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7 protocols using 2 meoe2

1

Comprehensive Autophagy and Signaling Pathway Analysis

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The antibodies used in our experiments were: LC3 (CST, #2775), IL-33 (R & D, AF3626 and AF4810), ST2 (Thermofisher, PA5-20077), p-STAT3 (CST, #9145), STAT3 (CST, #9139), p-AMPK (CST, #2535), AMPK (CST, #2532), p-ULK1 (Thermofisher, PA5-105129), ULK1 (Abclonal, A8529), p62 (Abclonal, A1970), GKN-1 (Proteintech, 19344-1-AP), GKN-2 (Abcam, ab188866), GKN-3 (Cloud-clone, PAK528Mu01), Tubulin (Proteintech, 66031-1-Ig).
The chemicals used in our experiments were: Bafilomycin A1 (Selleck, S1413), 3-MA (Selleck, S2767), Rapamycin (Selleck, S1039), MNNG (Selleck, E0157), NAC (Selleck, S1623), Cycloheximide (Selleck, S7418), DAPI (Beyotime, C1002), Recombinant Human IL-33 (R & D, 3625-IL), Pifithrin-α HBr (Selleck, E0157), 2-MeOE2 (Selleck, S1233), ML385 (Selleck, S8790), SR11302 (MCE, HY-15870), BAY 11 (Selleck, S2913), GW9662 (Selleck, S2915), IQ3 (Selleck, S0781), STAT3-IN-7 (Selleck, S0986), FH535 (Selleck, S7484).
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2

HIF-1α Inhibition in Hypoxia

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To inhibit the expression of HIF-1α, the specific inhibitor of HIF-1α (2-MeOE2), which was purchased from Selleck Chemicals LLC, was added into the induced culture medium for 24 h in hypoxic conditions, as described previously [35 (link)]. A concentration gradient test was performed to determine the minimum effective concentration (MEC) of the inhibitor. The 2-methoxyestradiol was used at concentration of 0, 5, 10, and 15 µM, respectively. ADSCs were then treated with 2-methoxyestradiol at MEC in both normoxia and hypoxia samples.
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3

Optimizing Kidney Organoid Response

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To determine optimal concentration of each compound, PKHD1-mutant organoids were treated with the following concentration from day 16 to day 35 of differentiation: T-5224 (Thermo Fisher Scientific, 50-115-1835) at 5, 10, and 20 μM; Z-DEVD-FMK at 1, 10, and 50 μM (R&D Systems, FMK004); quercetagetin at 10, 40, and 200 μM (Millipore Sigma, 551590); NSC23766 at 25, 50, and 100 μM (Abcam, ab142161); rhCXCL16 at 5, 10, and 25 ng/ml (R&D Systems, 976-CX-025); 2-MeOE2 at 1, 5, and 10 μM (Selleckchem, S1233); R-naproxen at 10, 20, 200, and 400 μM (Millipore Sigma, 82170); and R-ketorolac at 0.5, 1, 10, and 20 μM (Millipore Sigma, 1654) (45 (link), 46 (link), 73 (link)–77 (link)). Full medium exchanges were conducted every 2 to 3 days. Treatment of the kidney organoids-on-a-chip was started at day 16 of their differentiation until day 35. The compounds were added to the medium reservoir at every medium change in the following concentrations: T-5224 at 10 μM, Z-DEVD-FMK at 1 μM, quercetagetin at 10 μM, NSC23766 at 10 μM, rhCXCL16 at 1 ng/ml, 2-MeOE2 at 5 μM, R-naproxen at 20 μM, S-naproxen at 20 μM, and R-ketorolac at 1 and 10 μM.
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4

Comprehensive Apoptosis and Autophagy Assay

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Anti-PARP-1 (ab74290), Anti-Cleaved-PARP-1 (ab32064), Anti-Caspase 3 (ab13847), Anti-Cleaved-Caspase 3 (ab2302), Anti-β-actin, Anti-Caspase 6 (ab185645), Anti-Caspase 7 (ab255818), Anti-SNRK (ab96762), Anti-P62 (ab109012), Anti-LC3 (ab192890), Anti-Trib3 (ab73547), Anti-PPARα (ab215270), Anti-p-p65 (ab76302), Anti-p65 (ab16502), Anti-UCP3 (ab193470), Anti-IgG (ab133470), Anti-His (ab18184) are purchased from Abcam (Britain). TRIzol reagent was acquired from Invitrogen (USA); an SYBR RT-PCR Kit and DNA PCR kit were from Takara Bio Inc. (Japan); RNase R was from Epicenter (USA). RNA-Binding Protein Immunoprecipitation Kit was purchased from Millipore (USA). T7 RNA polymerase and RNase-free DNase I were bought from Promega (USA).
Primers, mimic, and siRNAs were designed and synthesized by Sangon Biotech (China). Rho123, Caspase 3 activity Kit, CCK-8 Kit and ATP Assay Kit were purchased from Beyotime (China). A Dual-luciferase reporter assay system was purchased from Promega (USA). Z-vad, JSH-23, SP600125, 2-MeOE2 were purchased from Selleck (USA).
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5

