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19 protocols using ab1893

1

Comprehensive Immunoblotting Antibody Panel

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The following antibodies were used: rabbit polyclonal antibody against phospho S139 gamma H2A.X (ab2893, Abcam), rabbit monoclonal antibody against alpha-tubulin (ab52866, Abcam), mouse monoclonal antibody against UBF (sc13125, Santa Cruz), RPA194 (sc48385, Santa Cruz), phospho S139 gamma H2A.X antibody (ab26350, Abcam), Anti-BrdU antibody (B8434, Sigma), sheep polyclonal antibody against BrdU (ab1893, Abcam), Alexa 488-conjugated goat anti-mouse IgG (A11029, Invitrogen), Alexa 568-conjugated goat anti-rabbit IgG (A11011, Invitrogen), DyLight 488 goat anti-mouse IgG (ab96879, Abcam), isotype mouse IgG antibody (ab91353, Abcam), alkaline phosphate-conjugated rabbit IgG (ZB5305, ZSGB) and HRP goat anti-mouse IgG (A0208, Beyotime).
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2

BrdU Labeling and Immunofluorescence Staining

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Animals were administered with BrdU (10 mg/mL in physiological saline; Sigma-Aldrich) twice per day by intraperitoneal injection at a dose of 350 mg per kilogram body weight, 3 days before sacrifice. After ether anesthesia, animals were transcardially perfused with 50 ml normal saline and 50 mL 4% PFA. The brains were fixed in 4% PFA overnight at 4°C, then cryoprotected in 30% sucrose and embedded in embedding medium (Tissue-Tek; Sakura Finetek, Torrance, CA). Transverse sections were cut using a cryostat (10 µm) (Leica, Wetzlar, Germany). For immunofluorescence staining, sections were re-hydrated (three PBS washes and 2 mol/L HCl for 1 h at RT). After four PBS washes, sections were treated with blocking solution (PBST and 10% goat serum) for 1 h at RT, then incubated in sheep-anti-BrdU antibody (ab1893, Abcam, Cambridge, MA) solution (1:200 in blocking solution) at 4°C overnight. After three PBS washes, sections were incubated in Alexa Fluor 488 donkey-anti-sheep antibody (1:300, Invitrogen/Molecular probe) for 2 h at RT. Following three PBST washes, the nuclei were stained with Hoechst (10 µg/mL) at RT for 20 min. The sections were mounted with GVA mounting medium. The number of BrdU-positive cells was determined from five consecutive sections (Wojtowicz and Kee 2006 (link)).
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3

Quantifying NSCLC Cell Proliferation

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NSCLC cells were prepared into single-cell suspension and planted on slides positioned in 12-well plates (1 × 105 cells/well). After NSCLC cells adhered to the bottom of the wells, 10 μmol/L of BrdU solution was added, and the cells were incubated for 4 h at 37°C. The solution was then discarded and the cells were rinsed 3 times with PBS. Subsequently, 70% ethyl alcohol was added, and the cells were fixed at 4°C for 10 min, and after 70% ethyl alcohol was discarded, the cells were rinsed using PBS 3 times. Then, 2 mol/L of HCl was added and maintained at 37°C for 40 min to denature DNA. Thereafter, HCI was discarded and the cells were rinsed with PBS 3 times. After 1% FBS was supplemented, the cells were blocked for 1 h. Then, the cells were rinsed with PBS again, and anti-BrdU monoclonal antibody (Abcam, ab1893, 1:300) was added to each well, and the cells were incubated overnight at 4°C. On the next day, Cy3 labelled goat anti-mouse fluorescent secondary antibody was added and incubated with cells for 2 h. Ultimately, the nuclei were counterstained with DAPI and the cells were observed under fluorescence microscope. Four fields were randomly taken from each slide, and the number of BrdU-positive cells was counted. Cell multiplication rate = the number of BrdU staining positive cells/total number of cells×100%.
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4

