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41 protocols using rapamycin

1

Peptide and Rapamycin Treatment Protocol

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Cp40 (yI[CVW(Me)QDWSarAHRC]mI‐NH2) and a scrambled peptides (yI[CSarVDWAHW(Me)QRC]mI‐NH2), synthesized as described,37 of 6 μM final concentration were used for a 7‐day treatment, with peptide‐containing media change after 3.5 days. Rapamycin (InvivoGen) of 500 nM final concentration was used for a 7‐day treatment, with daily media change containing Rapamycin.
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2

Inducing Mitochondrial Stress and Autophagy

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iHF and MEF were cultivated at 37 °C and 5% CO2 in DMEM—with (iHF) or without (MEF) GlutaMAX—and supplemented with 10% FBS and 100 U/mL of penicillin/streptomycin (both, Life Technologies, Carlsbad, CA, USA). Mitochondrial stress was induced by cultivating cells in growth medium containing 50 µM of carbonyl cyanide m-chlorophenyl hydrazone (CCCP, Biomol, Hamburg, Germany) for 6 h. Autophagy was induced by cultivating cells in growth medium containing 400 nM of rapamycin (Merck Millipore, Burlington, MA, USA) for 6 h. To induce autophagy and block the fusion of autophagosomes and lysosomes, cells were cultivated in growth medium containing 400 nM of rapamycin for 4 h, followed by a 2 h cultivation in fresh growth medium containing 400 nM of rapamycin and 50 nM of bafilomycin (Invivogen, San Diego, CA, USA). Controls were cultivated in growth medium containing dimethyl sulfide (DMSO, Roth, Germany), which was used as a solvent for rapamycin and bafilomycin for equivalent time periods.
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3

Fibroblast Cultivation and Treatment

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For in vitro studies, 3T3 mouse fibroblasts and human foreskin fibroblasts (HFF, both from the American Type Culture Collection but not authenticated) were cultured in DMEM (Corning Life Sciences) plus 10% fetal bovine serum. Rapamycin (InvivoGen) and DMBA (Sigma) were diluted in culture media for in vitro studies.
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4

Modulation of PBMC Viability by IL-10

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Peripheral blood mononuclear cells (PBMCs) (Cellero, Wilmington, MA, USA, catalog#1001, Lot# 4914OC20) were seeded into a poly-L-ornithine coated 96-well plate at 40,000 cells per well and cultured in a 1:1 mixture of RPMI1640 medium (Gibco, catalog# 11875093) containing 10% FBS (Atlanta Biologicals, Flowery Branch, GA, USA, catalog# S11550) and 1% GlutaMAX™ and MEM α medium supplemented with 5% hPL and 1% GlutaMAX™. Phytohemagglutinin (PHA-P, PHA) (Sigma, catalog# L1668-5MG) at 10 µg/mL, rapamycin (InvivoGen, San Diego, CA, USA, catalog# tlrl-rap) at 10 µg/mL, and CCM from naïve MSCs or eMSCs-IL10 were added to the respective groups. For the groups with the IL-10 receptor α antibody (IL10 Ra AB) (R&D Systems, Minneapolis, MN, USA, catalog# MAB274), PBMCs were incubated with 80 µg/mL of IL10 Ra AB for 1.5 h prior to adding other treatments, PHA, and CCM-IL10 (100 ng/mL). After 3-day incubation, the cell viability was determined using the CellTiter-Glo® Luminescent Cell Viability Assay Kit (Promega, Madison, WI, USA, catalog# G7571), which is based on ATP quantification. The data were normalized to the PBMC group stimulated with PHA. One-way ANOVA was used for statistical analysis (n = 4).
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5

Fasting and Insulin Signaling in Mice

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Eight- to ten-week-old male C57BL/6 J mice purchased from Harlan Laboratories (Indianapolis, IN, USA) were adapted to the environment for one week before the study. The inducible liver IR knockout (iLIRKO) mice were described previously21 (link). Fifteen-week-old male mice were studied 2 weeks after 3 consecutive injections with tamoxifen (1.5 mg/mouse). All mice were housed in colony cages with a 12 h/12 h light/dark cycle in a temperature-controlled environment (lights off at 3:00 pm). Mice had free access to water and regular diet (65% carbohydrate, 11% fat and 24% protein). For “fasting” and “refed” conditions, mice were either fasted for 24 h, or refed overnight on a regular diet with 20% glucose in tap water after 24 h fasting. For insulin signaling inhibitors experiments, mice were injected twice (18 hours and 2 hours) before sacrifice with wortmannin (2 mg/kg, InVivoGen, CA, USA) or rapamycin (4.5 mg/kg, InVivoGen). Livers were frozen in liquid nitrogen and kept at −80 °C until use. Plasma samples were frozen and stored at −80 °C until use. All procedures were carried out according to the French guidelines for the care and use of experimental animals. All animal studies were approved by the “Direction départementale des services vétérinaires de Paris”.
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6

