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4 protocols using stavudine

1

Evaluating Mitochondrial Toxicity in Cell Lines

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Cells were plated in a 6-multiwell plate (MW-6; Corning Incorporated, Kennebunk, ME, USA) (8x104 cells per well) and cultured in the appropriate medium for each type, following the same procedure (Fig 1). Cells were maintained for 24 hours in the appropriate culture medium before the medium was supplemented with each tested condition: 3,8-Diamino-5-ethyl-6-phenylphenanthridinium bromide (Ethidium bromide, EtBr) (Sigma-Aldrich), Rhodamine 6g (Rd6g) (Invitrogen, Waltham, MA, USA), 1-methyl-4-phenylpyridinium (MPP+), Zidovudine (AZT, 3´-azido-3´-deoxythymidine) or Stavudine (d4t; 2'-3'-didehydro-2'-3'-dideoxythymidine) (Sigma-Aldrich) (Table 1). Culture media were always supplemented with uridine (50 mg/ml). Drug stocks were prepared following the manufacturers' instructions and replenished at each medium change. The stocks were stored at -20°C between doses and new stocks were prepared before each experiment.
In all the experiments, cells with no treatment were used as controls to determine the baseline levels of mtDNA for each cell type. Cells cultured with EtBr were used as positive controls to assess the capacity of the different cell lines to survive with very low levels of mtDNA. 143B.TK-Rho-0 cells were used as a reference for the mtDNA content characteristic of a standard Rho-0 line.
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2

Parental Fly Drug Exposure Impact

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Parental fly crosses were settled on standard cornmeal added of the below-listed drugs with the reported final concentration: stavudine 10 μM, azidotimidine 10 μM, tenofovir 10 μM, abacavir (#SML0089 Sigma) 10 μM, rilpivirine (#10410 Sigma) 10 μM, enoxacin (#AB143281 Abcam) 10 μM, and lamivudine (#L1295 Sigma) 10 μM. For each drug, a vehicle-only control group was arranged. Parental flies have been maintained 24 h in the tubes to allow the embryo laying. Synchronized embryos were grown to obtain third instar larvae to be tested for mobility or to be analyzed for NMJ morphology.
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3

Phosphate-buffered SDS Preparation

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Sodium phosphate monobasic (NaH2PO4, ≥98%),
sodium phosphate dibasic dihydrate (Na2HPO4,
≥99.0%), sodium dodecyl sulfate (SDS, ≥98.5%), potassium phosphate
monobasic (KH2PO4, ≥99.0%), thymidine
(≥99%), 2′,3′-didehydro-3′-deoxythymidine
(stavudine, ≥98%), and nosyl chloride (97%) were purchased from
Sigma–Aldrich (Milwaukee, WI, USA). Zidovudine impurity B
(chlorothymidine, CLT, European Pharmacopoeia reference standard) was purchased
from LGC Standards (Wesel, Germany). 30mM phosphate buffer (PB) was prepared via
titration of 100 mM solutions of NaH2PO4 and
Na2HPO4 and monitored with a calibrated pH meter
(FiveEasy, Mettler Toledo, Columbus, OH, USA). SDS (100 mM) in 30 mM phosphate
buffer was prepared by dissolving SDS in 30 mM PB. Separation buffers were
prepared with, and reference standards were dissolved in, 18 MΩ-cm
deionized (DI) water obtained from a Milli-Q® Integral Water Purification
system (EMD Millipore, Billerica, MA, USA). All chemicals were of analytical
grade and were used as received.
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4

Pluripotent Stem Cell Differentiation to Neurons

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Pluripotent stem cell medium (MT): mTeSR1 (Stem Cell Technologies).
Differentiation medium for embryoid Bodies (N2): Dulbecco’s Modified
Eagle’s Medium/Ham’s F12 (DMEM/F12 50/50; Corning Cellgro)
with 1× HEPES, 1× penicillin-streptomycin, Glutamax (Life
Technologies), and N2 NeuroPlex (Gemini Bio-products), supplemented with
1μM dorsomorphin (Tocris) and 10μM Stemolecule SB431542
(StemGent). Neural progenitor cell medium (NGF): DMEM/F12 50/50 with
1× HEPES, 1× penicillin-streptomycin, Glutamax (Life
Technologies), N2 NeuroPlex (Gemini Bio-products), Gem21 NeuroPlex (Gemini
Bio-products), supplemented with 20ng/mL basic fibroblast growth factor
(bFGF; Life Technologies). Neuronal medium (NG): DMEM/F12 50/50 with 1x
HEPES, 1x penicillin-streptomycin, Glutamax (Life Technologies), N2
NeuroPlex (Gemini Bio-products), Gem21 NeuroPlex (Gemini Bio-products);
cAMP, GDNF, and BDNF were added to the neuronal medium for purified neurons.
Astrocytes were cultured in Astrocyte Growth Medium (Lonza). For treatment
with reverse-transcriptase inhibitors 1μM Stavudine (D4T),
10μM Lamivudine (3TC) (Sigma-Aldrich), and 400nM Nevirapine (NVP)
were used. Astrocyte-conditioned media were generated by overlaying
Neurobasal with B27 and 5% FBS over astrocytes for 48 hours.
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