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4 protocols using clone 9e10

1

Quantitative ChIP-qPCR Protocol for Telomeric Regions

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ChIP-qPCR was performed using QuantiFast SYBR Green PCR kit according to the manufacturer’s instructions and as described in ref. 69 (link). Each reaction was performed in triplicates using a Roche LightCycler 480 system version 1.1.0.1320. The results were analysed with absolute quantification/2nd derivative maximum and the 2(−ΔC(t)) method as previously described70 (link). We used primers for TERs TER302, TER603 and TER1004 previously described in ref. 16 (link) and presented in Supplementary Table 2. Statistical analyses (Student’s t-test, unpaired, two tailed) were performed with Numbers version 10.3.5 (7029.5.5) and the obtained p-values are indicated in figures. All experiments were performed with at least three biological replicates. Antibodies used: anti-FLAG (mouse monoclonal, clone M2, Sigma; cat. no: F3165), 5 μg antibody used for 2.5 × 108 cells; anti-myc (mouse monoclonal), clone 9E10, Santa Cruz Biotechnology cat. no. sc-40), 5 μg antibody used for 2.5 × 108 cells.
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2

Immunoblotting Analysis of Myc and AMPK

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Cells were exposed to Myc inhibitors for the indicated periods of time and then harvested and lysed in RIPA buffer containing protease and phosphatase inhibitors. Equivalent amounts of protein were subjected to SDS-PAGE and immunoblotting according to previously-described procedures [12 (link), 13 (link)]. Antibodies used included mouse monoclonal antibodies (mAbs) against AMPK (1:1000 dilution: catalog no. 2532, Cell Signaling Technology, Beverly, MA) and Myc (1:500 dilution: Clone 9E10, Santa Cruz Biotechnology, Inc. Santa Cruz, CA) a rabbit polyclonal antibody against AMPK phospho-Thr172 (1:1000 dilution, catalog no. 2535, Cell Signaling Technologies). As a control for protein loading, blots were also probed with a mouse mAb against β−actin (1:10,000 dilution: cat. no.3700S Cell Signaling Technology). Immunoblots were developed using an enhanced chemiluminescence reagent according to the directions of the supplier (SuperSignal West Femto Maxmum Sensitivity Substrate, Thermo Fisher Scientific, Inc. Waltham, MA).
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3

Antibody Validation Protocol

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The following antibodies were used: anti‐DYKDDDDK/flag (filter trap 1:1,000, FACS 1:250, Cell Signaling), anti‐myc (1:1,000, clone 9E10, Santa Cruz), anti‐HA (1:1,000, clone 3F10, Roche), anti‐GFP (1:1,000, clone N86/8, NeuroMab), anti‐GA clone 5F2 (1 μg/ml) (Mackenzie et al, 2013), mouse IgG2a (1 μg/ml, Sigma), and rabbit IgG (1:250, Sigma).
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4

Western Blot Analysis of Yeast Proteins

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Proteins were analysed from denatured yeast crude extracts. Briefly, 108 cells/ml were harvested, resuspended in 2 ml of TCA 20% and transferred to 2 ml eppendorf tubes. The pellet was resuspended in 200 μl of TCA 20% and an equal volume of acid-washed glass beads (425–600 μm, Sigma) was added. Cells were broken by continuous vortexing for 2–4 min. 400 μl of TCA 5% was added to have a final concentration of TCA 10%. The lysates were then transferred to new 1.5 ml tubes and centrifuged for 10 min at 775×g at RT. The pellet was resuspended in 100 μl Laemmli buffer 1×. The pH was then adjusted with 50 μl of Tris Base 1 M. The protein extracts were boiled for 3 min and centrifuged for 10 min at 775×g at RT. The supernatant was collected and analysed by SDS–PAGE. Western blot acquisition and quantification was performed using BIORAD Image Lab Version 5.2.1. The following antibodies were used for WB detection: anti-FLAG (mouse monoclonal, clone M2, Sigma; cat. no: F3165, 1:5000 dilution), anti-HA (mouse monoclonal, clone 16B12, Biolegend; cat. no. 901501, 1:3000 dilution), anti-Pgk1 (mouse monoclonal, clone 22C5D8, Novex Life Technologies; cat. no. 459250, 1:5000 dilution), anti-myc (mouse monoclonal), clone 9E10, Santa Cruz Biotechnology cat. no. sc-40, 1:10,000 dilution), anti-mouse IgG HRP-linked (goat, Cell Signaling; cat. no. 7076, 1:20,000 dilution).
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