Immunohistochemical Analysis of Inflammatory Markers

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Another serial section was pretreated with trypsin (Sigma-Aldrich) and 2 N hydrochloric acid for an antigen retrieval. The endogenous peroxidase was removed by 0.3% hydrogen peroxide, and the non-specific binding protein was treated with normal horse serum for 1 h. Then, the sections were incubated with primary antibodies at 4 °C overnight. The antibodies for COX-2 (160126, Cayman; 1:200), PARP (9545, Cell Signaling Technology Inc., Danvers, MA, USA; 1:100), TNF-α (sc-52746, Santa Cruz Biotechnology, Santa Cruz, CA, USA; 1:200) and BrdU (ab1893, Abcam, Cambridge, UK; 1:100) were used. Next day, the sections were incubated with a biotinylated secondary horse anti-mouse/rabbit IgG antibody and Vectastain Elite ABC reagents (Vector Laboratories Inc., Burlingame, CA, USA) for 1 h each. The immunoreactivity was visualized by a peroxidase substrate kit (Vector Laboratories Inc.). All sections were incubated in a humidity chamber, and rinsed with 0.01 M phosphate-buffered saline three times between each step. Cells occupying immunoreactive regions over 20% were regarded as positive, and the number was assessed in 10 regions of interest in each section by a histopathologist blinded to the groups.
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5

Cell Proliferation and Colony Formation Assays

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For colony formation assay, cells (0.5×103) were seeded at 6-well plates, and cultured for 14 days, and then colonies were fixed with 4% paraformaldehyde for 30 minutes, and stained with 1% crystal violet for 1 hour. BrdU incorporation assay was performed using previous method;18 (link) cells (1.5×105) were grown for 3 days before labeling with 3 μg/mL BrdU for 4 hours and stained with 95% ethanol under agitation for overnight, and DNA was denatured with 2N HCl, 0.5% Triton X-100 for 1 hour. Note that, 0.1 M sodium tetraborate was used for neutralization. Cells were incubated with anti-BrdU antibody (ab1893, Abcam) for overnight at 4°C, then cells were washed and incubated with anti-Alexa Fluor 594-conjugated second antibody (Thermo) for 2 hours at room temperature. DAPI (Sigma-Aldrich Co., St Louis, MO, USA) was used to stain nucleus. For anchorage-independent growth assay, a mixture of cells (1×104) and 0.35% low-melt agarose was plated on a base layer of 0.7% low-melt agarose, cells were cultured for 3 weeks, and colonies whose diameter was larger than 0.1 mm were counted. Every experiment was assessed in triplicate.
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6

BrdU Labeling of Proliferating Cells

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We use BrdU to mark proliferating cells and compare the cell proliferation rate between groups. After deparaffinization, the slices were rehydrated, washed with phosphate-buffered saline (PBS) and incubated in 1 N HCl on ice for 10 minutes. Then, the slices were incubated in 2 N HCl for 10 minutes at room temperature followed by 20 minutes at 37 °C. The slides were buffered in a 0.1 M sodium borate solution for 12 minutes at room temperature, washed with PBS, and blocked with 5% normal donkey serum (Millipore, USA) for 1 hour at room temperature. The slides were then incubated with a 1:50 dilution of a primary antibody, namely, sheep polyclonal anti-BrdU (ab1893, Abcam) at 4 °C overnight. Then, the slides washed with PBS and incubated with a secondary antibody, namely, donkey anti-sheep IgG conjugated to Cy3 fluorophores (Jackson ImmunoResearch, USA), diluted 1:500 in PBS, for 1 hour at room temperature. The slides were washed with PBS and incubated with DAPI for 10 minutes. After being washed with PBS, the slides were covered with coverslips, and examined by confocal microscopy.
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7

