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4 protocols using nonfat dry milk

1

Immunohistochemistry Blocking Optimization

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In general, endogenous peroxidases were blocked with 3% H2O2 in methanol for 30 min followed by antigen retrieval. Blocking of non-specific binding was attained by an hour incubation with a block buffer containing 2% bovine serum albumin (Sigma-Aldrich, Belgium), 1% non-fat dry milk (Nestlé, Anderlecht, Belgium) and 0.1% Tween80, unless mentioned differently. Subsequently, the primary and secondary antibody were incubated and morphology was visualized by counterstaining with hematoxylin. Note that the slides were washed with Tris buffered saline between each step. Table 1 displays the specifics of each assay.
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2

Immunoblot Analysis of Signaling Proteins

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Immunoblot analysis was carried out on cell lysates as described previously [29 (link)], using antibodies against EGFP (Roche, Switzerland), phospho-SAPK/JNK (Thr183/Tyr 185) (Cell Signaling, USA), DNA gyrase A (Abcam, England) and TirS. The affinity purified TirS antibody was generated (Eurogentec, Belgium) by immunizing rabbits with peptides RINKKRKPTSSNIRD and NQKKLSSMLDKNTKG.
To confirm equal protein loading, membranes were washed in 0.2M NaOH for 5 minutes, rinsed with PBST (PBS containing 0.1% Tween 20 (Sigma Aldrich, Germany), blocked with blocking buffer containing 5% nonfat dry milk (Nestlé, Germany) and 0.1% Tween 20, and reprobed with ERK2 (C-14): sc-154 (Santa Cruz, USA). Densitometric analysis was performed using ImageJ.
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3

Hippocampal Protein Expression Profiling

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For tissue punches of hippocampus, hemisectioned brains were embedded rostral side down in OCT media and sectioned on a Leica (CM3050) cryostat at −25°C, and a 500–1000 μm 1 mm diameter punch from Interaural 1.10 to 2.10 mm (according to Paxinos & Franklin Mouse Brain Atlas, 2nd ed.) was taken for each MEST and Sham mouse from ZT1 and ZT15. Individual hippocampal punches were homogenized in 100 μl Tris-HCl buffer with Protease Inhibitor Cocktail (Sigma P2714) for 45 s and centrifuged at 14,000 rpm for 1 min, and 5 μl lysates were loaded with 5 μl 2X loading buffer and separated on 10% Tric-HCl 0.75 mm gels and transferred to nitrocellulose membranes (Invitrogen). The membranes were blocked with 5% nonfat dry milk (Nestlé) and blotted with BMAL (Arntl) antibody (1:1000; Bethyl Laboratories) and beta-actin antibody (1:1000; Cell Signaling). Goat anti-Rabbit IR800 (1:5000; LI-COR) secondary antibody was used to visualize on Odyssey scanner (LI-COR). Intensities of protein were determined using ImageJ software (NIH).
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4

Western Blot Analysis of Muscle Proteins

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Muscles were dissected, minced, and homogenized in 0.5 mL RIPA buffer (10 mM Tris-HCl pH 7.5, 10 mM EDTA, 0.5 M NaCl, 0.5% NaDoc, and 1% NP40) supplemented with Protease Inhibitor Cocktails (Roche 11697498001 and 04906837001, Germany) using a Dounce tight pestle. The homogenate was passed through a 16G needle. Proteins (100 μg) were separated by SDS-PAGE and transferred electrophoretically to nitrocellulose membrane (Amersham Piscataway, NJ). Nonspecific binding was blocked in Tris-Cl Buffered Saline Solution with 0.05% Tween-20 (TBST) containing 10% nonfat dry milk (Nestlé) Blocking Buffer (BB) overnight at +4°C and then probed 1 h with primary antibody. The following specific antibodies were used:

Anti-Pax7 1 : 50 in BB (Hybridoma supernatant, Iowa University, IO).

Anti-MyoD 1 : 50 in TBST (Santa Cruz).

Anti-Desmin 1 : 50 IN BB (Sigma-Aldrich, Saint Louis, MO).

Anti-phospho-NF-kB: p65 1 : 400 in 5% BSA (Cell Signaling, 3033).

Anti-NF-kB p65 1 : 400 in 5% BSA (Cell Signaling, 4764).

Anti-GAPDH 1 : 10000 (Santa Cruz).

After washing in TBST, blots were incubated with anti-mouse or anti-rabbit secondary antibody HRP-conjugated (BioRad, Hercules, CA) diluted 1 : 10000 in TBST and detected by using Super Signal West Pico Chemiluminescent Substrate (Pierce, Rockford, IL).
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