

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Rabbit polyclonal anti-RCOR2 (Sigma HPA021638, lot number A117885), anti-coilin antibody (Genetex, GTX112570), anti-H3K9me3 (Abcam, ab8898), anti-HP1α (Cell Signaling, #2616S), anti-LSD1 (Abcam, ab17721), anti-SON (Thermo Fisher, #PA5-65107), anti-SRRM2 (Thermo Fisher, #PA5-66827), anti-HDAC2 (Abcam, #ab7029) and anti-GAPDH (Cell Signaling, #2118S). Rabbit monoclonal anti-HA (Cell Signaling, #3724S). We used anti-SC35 mouse monoclonal antibodies from (Genetex GTX11826) and (Sigma SAB4200725). Recently, it was shown that this monoclonal antibody recognizes the SRRM2 and SRSF7 proteins but does not recognize SC35 [14 (link)]. Mouse monoclonal anti-nucleophosmin (Abcam, ab10530), anti-SRSF1/ASF-1 (Millipore-Sigma, #MABE936). Alexa Fluor® 488 AffiniPure Fab Fragment Goat Anti-Rabbit IgG (H + L) (Jackson Immunoresearch, 111-547-003). AlexaFluor 594-conjugated donkey anti-rabbit IgG antibody (Invitrogen, Thermo Fisher, R37119). AlexaFluor 488-conjugated donkey anti-mouse IgG antibody (Invitrogen, Thermo Fisher, R37114).
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3

Immunofluorescence Staining of Diverse Cellular Markers

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5 × 105 cells were seeded on coverslips (Thermo Fisher Scientific), washed with PBS and fixed with 4% paraformaldehyde (PFA) for 30 min and permeabilized with 0.4% Triton X-100 in PBS for 30 min at RT. After washing with PBS three times, the cells were blocked with 10% donkey serum (Jackson ImmunoResearch) in PBS for 1 hr at RT. The cells were then incubated with primary antibodies in 10% donkey serum at 4°C overnight. Afterwards, cells were washed with PBS and stained with secondary antibodies and Hoechst 33342 (Thermo Scientific) for 1 hr at RT. A Leica SP5 confocal system was used for imaging. Antibodies used in this study were as follows: anti-Ki67 (ZSGB-BIO, ZM0166), anti-53BP1 (Bethyl Laboratories, A300-273A), anti-FOXA2 (Cell Signaling Technology, 8186S), anti-SMA (Sigma, A5228), anti-TuJ1 (Sigma, T2220), anti-H3K9me3 (Abcam, Ab8898), anti-NANOG (Abcam, Ab21624), anti-OCT3/4 (Santa Cruz, sc-5279), anti-SOX2 (Santa Cruz, sc-17320), and anti-LAP2 (BD Bioscience, 611000), anti-HP1α (Cell Signaling Technology, #2616S), and anti-Lamin A/C (Santa Cruz, sc-376248).
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4

Western Blot Analysis of Cellular Proteins

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1 × 106 cells were lysed in 100 μL RIPA buffer [50 mmol/L Tris-HCl (pH = 7.5), 150 mmol/L NaCl, 1% NP-40, 0.5% sodium deoxycholate, 0.1% SDS] supplemented with NaF, NaVO4 and a protease-inhibitor mixture (Roche). Typically 20 μg of proteins were separated by SDS-PAGE, transferred to a PVDF membrane (Millipore), and blotted with one of the following primary antibodies and then HRP-conjugated secondary antibodies. The quantification of western blot was performed with Image Lab software for ChemiDoc XRS system (Bio-Rad).
Primary antibodies for western blotting include anti-WRN (Santa Cruz Biotechnology, Inc.), anti-Progerin (Santa Cruz Biotechnology, Inc.), anti-P21 (Cell Signaling Technology, Inc.), anti-LAP2β (BD Bioscience, Inc.), anti-HP1α (Cell Signaling Technology, Inc.), anti-Actin (Santa Cruz, Inc.), anti-Lamin B1 (Abcam, Inc.), anti-P16 (BD Bioscience, Inc.), anti-H3K9me3 (Abcam, Inc.), anti-β-Tubulin (Santa Cruz, Inc.).
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5

