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9 protocols using dynasore

1

Lipid Modulator Effects on Cellular Processes

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The compounds used in this study were as follows: pilipin III (C35H58O11 ≥ 85%), Cytochalasin H (C30H39NO5 ≥ 95%), Coelenterazine-h (C26H21N3O2 ≥ 95%), dynasore (C18H14N2O4 ≥ 95%), GW4869 (hydrochloride hydrate, ≥95%), YM-201636 (C25H21N7O3 ≥ 95%), obtained from Cayman Chemical Company (Ann Arbor, Michigan, USA). Thapsigargin (C34H50O12, ≥95%) and sulfatase (EC: 232-772-1) were purchased from Sigma Aldrich (St. Louis, MO, USA). Sulfatides (C42H80NNaO11S, bovine source, ≥98%) were purchased from Matreya LLC (State College,PA, USA). Cytochalasin H, pilipin III, Coelenterazine-h, and dynasore were added 1 h before addition of conditioned PBS and remain present in the medium. Sulfatide was added together with conditioned PBS and kept in the medium. Cytochalasin H, pilipin III, Coelenterazine-h, and dynasore were added 1 h before addition of conditioned PBS and kept in the medium. Sulfatide were added together with conditioned PBS and kept in the medium.
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2

Dilution and Storage of Inhibitors

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Wortmannin (Selleck, Houston, TX, USA) was diluted upon receipt to 40mM stock concentration in DMSO, Dynasore (Cayman Chemical, Ann Arbor, MI, USA) and EHop-016 (Cayman) were diluted to 25mM stock concentration in DMSO, and Ryngo 1–23 (Abcam, Cambridge, MA, USA) was diluted to 20mM stock concentration in DMSO. All inhibitors were dispensed into single use aliquots and stored at −20°C for no longer than 1 year after receipt. Wortmannin was diluted to a working concentration of 40nM (1:10000), Dynasore was diluted to a working concentration of 25 μM (1:1000), EHop-016 was diluted to a working concentration of 10μM (1:2500), and Ryngo 1–23 was diluted to a working concentration of 40μM (1:500), each using supplemented DMEM as diluent.
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3

Endocytosis Inhibitors for Cell Treatment

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Pitstop II (Sigma; SML1169), methyl β cyclodextrin (Cayman; 21,633), chlorpromazine (Cayman; 16,129), dynasore (Cayman, 14,062) and cytochalasin D (Cayman; 11,330) were used as endocytosis inhibitors.
Derivatives dissolved in anhydride DMSO as a 1000-fold concentrated stock. The dissolved compounds are immediately used for the treatment of cells.
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4

Regulation of Autophagy by Cholesterol Metabolism

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Chloroquine was purchased from Wako Pure Chemical Industries (Osaka, Japan). 3-MA, rapamycin, and dynasore were purchased from Cayman Chemical (Ann Arbor, MI). A polyclonal anti-p62 antibody was purchased from Cell Signaling Technology, Inc. (Beverly, MA), a polyclonal anti-β-actin antibody was from Sigma (St. Louis, MO), and a polyclonal anti-LAMP2 antibody was from Bioss Antibodies (Woburn, MA). An inhibitor of cathepsin B (CA-074) was purchased from Peptide Institute, Inc. (Osaka, Japan). Nystatin and cytochalasin D were purchased from Sigma. A monoclonal anti-apoA-I antibody (Wt20-7) was produced as previously described14 (link). pEGFP-N1-TFEB was a gift from Shawn Ferguson (Addgene plasmid #38119)59 (link).
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5

Exosome Characterization Using Antibodies

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Various antibodies were purchased from the following suppliers: HIV-1 Tat (#ab43014) from Abcam, Cambridge, MA, USA; against phospho-DRP1 (#3455), Alix (#2171), GRP94 (#2104), and p-eNOS (#9571) from Cell Signaling Technology, Danvers MA, USA; against CD81 (#sc-23962), CD63 (#sc-5275), and TSG101 (#sc-7964) from Santa Cruz Biotechnology, Dallas, TX, USA; β-actin (#A5441) from Sigma-Aldrich; total DRP-1 (#611112), total eNOS (#610296) from BD Transduction Laboratory, San Jose, CA, USA. Vybrant DiD cell-labeling dye for exosome staining was purchased from Molecular Probes (Eugene, OR, USA). Dihydroethidium (DHE) (Thermo Fisher Scientific, Waltham, MA, USA) was used to detect cytosolic superoxide and MitoSOX Red (Molecular Probes) for the detection of mitochondrial superoxide. To label mitochondria, MitoTracker Red and MitoTracker Green were used (Molecular Probes). Phorbol 12-myristate 13-acetate (PMA), PX866, Dynasore, and Cytochalasin D were from Cayman Chemical (Ann Arbor, MI), Ionomycin was from Sigma-Aldrich, and recombinant human IL-2 (rIL-2) was from Miltenyi Biotec (Auburn, CA, USA). GW4896 was from Selleckchem (Houston, TX).
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6

