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4 protocols using tris hcl ph 6.8

1

Yeast Cell Protein Extraction

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After yeast was cultured in syringes, the appropriate number of cells was collected and they were suspended in 100 µL of 0.2 m NaOH (Wako) and 1% 2‐mercaptoethanol (Wako) per OD, placed on ice for 10 min, and centrifuged at 17 800 g at 4 °C for 2 min. The supernatant was discarded, and 100 µL of 1× sample buffer (2% SDS (Nacalai Tesque), 100 mm DTT (Wako), 60 mm Tris/HCl (pH 6.8) (Sigma), 0.001% bromophenol blue (Sigma), 10% glycerol (Wako)) was added per 1 OD. The pellet was suspended by adding 100 µL per OD, heated at 100 °C for 5 min, and the centrifuged supernatant was used as the sample for SDS/PAGE.
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2

Western Blot Assay: Standard Procedures

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Standard procedures were applied for the Western blot assay [21 (link)]. Cells were harvested by cell dissociation buffer and collected by centrifugation. Harvested cells were lysed in 0.125 M Tris–HCl pH 6.8 (Sigma–Aldrich), 5% sodium dodecyl sulfate (SDS, Lonza, Verviers, Belgium), and protease/phosphatase inhibitors (25 mM sodium fluoride, 10 μg/mL pepstatin A, 1 mM phenylmethylsulfonyl fluoride, 10 μg/mL trypsin inhibitor, 12.5 μg/mL leupeptin, 30 μg/mL aprotinin, 1 mM sodium orthovanadate, and 1 mM sodium molibdate, all purchased from Sigma–Aldrich). Following sonication and boiling, protein content was determined through the bicinchoninic acid (BCA) assay method (Pierce, Thermo Fisher Scientific, Waltham, MA), and SDS-PAGE was performed. Proteins were then transferred onto nitrocellulose membranes. The films were incubated in “Blocking buffer” (PBS-Tween containing 5% (w/v) dried skimmed milk) for 1 h and incubated overnight at 4 °C with the primary antibodies dissolved in the blocking buffer. Following 1 h incubation at room temperature with horseradish-conjugated secondary antibodies, membranes were exposed to chemiluminescence solution (ECL, GE Healthcare).
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3

Antibody Stripping and Restaining Protocol

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Following micrograph acquisition after the first IHC staining, the samples were washed with an alcohol gradient (25, 50, 70, 85, 95, 85, 70, 50 and 25%). The antibodies were then stripped with a buffer containing 65 mM Tris-HCl pH 6.8 (Sigma-Aldrich; Merck KGaA), 1% SDS (Beijing Solarbio Science & Technology Co., Ltd.), 0.113M 2-mercaptoethanol (Sigma-Aldrich; Merck KGaA), 0.1M NaCl and 2M urea (Sigma-Aldrich; Merck KGaA) in a 56˚C water bath with agitation twice for 30 min each time. After antibody stripping, the sections were washed with distilled water for 30 min (5 min each time) at room temperature. The sections were then immunostained again, as described earlier.
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4

Western Blot Analysis of H2A.2-FLAG

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Cell numbers were normalized based on OD600 and lysed by addition of HU buffer (8 M urea [Millipore, Burlington, MA], 5% SDS [Sigma-Aldrich, St. Louis, MO], 200 mM Tris-HCl [pH 6.8] [Sigma-Aldrich, St. Louis, MO], 1.5% DTT [Sigma-Aldrich, St. Louis, MO]), followed by boiling for 20 minutes. Samples were separated on 12.5% acrylamide gels at 120 V for 30 minutes and blotted onto nitrocellulose membranes (Thermo Fisher Scientific, Waltham, MA). Blotting was performed using a BioRad apparatus in Electroblot Buffer (27.5 mM Tris-Base [Sigma-Aldrich, St. Louis, MO], 192 mM glycine [BioRad, Hercules, CA], 20% methanol [Sigma-Aldrich, St. Louis, MO]) at 20 V for 15 minutes. A primary mouse anti-FLAG antibody (1:500 dilution; Santa Cruz Biotechnology) and a fluorescently labelled anti-mouse secondary antibody (IRDye800CW Goat anti-Mouse IgG; LI-COR, Lincoln, NE) were used to detect H2A.2-FLAG. The primary antibody to H3 was a rabbit anti-H3 (1:5000 dilution; Abcam, Cambridge, United Kingdom) and was detected using a fluorescently labelled anti-goat secondary antibody (IRDye680 Goat anti-Rabbit IgG; LI-COR, Lincoln, NE). Images were acquired using an Odyssey CLx Imaging system (LI-COR, Lincoln, NE).
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