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7 protocols using non essential amino acids (neaa)

1

Formulation and Evaluation of Lipid-based Nanocarriers

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1,2-Dioleoylphosphatidylcholine (DOPC), 1,2-dioleoylphosphatidylethanolamine (DOPE), and DOTAP chloride (USP grade) were obtained from Lipoid GmbH (Heidelberg, Germany). Sorbitan monostearate (SPAN) was obtained from Sigma-Aldrich (Merk, Buchs, Switzerland), and polysorbate 80 (PS80) and squalene (Sq) were obtained from Acros Organics, and coconut oil triacylglycerols (COTs) were obtained from commercial coconut oil.
DMEM, L-glutamine, sodium pyruvate, non-essential amino acids, penicillin, streptomycin, amphotericin B, MTT, trypsin solution in EDTA, Earle’s solution, glucose, and Versene’s solution were purchased from PanEco, Moscow, Russia. DMSO and Triton X-100 were purchased from Sigma-Aldrich, St. Louis, MO, USA.
Fetal bovine serum was purchased from PanEco, Moscow, Russia.
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2

Neuronal Cell Oxidative Stress Response

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Neuronal cells (20,000) were plated in each well of Matrigel-treated 24-well plates and were cultured in DMEM/F12 medium supplemented with 2% serum replacement (“Gibco”, Carlsbad, CA, USA), 1 mM non-essential amino acids (“Paneco”, Moscow, Russia), 2 mM L-glutamine (“ICN Biomedicals Inc.”, Hackensack, NJ, USA), penicillin–streptomycin (50 U/mL; 50 µg/mL) (“Paneco”, Moscow, Russia), 1% B27 supplement (“Life Technologies”, Carlsbad, CA, USA), 5 µM forskolin (“Stemgent”, Cambridge, Massachusetts, USA), 20 ng/mL BDNF, 20 ng/mL GDNF and 200 µM ascorbic acid (all from “Peprotech”, Cranbury, NJ, USA) in a CO2 incubator at 5% CO2 and 37 °C. On the day of the experiment, the growth medium was changed to DMEM/F12 medium supplemented with 2 mM L-glutamine (“ICN Biomedicals Inc.”, Hackensack, NJ, USA) and penicillin–streptomycin (50 U/mL; 50 µg/mL) (“Paneco”, Moscow, Russia). N-ADA or N-DDA (5 µM) were added to the cells at the same time point and the control cultures were treated with an equal volume of DMSO. Cells were then incubated for 40 min and treated with 200 µM H2O2; the same volume of growth medium was used for the control wells. At 3 and 24 h time points of incubation, the cells were collected for RNA extraction and preparation of cell lysates and the conditioned growth media were collected for ELISA.
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3

Quantification of Neuronal Cell Types

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Neuronal cells (20,000) were plated in each well of Matrigel-treated 24-well plates and were cultured in DMEM/F12 medium containing 2% serum replacement (“Gibco”, Carlsbad, CA, USA), 1 mM non-essential amino acids (“Paneco”, Moscow, Russia), 2 mM L-glutamine (“ICN Biomedicals Inc.”, Hackensack, NJ, USA), penicillin–streptomycin (50 U/mL; 50 µg/mL) (“Paneco”, Moscow, Russia), 1% B27 supplement (“Life Technologies”, Carlsbad, CA, USA), 5 µM forskolin (“Stemgent”, Cambridge, MA, USA), 20 ng/mL BDNF, 20 ng/mL GDNF and 200 µM ascorbic acid (all from “Peprotech”, Cranbury, NJ, USA) in a CO2 incubator at 5% CO2 and 37 °C. At day 15, the cultures were fixed with 4% neutral-buffered formaldehyde. Immunofluorescence staining was performed according to a previously described method [25 (link)] using β-III-tubulin and tyrosine hydroxylase (TH) antibodies as pan-neuronal and DA neuron-specific markers, respectively. Cells were investigated with an AxioImager Z1 fluorescence microscope equipped with an AxioCam HRM camera using AxioVision 4.8 software (Zeiss, Oberhohen, Germany). The whole surface of each well was imaged for cell counting and the obtained images were analyzed with ImageJ 1.49 software (“NCBI”, Bethesda, MD, USA) using an ITCN plugin (Center for Bio-image Informatics, Santa Barbara, CA, USA).
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4