Grass Pollen Allergen Immunotherapy Protocol

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For cell cultures, we used RPMI 1640 (Lonza) supplemented with 10% heat‐inactivated foetal bovine serum, 100 µg/mL normocin (InvivoGen), 50 µg/mL penicillin‐streptomycin, 1% nonessential amino acids, 1% MEM vitamins and 1 mmol/L sodium pyruvate (Life Technologies). Glutaraldehyde‐polymerized grass pollen (Phleum pratense) allergoids conjugated to nonoxidized mannan (PM) and native grass pollen P pratense allergens (N) were provided by Inmunotek SL. Aluminium hydroxide gel (Alhydrogel) was from InvivoGen. Inhibitors for mTOR (rapamycin) (InvivoGen), ROS (N‐acetyl‐cysteine (NAC)) or glycolysis (2‐Deoxy‐D‐glucose (2‐DG)) (Sigma‐Aldrich) were used for the inhibition experiments.
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7

Exposure to Chemical Pollutants

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Aldrin, BDE28, PCB153 and PFOA were purchased from Sigma® (Darmstadt, Germany) and then diluted in ethanol to a 10−3 M concentration stock, except for PCB153 which was diluted to a 10−5 M concentration stock. LY294002, a PI3K inhibitor, and rapamycin, a mTOR inhibitor, were, respectively, purchased from InVivogen® (Toulouse, France) and Sigma®.
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8

Inhibition of Immune Signaling Pathways

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LA-4 cells were pre-incubated with the indicated amounts of either the mTOR inhibitor rapamycin (Invivogen, Toulouse, France), MAPK-inhibitors U0126 (MEK1/2 MAPK inhibitor, Cell Signaling Technologies, Leiden, The Netherlands), SP600125 (SAP/JNK MAPK inhibitor, Invivogen), SB-202190 (p38α/β MAPK inhibitor, Invivogen), the NFκB- and MAPK-inhibitor dexamethasone (Invivogen), the IKK-β-inhibitor TPCA-1 (Abcam, Berlin, Germany), the inhibitor of actin polymerization cytochalasin A (Sigma-Aldrich), the inhibitor of endosomal acidification chloroquine (InvivoGen), or the COX2-inhibitor NS-398 (Sigma-Aldrich, Steinheim, Germany) for 90 min and subsequently stimulated with rFlaA:Betv1 for 24 h. For analyzing cell viability, LA-4 cells were treated as indicated and stained for dead cells using the fixable viability dye eFlour450 (#65-0865-14, eBioscience) and measured by FACS. Data were analyzed using FlowJo V.7 (Treestar Inc., Ashland, OR, USA) and GraphPad PRISM (GraphPad Software, San Diego, CA, USA).
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9

Cryopreservation of Ovarian Tissue

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Ovaries were placed in cryopreservative medium containing Leibovitz L-15 medium supplemented with 10% FBS, 10% dimethylsulfoxide (DMSO; Merck, Darmstadt, Germany) and 0.1 M sucrose. After equilibration in cryopreservation medium for 30 min at 4 °C, ovaries were placed in cryovial tubes (Simport, Montreal, Quebec, Canada) and subsequently cooled in a programmable freezer (CL-8800i System; CryoLogic, Mulgrave, Victoria, Australia) as described previously [55 (link)] and stored in liquid nitrogen. For slow freezing with inhibitors, LY294002 (25 µM, InvivoGen, Toulouse, France) or Rapamycin (1 µM, InvivoGen, Toulouse, France) were added in the transport and cryopreservation media.
For thawing, cryovials were incubated at room temperature for 2 min and thawed by rapid immersion at 37 °C in a water bath. To remove cryoprotectants, ovaries were washed three times for 5 min at 37 °C in Leibovitz L-15 medium.
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10

Immunization and Rapamycin Treatment in Mice

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Mice were intraperitoneally (i.p.) immunized with 50 µg TNP36-Ficoll T-cell-independent antigen (Biosearch Technologies) or with 100 µg TNP18-KLH T-cell-dependent antigen (Biosearch Technologies) with adjuvant (Sigma) at day 0. Serum samples were collected from the tail vein (day 0) or by cardiac puncture (day 7 and day 10, respectively). Rapamycin (InvivoGen) was diluted in 100-µl phosphate buffer solution (PBS) with vehicle including 0.25% PEG and 0.25% Tween 80 (Sigma) and injected i.p. at a dose of 1 mg/kg. Injections were given daily, starting 1 day before immunization and ending 7 or 10 days after immunization, respectively. Control mice were injected with the same volume of PBS and vehicle.
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