Immunofluorescent Labeling of Neural Markers

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Primary antibodies: anti-BrdU (Abcam, ab1893, RRID:AB_302659, 1:1000), anti-βIII-tubulin (Biolegend, 802001, RRID:AB_2564645, 1:2000), anti-CALB (Swant, cb38, RRID:AB_10000340, 1:1000), anti-CC3 (Millipore, AB3623, RRID:AB_91556, 1:250), anti-DCX (Abcam, ab18723, RRID:AB_732011, 1:300), anti-GFAP (Thermo Fisher, 13–0300, RRID:AB_2532994, 1:2000), anti-NEUN-Alexa555 (Millipore, MAB377A5, RRID:AB_2814948, 1:500), anti-NG (Abcam, AB5620, RRID:AB_91937, 1:600), anti-PSA-NCAM (Sigma, MAB5324, RRID:AB_95211, 1:400), anti-PDGFRα (R&D Systems, AF1062, RRID:AB_2236897, 1:400), and anti-SOX2 (Novus Bio, AF2018, RRID:AB_355110, 1:1000 or Cell Signaling, 3728S, RRID:AB_2194037, 1:1500).
Secondary antibodies: anti-goat-555 (Jackson, 705–165-147, RRID:AB_2307351, 1:1000), anti-goat-647 (Jackson, 705–605-147, RRID:AB_2340437, 1:1000), anti-mouse IgM-555 (Jackson, 715–165-140, RRID:AB_2340812, 1:1000), anti-rabbit-488 (Jackson, 711–545-152, RRID:AB_2313584, 1:1000), anti-rat-555 (Jackson, 712–165-153, RRID:AB_2340667, 1:1000), and anti-sheep-647 (Jackson, 713–175-147, RRID:AB_2340730, 1:1000).
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8

Antibody Validation for BrdU, WB, and Co-IP

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The following antibodies were used for BrdU, western blot, and co‐IP assay: anti‐BrdU (#ab1893; Abcam), anti‐β‐actin (#sc47778; Santacruz), anti‐JNK1 + JNK2 + JNK3 (phospho‐T183 + T183 + T221) (#ab124956; Abcam), anti‐JNK1 + JNK2 + JNK3 (#ab179461; Abcam), anti‐MED8 (#PA5‐118854; Thermo), anti‐HBRNPA1 (#11176‐1‐AP; proteintech) and anti‐HA (#ab1424; Abcam).
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9

Multiparametric Immunohistochemistry for Immune Profiling

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Antibodies included anti‐BrdU, ab1893 (Abcam, Cambridge, MA), heat‐induced epitope retrieval (HIER; pH 6.0), used at 1:500; anti‐Ki67, ab16667 (Abcam), HIER, 1:100; anti‐Mac‐3, #55322 (BD Pharmingen, San Diego, CA), HIER, 1:1000; anti‐CD3, A 0452 (DakoCytomation, Carpinteria, CA), HIER, 1:100; anti‐CD45R, #550286 (Pharmingen), HIER, 1:50; anti‐mannose receptor (MR), ab64693 (Abcam), HIER, 1:1000; anti‐YM1 (chitinase 3‐like 3), R&D Systems (Minneapolis, MN), HIER, 1:1000; anti‐iNOS (inducible nitric oxide synthase), ab15323, (Abcam), HIER, 1:100; anti‐arginase I (Arg I), BD Transduction, 1:100; anti‐FOXP3, FJK‐16 (eBioscience, San Diego, CA), HIER, 1:10; anti‐MPO (myeloperoxidase), 120‐15484 (Novus, Saint Charles, MO), HIER, 1:10; anti‐SMA (smooth muscle actin), A2547 (Sigma‐Aldrich), 1:200; anti‐CD68, clone KP1 (DAKO), HIER, 1:100; anti‐CD4, 14‐9766 clone 4SM95 (Affymetrix, Santa Clara, CA), HIER, 1:50; and anti‐CD8, 14‐0808 Clone 4SM15 (Affymetrix), HIER, 1:100. Isotype and preimmune negative controls were used during staining optimization and lacked background staining.
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10

BrdU Incorporation Assay Protocol

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Cells grown on coverslips (Fisher, Waltham, MA, USA, 12-545-87) were incubated with bromodeoxyuridine (BrdU) for 1 hour and stained with an anti-BrdU antibody (Abcam, ab1893) according to the manufacturer's instructions. Gray-level images were acquired under a laser-scanning microscope (Axioskop 2 plus; Carl Zeiss Co. Ltd. Oberkochen, BW, DE).
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