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4 protocols using nmnat2

1

Rabbit Polyclonal Antibody Generation and Characterization

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The custom rabbit polyclonal antiserum against PARP-1 used for Western blotting and ChIP assays was generated by using a purified recombinant antigen comprising the amino-terminal half of PARP-1 (42 (link)) (now available from Active Motif; cat. no. 39559). The custom rabbit polyclonal antiserum against NMNAT-1 was raised against purified recombinant human and mouse NMNAT-1 (Pocono Rabbit Farm and Laboratory). The custom recombinant antibody-like anti-poly-ADP-ribose binding reagent (anti-PAR) was generated and purified in-house (now available from EMD Millipore, MABE1031). The other antibodies used were as follows: C/EBP (Santa Cruz, sc-150X), NMNAT-2 (Abcam, ab56980), -Tubulin (Abcam, ab6046), SIRT1 [custom rabbit polyclonal antiserum raised against mouse SIRT1 (35 (link))], acetyl-p53 K379 (Cell signaling, #2570), p53 (Cell signaling, #2524), H4K16Ac (Millipore, 07–329), Histone H4 (Millipore, 07–108), rabbit IgG (Invitrogen, 10500C), goat anti-rabbit HRP-conjugated IgG (Pierce, 31460), and goat anti-mouse HRP-conjugated IgG (Pierce, 31430).
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2

Western Blotting of Cellular Fractions

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Western blotting of cell body or neurite homogenates were performed as described previously.27 (link) In addition to NAMPT (1 : 2000, Enzo Life Sciences, Exeter, UK), mouse monoclonal anti-histone H1 (1 : 500; Millipore, Nottingham, UK), and mouse monoclonal anti β-actin (1 : 5000; Abcam, Cambridge, UK) were used as loading controls for the cell body and the neurite fraction, respectively. For quantification, western blotting for NMNAT2 (2.0 μg/ml, Abcam) was performed as described in.16 (link) Western blotting band intensities were determined and analysed with the ImageJ software (National Institutes of Health, Bethesda, MD, USA). Western blotting of HEK293T or PC12 cell homogenates were performed as described,27 (link) and blots were probed with an anti-his antibody (Sigma, H1029).
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3

Nmnat2 Downregulation Impacts Amyloid Pathways

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NAD/NADH assay kit (Colorimetric) was purchased from Abcam. Bicinchoninic acid (BCA) protein detection kit, chemiluminescent substrate kit, and phosphocellulose units were from Pierce. Diaminobenzidine (DAB), and Hoechst 332621 were from Sigma-Aldrich. Lipofectamine 2000 was from Invitrogen. OPTIMUM and other reagents for cell culture were from Gibco. AICAR (5-aminoimidazole-4-carboxamide-1-β-riboside) was from Cell Signaling, and Compound C was from Millipore. Plasmid Flag-Nmnat2 was kindly gifted by Dr. Michael P. Coleman (The Babraham Institute, Babraham Research Campus, Cambridge, United Kingdom). The target sequences (GeneBanK NM_175460) for mouse Nmnat2 messenger RNA (mRNA) is 5′-GCACAAGACTGGAAGATTT-3′. The scrambled siRNA sequence is 5′-TTCTCCGAACGTGTCACGT-3′. The Nmnat2 siRNA and scrambled siRNA are inserted into pMagic4.1 vector to generate Nmnat2-siRNA-EGFP (siNmnat2) and scramble-siRNA-EGFP plasmids. Some antibodies are as follows: Nmnat2 (Abcam), 22C11 (Millipore), p-APP (Thr-668) (Biosource), ADAM10 (Abcam), G2-10 (Millipore), G2-11 (Millipore), 6E10 (Millipore), 4G8 (Millipore), Y188 (Abcam), AMPK (Sigma), p-AMPK (Thr172) (Abcam), DM1A (Abcam), β-actin (Abcam). See Table 1 for more details.
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4

Protein Extraction and Western Blot Analysis

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For total protein extraction, the contusion-side cortex of animals was lysed completely in ice-cold radioimmunoprecipitation lysis buffer (Beyotime, Shanghai, China) that contained protease inhibitor with centrifugation at 12000 g at 4°C for 20 minutes. The supernatant was collected, and then protein concentration was estimated using a bicinchoninic acid assay kit (23227; Thermo Fisher Scientific). After denaturing at 95°C for 5 minutes in 5× loading sodium dodecyl sulfate (SDS) buffer (Invitrogen), a total of 30 µg protein of each sample was separated by SDS-polyacrylamide gel electrophoresis and transferred to polyvinylidene fluoride membranes (Millipore, Burlington, MA, USA). Blocking buffer containing 5% non-fat milk was used to block the membranes for 1 hour at room temperature. Then the membranes were incubated with primary antibodies against β-actin (1 : 10000), NMNAT2 (Abcam, Cambridge, UK; 1 : 1000), BCL-2-associated X protein (Bax; 1 : 500; Protein Tech, Rosemont, IL, USA) at 4°C overnight. The next day, the membranes were incubated with secondary antibodies conjugated to horseradish peroxidase. Finally, the immunoblots were detected by enhanced chemiluminescence reagents (Millipore) in an imaging system (BioRad, Hercules, CA, USA). The relative protein intensity was analyzed using Image-J software (National Institutes of Health, Bethesda, MD, USA).
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