Differentiation of iPSCs into Embryoid Bodies

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IPSC colonies were detached using dispase (Gibco, Waltham, MA, USA). In order to do that, the culture medium was removed, cells were rinsed using DMEM medium with 1 mL of added dipase (1 mg/mL) per 35 mm dish, incubated at 37 °C for 7–10 min. Then dispase solution was removed and dish was rinsed 5 times with 1 mL of DMEM medium. After that 1 mL of the mTeSr culutre medium was added.
Colonies were scraped off using 200 μL plastic tip. After scraping off they were carefully dissociated in 400–600 cell fragments and transferred into 24-well Ultra low adhesion plates (Costar, Moscow, Russia, Ultra-Low Attachment Surface). Next day, when IPSC have formed embryoid bodies (EB) half of the volume of medium were replaced with EB cultivation medium (DMEM/F12 (Gibco, Waltham, MA, USA), 20% FBS (Hyclone, Logan, UT, USA), 2 mM L-glutamin (ICN Biomedicals, Costa Mesa, CA, USA), 0.1 mM β-mercaptoethanol (SIGMA, Saint Louis, MO, USA), 1% mix of non-essential amino acids (PanEco, Moscow, Russia), penicillin-streptomycin (PanEco, Moscow, Russia) (50 μL/mL). This partial replacement was conducted daily, until the cultural medium was completely replaced with EB cultivation medium. After that medium was replaced bi-daily.
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5

Tumor Cell Cultures for Experimental Research

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For the experiments, we used tumor cell cultures: M-HeLa clone 11 (epithelioid carcinoma of the cervix, subline HeLa., clone M-HeLa); T 98G—human glioblastoma; PANC-1, human pancreatic carcinoma; HuTu 80, human duodenal adenocarcinoma; MCF7—human breast adenocarcinoma (pleural fluid); A549, human lung carcinoma; WI38, VA 13 subline 2RA, human embryonic lung from the collection of the Institute of Cytology, Russian Academy of Sciences (St. Petersburg); PC3—prostate adenocarcinoma cell line from ATCC (American Type Cell Collection, USA; CRL 1435; human liver cells (Chang liver) from the collection and the Research Institute of Virology of the Russian Academy of Medical Sciences (Moscow). The cells were cultured in a standard Eagle’s nutrient medium manufactured at the Chumakov Institute of Poliomyelitis and Virus Encephalitis (PanEco company, Moscow, Russia), and supplemented with 10% fetal calf serum (Biosera, France) and 1% nonessential amino acids (PanEco company, Russia).
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6

Dermal Fibroblast Isolation and Cryopreservation

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Dermal fibroblasts were obtained from a patient’s skin biopsy sample (~1.5 mm2). The skin was dissected into small pieces and incubated in culture medium containing DMEM (Gibco, Waltham, MA, USA) with 10% fetal bovine serum (FBS) (HyClone, Marlborough, MA, USA), 0.1 µM non-essential amino acids (Paneco, Moscow, Russia), 1% Glutamax (Gibco), and 1% penicillin/streptomycin (Gibco) in a 6-well plate coated with glass coverslips, at 37 °C and 5% CO2. When cells started to sprout from the explants, the culture medium was changed every 3 days. After about 2 weeks, a confluent fibroblast monolayer was observed. Confluent cultures were passaged using 0.25% trypsin (Gibco). Fibroblasts were cryopreserved in DMEM with 20% FBS and 10% DMSO (Sigma, St. Louis, MO, USA) at −150 °C. The absence of mycoplasma contamination was confirmed by PCR analysis using a MycoReport Kit (Evrogen, Moscow, Russia).
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7

Trilineage Differentiation of iPSCs

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The iPSCs were differentiated through embryoid body (EB) formation. Cells grown to 90% confluency were treated with Gentle Cell Dissociation Reagent (Gibco) and plated in an ultra-low-attachment 24-well plate (Corning) in Essential 8 medium (Gibco) with 10 µM ROCK inhibitor. After 24 h of incubation at 37 °C in 5% CO2, the cells formed EBs, which were gently collected with a 2 mL serological pipette and plated in an untreated 6-well culture plate (Eppendorf, Enfield, CT, USA) in DMEM/F12 (Gibco) supplemented with 20% KnockOut Serum Replacement (Gibco), 1% Glutamax, 0.1 µM non-essential amino acids, and 0.1 µM β-mercaptoethanol (Sigma). To induce spontaneous trilineage differentiation, the medium was gradually substituted with DMEM with 10% FBS, 1% Glutamax, and 0.1 µM non-essential amino acids (Paneco) during the first week of cultivation. This medium was then changed every 3 days for the next two weeks. On Day 21, the differentiated cells were analyzed by immunostaining using antibodies against markers for the endoderm, mesoderm, and ectoderm. The antibodies and final dilutions are shown in Table S3.
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