Protein Extraction and Western Blot Analysis of FOXO1 in hMSCs

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FOXO1+/+ and FOXO1–/– hMSCs cultured in 6-well plates were lysed on ice with 120 μL of radioimmunoprecipitation assay (RIPA) buffer (Invent, IN-WB001) supplemented with protease inhibitor cocktail (EDTA-free) (Roche, 4693159001) and PhosSTOP phosphatase inhibitor (Roche, 4906837001) for 30 min, and then centrifuged at 13,500 ×g for 15 min at 4°C to extract the supernatant. Then, the protein concentration was measured using BCA protein quantification kit (Dingguo Changsheng Biotech, BCA02). Each sample was then subjected to SDS-PAGE separation and electrotransferred to PVDF membrane (Millipore, ISEQ00010). Subsequently, the membranes were blocked with 5% nonfat milk in PBST for 1 h at RT and then incubated with appropriate primary antibodies at 4°C overnight. After several washes, membranes were incubated with the secondary antibodies conjugated with horseradish peroxidase (HRP) at RT for 1 h. Imaging was captured with ChemiDoc XRS + system (Bio-Rad) and the data of protein band intensity were analyzed with ImageJ. The following primary antibodies were used for western blotting: anti-FOXO1 (Cell Signaling Technology, 2880), anti-P16INK4a (BD Bioscience, 550834), anti-GAPDH (Santa Cruz, sc-365062), anti-HP1α (Cell Signaling Technology, 2616), and anti-HP1γ (Cell Signaling Technology, 2619).
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6

Chromatin Modification Analysis in Cell Lines

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HCT116, HeLa, HEK293T, A549, H1299, Calu3 and MDA-MB-231 cells were cultured in McCoy’s 5A medium or DMEM supplemented with 10% fetal bovine serum (FBS) and 1% penicillin/streptomycin in a 37°C incubator with a 5% CO2 and humidified atmosphere. The antibodies used in this study include: anti-H1 and anti-pan-H3-ac from Active Motif; anti-H1.4, anti-β-actin and anti-Biotin from Santa Cruz; anti-H1K85ac and anti-H1K63ac from PTM Biolabs; anti-H3K14ac, anti-H3K9ac, anti-H4K16ac, anti-histone H3, anti-histone H4 from Abcam; anti-PCAF, anti-phospho-H2AX (S139), anti-H2A, anti-HP1α, anti-SMC1, anti-SUV39H1, anti-pan-acetyl-lysine, anti-HDAC1, anti-HDAC2, anti-HDAC3 and anti-HDAC8 from Cell Signaling; anti-HP1β and anti-HP1γ from GeneTex; anti-FLAG from Sigma; anti-GST from APPLYGEN; anti-GFP from MBL. Adriamycin, etoposide, camptothecin (CPT), isopropy-β-D-thiogalactoside (IPTG), trichostatin A and nicotinamide were purchased from Sigma; anacardic acid was purchased from Selleck.
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7

Immunofluorescence Staining of Stem Cell Markers

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For immunofluorescence analysis, cells seeded on coverslips (Thermo Fisher Scientific) with a suitable confluence were fixed in 4% PFA for 15 min, washed with PBS at least three times, permeabilized using 0.4% Triton X-100 in PBS for 30 min, and then blocked with 10% donkey serum (Jackson ImmunoResearch) in PBS for 1 h at room temperature. Cells were then incubated with indicated primary antibodies in 10% donkey serum in PBS at 4°C overnight. Cells were washed at least three times with PBS and incubated with secondary antibodies and Hoechst 33342 (Invitrogen, H3570) at room temperature for 1 h, then washed at least three times with PBS. Finally, the coverslips were mounted using mounting medium (Vector Labs), and images were captured with a Leica SP5 confocal system.
Antibodies used for immunofluorescence analysis are as follows: anti-SOX2 (Santa Cruz, sc-17320), anti-OCT4 (Santa Cruz, sc-5279), anti-NANOG (Abcam, ab21624), anti-Ki67 (ZSGB-BIO, ZM-0166), anti-γH2AX (Millipore, 05-636), anti-53BP1 (BETYHL, A300-273A), anti-Lamin B1 (Abcam, ab16048), anti-FLAG (Sigma, F1804), anti-H3K9me3 (Abcam, ab8898), anti-Lamin A/C (Santa Cruz, sc-376248), anti-KAP1 (Abcam, ab10483), anti-HP1α (Cell Signaling Technology, 2616), Alexa 488 donkey anti-mouse IgG (Invitrogen, A21202), Alexa 568 donkey anti-rabbit IgG (Invitrogen, A10042) and Alexa 647 donkey anti-goat IgG (Invitrogen, A21447).
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