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60 protocols using r2625

1

Spermatogonial Culture Protocol

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Single-cell testis suspensions were suspended in 10% charcoal-stripped FBS (A3382101, Thermo Fisher)+1% penicillin-streptomycin (Thermo Fisher, #15070063)+DMEM/F12 (10565018, Thermo Fisher)+1 µM RA (R2625, Sigma-Aldrich) and cultured on glass bottom 96-well plates (P96-1.5H-N, Cellvis) with 175,000 cells per well. Media included combinations of the following: 1 µM RA (R2625, Sigma-Aldrich), 15 ng/ml rat GDNF (450-51, Peprotech) and 10 ng/ml human FGF2 (100-18B, Peprotech). Suspensions were cultured at 34°C with 5% CO2 and media were changed daily. After culture, cells were fixed with 4% paraformaldehyde in 1× PBS.
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2

Immortalized Pancreas Stellate Cell Protocol

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Healthy human, telomerase reverse transcriptase (hTERT) immortalized, pancreas-derived stellate cells (PS1) (37 (link)) and human primary CAFs (12 (link)) were grown as previously described. PS1s and CAFs were rendered quiescent by daily treatment with 1 µM all-trans retinoic acid (ATRA; R2625, Sigma-Aldrich) under subdued light conditions daily for 7 days or with contemporary vehicle (ethanol 0.01% v/v) controls (6 (link), 7 (link)). Two pancreatic cancer cell lines, AsPC-1 (CRL-1682, ATCC) and MIAPaCa-2 (CRL-1420, ATCC), based on their representation of PDAC diversity were employed (38 (link)). All cell lines were STR profiled and tested negative for mycoplasma.
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3

Retinoic Acid Exposure in Neonatal Mice

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Neonatal mice (2 dpp) were pipette fed 100 mg/kg body weight WIN 18446 suspended in 1% gum tragacanth for 7 consecutive days.30 At 9 dpp (day 8 of treatment), testes from some of the treated animals were collected as the time zero samples (WIN‐only) and the rest were administered an intraperitoneal (IP) injection of all‐trans‐retinoic acid (R2625, Sigma‐Aldrich) at a dose of 200 mg/kg suspended in 10 μL dimethyl sulfoxide.30All‐trans‐retinoic acid injected animals were left to recover for various intervals between 4 hr to 8 days following the atRA injection, at which point the testes were removed and processed as described for IHC, immunofluorescence, or whole‐mount analyses.
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4

Neurogenic Potential of Mesenchymal Spheres

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Spheres obtained under DMEM/F12-GF conditions were examined for their neurogenic potential by culturing single cells in neural differentiation media. Briefly, single cells were seeded at 3.5 x104 cells/cm2 in a 24-well plate on coated coverslips with poly-L-lysine (10 µg/ml) solution. Our protocol for elevating intracellular cAMP was modified from Deng, et al.8 (link). In addition to the primary culture conditions to generate mesenchymal neurospheres, single cells were differentiated in serum-free DMEM/F12 plus N2, α-trans retinoic acid (1 µM), R-2625, SIGMA), and forskolin (5 µM, F6886, SIGMA) by 7 days after plating (DMEM/F12-RA+FORSK). Forskolin, a phosphodiesterase inhibitor, increases cAMP levels and retinoic acid induces neural differentiation. The DMEM-GF medium was changed on day 4 with a freshly prepared medium. On day 7, the cell culture medium was removed and cells fixed with p-formaldehyde 4% in PB 0,1 M for 15 min. Once fixed, plates were maintained in PBS solution at 4 °C until immunostaining was performed.
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5

Cell-to-Cell Transmission of α-Synuclein

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Cell lines stably expressing each half of the split Venus fluorescent system (V1S and SV2) for testing cell-to-cell transmission of α-synuclein were generated as described previously [18 (link)]. V1S and SV2 cells were subcultured in high-glucose Dulbecco’s modified Eagle medium (DMEM; SH30243.01, Hyclone) supplemented with 10% fetal bovine serum (FBS; SH30919.03, Hyclone) and 100 units ml−1 penicillin/streptomycin (GIB-15070-063, Gibco), additionally containing 200 μg ml−1 G418 (11811-031, Invitrogen). Cultures were maintained at 37 °C in a humidified 5% CO2 atmosphere, and the culture medium was replaced every 2 days.
Human neuroblastoma SH-SY5Y cells (CRL-2266, ATCC) were cultured and maintained at 37 °C in a humidified 5% CO2 atmosphere with media exchange every 2 days. Cells were differentiated by culturing in growth medium (DMEM + 10% FBS + 100 units ml−1 penicillin/streptomycin) containing 50 μM retinoic acid (R2625, Sigma Aldrich).
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6