Evaluating NSCLC Cell Lines

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Human NSCLC cells A549 and human normal lung epithelial cells BEAS-2B were provided by the Tongji Hospital, Affiliated with Tongji Medical College of Huazhong University of science and technology. We purchased human NSCLC cells H1944 (cat#CL-0632) from Procell. A Mycoplasma contamination test was carried out, which was negative. A549 cells were routinely cultured in F12 medium (Procell, cat#PM150312), BEAS-2B cells were routinely cultured in DMEM with high glucose (Gibco, cat#11965092), and the H1944 cells were routinely cultured in RPMI-1640 medium (Procell, cat#PM150110). All the media were supplemented with 1% penicillin and streptomycin solution (Beyotime, cat#ST488) and 10% fetal bovine serum (Gibco, cat#A3160902). The cells were incubated at 37 °C under 5% CO2. Nutlin-3 (Glpbio, cat#GC16051) and Simvastatin (SIM, Selleck, cat#S1792) powder were dissolved in DMSO to prepare a stock solution. The working solution was diluted to 10 μM in the medium. DL-Mevalonolactone (DL-MVA) (Molnova, cat#M15570) and Methoxyestradiol (2-MeOE2, Selleck, cat#S1233) solutions were dissolved in a medium and respectively diluted to 100 μM and 10 μM.
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6

Hypoxia effects on islet function

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Male C57BL/6 mice were used at 8–12 weeks of age for all experiments. The isolation and purification of mouse islets were performed by collagenase P and Ficoll as we previously described17 (link)
. Eighty to 100 mouse islets were used per experimental well. For co-culture experiment, 1 × 105 hUC-MSCs were seeded into the lower chamber of a 24-well transwell plate (CorningBioCoat, Corning, NY, USA) containing co-culture medium. After hUC-MSCs became attached, the medium was changed immediately and the freshly isolated islets were placed into the upper chamber (indirect contact co-culture). To test the direct contact co-culture, islets were seeded into wells having hUC-MSCs without transwell. Before the hypoxia operation, the specific inhibitor 2-methoxyestradiol18 (link)
(2-MeOE2 or 2ME2, 100 μM, S1233, Selleck, Shanghai, China) and the activator dimethyloxalylglycine19
(DMOG, 100 μM, S7483, Selleck, Shanghai, China) were, respectively, added to the different conditions of islets culture medium to suppress or activate HIF-1α. At the same time, in the presence of hUC-MSCs and without hUC-MSCs, the islets of different groups were placed in normoxia (20% O2, 37°C, 5% CO2) and hypoxia (1% O2, 37°C, 5% CO2) co-cultured for 48 h. The following functional-related parameters were evaluated.
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7

M-Chip Microfluidic Device Fabrication

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Silicon wafers (4-inch) were purchased from Corning Inc. (Corning, NY). SPR-220, SU-8 2015 photoresist, and SU-8 developer were purchased from MicroChem Corp. (Newton, MA). MF-CD26 was obtained from Rohm and Haas Electronic Materials (Marlborough, MA). Polydimethylsiloxane (PDMS RTV615) was obtained from Momentive Performance Materials (Waterford, NY). Ham’s F12 medium and fetal bovine serum (FBS) was obtained from Invitrogen (Grand Island, NY). Basement Membrane Extract (BME) was obtained from Trevigen (Gaithersburg, MD). Phosphate-buffered saline (PBS; 0.1 M, pH 7.4) was obtained from Lonza Inc. (Allendale, NJ). All M-Chip devices were designed as computer graphics using AutoCAD software and then printed out as 10-μm–resolution chrome masks by Photo Science Inc. (Torrance, CA). The SUM-159 cell line was obtained from Asterand (Detroit, MI). Linifanib and 2-MeOE2 were obtained from Selleckchem (Houston, TX). Drug 227013 was obtained from EMD Millipore (Darmstadt, Germany).
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