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5 protocols using atp5d

1

Western Blot Analysis of Mitochondrial and Epigenetic Proteins

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Western blot was performed as described2 (link) using the following antibodies: TFAM (7495S, Cell Signaling Technology; sc-23588, Santa Cruz Technology), PHB2 (14085S, Cell Signaling Technology), ATP5A1 (sc-136178, Santa Cruz Technology), ATP5B (sc-16690, Santa Cruz Technology), ATP5D (ab97491, Abcam), ATP5O (ab110276, Abcam, clone 4C11C10D12), 4EBP1 (9644S, Cell Signaling Technology), phos-4EBP1 (Thr37/46) (2855S, Cell Signaling Technology), p70S6K (2708S, Cell Signaling Technology), phos-S6K (Ser235/236) (2211S, Cell Signaling Technology), GATA1 (ab47490, Abcam), GATA2 (ab22849, Abcam), TSC1 (6935, Cell Signaling Technology), TSC2 (4308, Cell Signaling Technology), H3K9ac (9649, Cell Signaling Technology), H3K27ac (8173, Cell Signaling Technology), H3K56ac (4243, Cell Signaling Technology), H4K5ac (ab51997, Abcam), H3K4me3 (9571, Cell Signaling Technology), H3K9me3 (13969, Cell Signaling Technology), H3K27me3 (9733, Cell Signaling Technology), H3K36me3 (4909, Cell Signaling Technology), H3 (4499, Cell Signaling Technology), ACTB (MAB1501, Millipore, clone C4), and GAPDH (sc-26778, Santa Cruz Biotechnology). Densitometry quantification was performed using ImageJ software. All antibodies were used at 1:1,000 dilutions except phos-4EBP1 (1:500), phos-S6K (1:500) and ACTB (1:2,500).
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2

Western Blot Analysis of Mitochondrial and Epigenetic Proteins

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Western blot was performed as described2 (link) using the following antibodies: TFAM (7495S, Cell Signaling Technology; sc-23588, Santa Cruz Technology), PHB2 (14085S, Cell Signaling Technology), ATP5A1 (sc-136178, Santa Cruz Technology), ATP5B (sc-16690, Santa Cruz Technology), ATP5D (ab97491, Abcam), ATP5O (ab110276, Abcam, clone 4C11C10D12), 4EBP1 (9644S, Cell Signaling Technology), phos-4EBP1 (Thr37/46) (2855S, Cell Signaling Technology), p70S6K (2708S, Cell Signaling Technology), phos-S6K (Ser235/236) (2211S, Cell Signaling Technology), GATA1 (ab47490, Abcam), GATA2 (ab22849, Abcam), TSC1 (6935, Cell Signaling Technology), TSC2 (4308, Cell Signaling Technology), H3K9ac (9649, Cell Signaling Technology), H3K27ac (8173, Cell Signaling Technology), H3K56ac (4243, Cell Signaling Technology), H4K5ac (ab51997, Abcam), H3K4me3 (9571, Cell Signaling Technology), H3K9me3 (13969, Cell Signaling Technology), H3K27me3 (9733, Cell Signaling Technology), H3K36me3 (4909, Cell Signaling Technology), H3 (4499, Cell Signaling Technology), ACTB (MAB1501, Millipore, clone C4), and GAPDH (sc-26778, Santa Cruz Biotechnology). Densitometry quantification was performed using ImageJ software. All antibodies were used at 1:1,000 dilutions except phos-4EBP1 (1:500), phos-S6K (1:500) and ACTB (1:2,500).
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3

Investigating Anti-inflammatory Mechanisms

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As-IV (purity: 98%) was provided by Jingzhu Biotechnology Co., Ltd. (Nanjing, China). LPS, BAY, adenosine triphosphate (ATP) and adenosine monophosphate (AMP) standards were provided by Sigma-Aldrich (St. Louis, MO, USA). ELISA kits for determination of free fatty acid (FFA), tumor necrosis factor alpha (TNF-α), interleukin-1β (IL-1β) and interleukin-6 (IL-6) levels were provided by R&D Systems (Minneapolis, MN, USA). TLR4, NF-κB, p65, PPARα, ATP5D and GAPDH antibodies were purchased from Abcam (Cambridge, MA, USA). All other reagents are analytically pure reagents.
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4

Cardiac Protection via Rg1 Mechanism

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Rg1 was obtained from Feng Shan Jian Medicine Research Co. Ltd. (Kunming, China). Evans blue and 2,3,5-triphenyltetrazolium chloride (TTC) were purchased from Sigma (St. Louis, MO, USA). ELISA kits for ATP, ADP, AMP, and cTnI were from Beijing Andihuatai Technology Co. Ltd. (Beijing, China). The enzyme activity assay kits of complex I, complex II, and ATP synthase, the primary antibodies against cTnI, ROCK1, phospho-RhoA, RhoA, phospho-MYPT1, human RhoA full-length protein, and ATP5D were obtained from Abcam (Cambridge, MA, USA). The primary antibodies against Bax, Bcl-2, cleaved-caspase-3, MYPT1, and GAPDH were obtained from Cell Signaling Technology (Beverly, MA, USA).
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5

Western Blot Analysis of Apoptosis Markers

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The mixture of whole protein and 5× electrophoresis sample buffer was subjected to electrophoresis on 10 or 12% SDS-PAGE. The separated proteins were transferred to a polyvinylidene difluoride membrane. Following blocking with 5% defatted milk powder, rinsing with TBS-Tween, the membrane was cut and incubated overnight at 4°C with antibodies against GAPDH (1:4,000, CST, VT, United States), Caspase 3 (1:1,000, CST, VT, United States), cleaved Caspase 3 (1:1,000, CST, VT, United States), Caspase 9 (1:1,000, CST, VT, United States), cleaved Caspase 9 (1:1,000, CST, VT, United States), Bcl2 (1:1,000, CST, VT, United States), Bax (1:2,000, CST, VT, United States), ATP 5D (1:1,000, Abcam, Cambridge, United Kingdom), RhoA (1:1,000, Abcam, Cambridge, United Kingdom), ROCK-1 (1:1,000, Abcam, Cambridge, United Kingdom), phosphorylated myosin light chain (P-MLC) (1:1,000, CST, VT, United States), Sirt-1 (1:800, CST, VT, United States), and NDUFA10 (1:2,000, Santa Cruz, CA, United States). After rinsing, the membrane was incubated with HRP-conjugated secondary antibody (1:5,000, Cell Signaling Technology, VT, United States) for 1 h at room temperature. The target protein was quantified by scanning densitometry with a bio-image analysis system (Image-Pro plus 6.0; Media Cybernetic, Bethesda, MD, United States).
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