Retinoic Acid and SB-431542 Modulation

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A 50 mM stock of all-trans RA (R2625, Sigma-Aldrich) dissolved in dimethyl sulfoxide (DMSO) was stored at −20°C until further use. For the experiments, the
all-trans RA stock was diluted in IVM medium to 0, 10, 20, and 40 µM. The solvent with DMSO at a final concentration of < 0.02% was used as the vehicle control.
SB-431542 at 20 µM [34 (link)] was supplemented either individually or combined with RA as explained in the experimental design.
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7

Regulation of Cell Differentiation

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After a 36 h si-RNA transfection, cells were cultures in a serum-free medium for 12 h followed by culturing with mediums containing Rol (17772, 5 μg/L, Sigma-Aldrich, St. Louis, MO), atRA (R2625, 5 μmol/L, Sigma-Aldrich, St. Louis, MO), atRA and AGN193109 (SML2034, 1 μmol/L, Sigma-Aldrich, St. Louis, MO) mixture, or equivalent amounts of DMSO (Sigma -Aldrich, St. Louis, MO), respectively. Then, cells were fixed in 4% paraformaldehyde or collected for subsequent analysis 24 h later.
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8

Quantifying Neurite Outgrowth with ATRA

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Cells were plated in normal media at optimized densities for each parental line in 96-well plates and allowed 24–48 h to firmly attach to plates. Media was then switched for low-serum media containing either 1% or 3% FBS and allowed 24 h to equilibrate, after which it was replaced with low-serum media supplemented with varying concentrations of ATRA (all-trans-retinoic-acid, Sigma-Aldrich R2625) or vehicle (DMSO) alone, in volume corresponding to the highest concentration of ATRA for each experiment. Plates were then left in normal growth conditions and protected from light. RA media was refreshed every 72 h to prevent oxidation. Plates were placed in an IncuCyte ZOOM instrument to use live cell imaging. Each well was imaged every 4 h, and the Incucyte Neurotrack software module was used to quantify neurite outgrowth.
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9

Retinoic Acid-Induced Neural Tube Defects

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The Ethics Committee of the Third Affiliated Hospital of Guangzhou Medical University approved this study (2022-041, date of approval: 1 June 2022). Equal numbers of male and female Kunming mice (9–10 weeks) (Caven Biogle (Suzhou) Model Animal Research Co. Ltd., Suzhou, China) were mated overnight. The vaginal plug was examined the following day, and 25 pregnant mice were used for subsequent experiments. The day (08:00) a vaginal plug was observed was regarded as the embryonic day 0 (E0d), and 16:00 was considered E0.5d. NTD models were established as described previously (Yu et al., 2017 (link)). On E7.0d–7.25d, the mice in the NTD group (N = 18) were administered corn oil-dissolved retinoic acid (50 mg/kg of body weight) (R2625; Sigma, St. Louis, MO, USA) by one-time gavage. Mice in the control group (N = 7) were administered an equal amount of corn oil. On E16.5d, the mice were sacrificed by cervical dislocation, and embryos were taken from the uteri. NTDs were confirmed using a dissecting microscope. Brain tissues (anterior end of the neural tube) of NTD and control embryos were collected and frozen for storage.
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10

Organoid Assay Protocol for Cell Culture

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The organoid assay was established as described previously (Ng-Blichfeldt et al., 2018 (link); Ng-Blichfeldt et al., 2019 (link); Wu et al., 2019a (link)). EpCAM+ cells were combined with fibroblasts at a 1:1 ratio in DMEM/F12 (10% FBS) at a density of 2 * 105 cells/ml. The cell suspension was then diluted 1:1 (v/v) with Matrigel (Fisher Scientific, Landsmeer, The Netherlands) and were seeded into transwell inserts (Thermo Fischer Scientific, Waltham, United States #10421761) witin 24-well plates (100 µl/insert). Cultures were maintained in DMEM/F12 with 5% (v/v) FBS, 2 mM glutamine, antibiotics, insulin-transferrin-selenium (1x, Gibco #15290018), recombinant mouse EGF (0.025 μg/ml, Sigma #SRP3196), bovine pituitary extract (30 μg/ml, Sigma #P1476), and freshly added all-trans retinoic acid (0.01μM, Sigma #R2625) at 37°C with 5% CO2. Media was refreshed every 2–3 days. The total number of organoids per well was counted manually 14 days after seeding using a light microscope at ×20 magnification. Organoid diameter was measured at the same day using a light microscope connected to NIS-Elements software. Thereafter, organoid cultures were fixed for immunofluorescence.
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