Labeling and Endocytosis Inhibition

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FITC-labeled-CTB, and -dextran (MW 70-kDa) were purchased from Sigma and used at final concentrations 10 μg/ml and 3 mg/ml, respectively. Inhibitors of endocytotic pathways, genistein (Wako, Japan), dynasore (Cayman Chemical, MI, US), and latrunculin (Wako), were used at final concentrations, 200, 50, and 2.5 μM, respectively.
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7

Inhibitor Study on SiNW-HUVEC Interactions

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For inhibitor studies, SiNWs grown from 100-nm seed Au NPs were sonicated (7 min) into M200 medium with growth supplement (Life Technologies) and then allowed to settle overnight. After settling, HUVECs were introduced at ~15% initial confluence, and drugs were administered after 8 hours of incubation. All drugs were obtained from Sigma-Aldrich and were administered at the following concentrations (dissolved in dimethyl sulfoxide): chlorpromazine, 2.5 μg/ml; nystatin, 50 ng/ml; dynasore, 80 μM; Cyto D, 5 ng/ml; A5, 4 and 16 nM; Lova, 10 μM (NC9907790, Cayman Chemical). Throughout this process, the SiNW-cell overlap was monitored by taking alternating DF and PC micrographs every ~2 hours at random substrate locations (selected before viewing to avoid sampling bias).
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8

Intracellular Trafficking of IAPP and Aβ

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Synthetic mouse (pro)IAPP peptides were the same as described above. Synthetic human Aβ1-40 peptides were purchased from Bachem, Germany (#4095737). SH-SY5Y parental cells and SH-SY5Y cells stably overexpressing SORLA were seeded onto uncoated glass coverslips one day prior to the peptide uptake assay. Cells were incubated in serum-free medium for 30 min prior to treatment with 20 μM (pro)IAPP for 30 min. Simultaneous treatment with 100 μM dynasore (Cayman Chemical, USA) was used to examine the role of clathrin-mediated endocytosis. Cells were fixed in 4% (wt/vol) paraformaldehyde and immunofluorescence staining was performed to visualize internalized peptides, SORLA, and subcellular organelles. Lysosomes were labeled by preincubating cells with 500 nM LysoTracker Deep Red (Thermo Fisher Scientific, USA) in normal growth media for 1 h prior to the uptake assay.
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9

Evaluating EV-Induced Angiogenic Potential

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GFP-HUVECs were seeded at 200,000 cells per well in a 6-well plate and grown for 48 h. Large EVs (100 µg) isolated from UM cells were labeled with the VybrantTM DiI Cell-Labeling Solution (Invitrogen) for 30 min at 37 °C in the dark. DiI-labeled EVs were purified with PD SpinTrap G-25 columns (Cytiva) following the manufacturer’ protocol. As controls, GFP-HUVECs were pretreated for 24 h with 80 µM Dynasore (Cayman Chemical), or EVs were pretreated for 30 min with 100 µg/mL proteinase K (Invitrogen). At 24 h, large EVs were added to the 6-well plate to be internalized by GFP-HUVECs during 24 h. At 48 h, Matrigel® layers were deposited into wells of concavity slides (Electron Microscopy Sciences) and incubated for 1 h at 37 °C. GFP-HUVECs (30,000 cells per well in 100 µL) were added onto the Matrigel® layers and incubated at 37 °C in culture medium with or without angiogenic supplements to perform the endothelial tube formation assay [59 (link)]. Phase contrast images were taken at 2 h, 4 h, 6 h, and 12 h, whereas representative fluorescence images were taken at 6 h. Then, samples were fixed with 4% paraformaldehyde in PBS for 10 min and stained with DAPI (dilution 1:5000; Invitrogen). The characteristics of the pseudo vascular organization of GFP-HUVECs were analyzed using the Angiogenesis Analyzer for ImageJ.
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