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20 protocols using siinfekl

1

Immunogenic IDH1-R132H Peptide Evaluation

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Mice were immunized with two 9-mer (PEP1 - IDH1-R132H126–134: KPIIIGHHA; PEP2 - IDH1-R132H128–136: IIIGHHAYG), two 10-mer (PEP3 - IDH1-R132H131–140: IGHHAYGDQY; PEP4 - IDH1-R132H123–132: GWVKPIIIGH) and a 16-mer (PEP5 - IDH1-R132H126–141: KPIIIGHHAYGDQYRA) peptides spanning the IDH1 mutation. Negative control peptides were: OVA155–62: KVVRFDKL; OVA2107–114: AEERYPIL; OVA3176–183: NAIVFKGL, synthesized by Primm srl (Milano), and OVA4257–264: SIINFEKL (Sigma Aldrich).
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2

Cytokine Response Profiling Post-Booster Vaccination

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ICS was performed at the indicated time points following the booster shots for IFNγ, TNFα, and IL-4. Whole blood was stimulated for 6 h with 1 μg/ml of SIINFEKL (Sigma) or overnight with 1 μg/peptide per well of spike-associated peptides (Cat: 130-127-951, Miltenyi Biotec Peptivator) at 37°C, 5% CO2 in the presence of brefeldin A (Biolegend) and monensin (Biolegend). Following stimulation, whole blood was incubated with red lysis buffer (Cat: A10492-01, Gibco) at RT. Cells were permeabilized using Intracellular Staining Perm Wash Buffer (Cat: 421002, Biolegend). Cells were stained with phycoethyrin (PE) anti-mouse IFNγ (Cat: 505808, Biolegend), fluorescein isothiocyanate anti-mouse TNFα (Cat: 506304, Biolegend), BV421 anti-mouse IL-4 (Cat: 504127, Biolegend), allophycocyanin-Cy7 anti-mouse CD3 (Cat: 100222, Biolegend), PE-Cy7 anti-mouse CD4 (Cat: 25-0041-82, Invitrogen), and allophycocyanin anti-mouse CD8a (Cat: 100712, Biolegend). Naïve mice (non-vaccinated mice) were used as negative controls. Cells were then run on a Beckman Coulter CytoFLEX instrument and analyzed via FlowJo V10 software.
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3

Antigen Presentation and T Cell Activation

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OT-I CD8 T cells were purified from TCR-transgenic mice OT-I by negative selection using immunomagnetic beads (Miltenyi Biotech). For direct MHC-I antigen presentation assays, MutuDC lines were seeded at 10,000 cells per well in round-bottom 96-well plates. For MHC-I-restricted antigen presentation assays, MutuDC cells were incubated for 2 h with 1 nM SIINFEKL (OVA257–264, Sigma-Aldrich S7951), 1 mg/mL Ovalbumin protein (InvivoGen vac-pova), 1 μg circFOR, or 1 μg circOVA, in the presence or absence of 1 μM CpG (ODN 1585, InvivoGen). The cells were washed three times in medium and incubated with 50,000 purified CFSE-labeled OT-I CD8 T cells (CellTrace CFSE Cell Proliferation Kit, Invitrogen C34554). T cell proliferation was measured after 60 h of culture by flow cytometry analysis excluding doublets and dead cells. OT-I CD8 T cells were gated as CD8+ Vα2+ cells. Live dividing T cells were detected as low for cell proliferation dyes (CFSE low). MutuDC cells were similarly transfected with circOVA with or without CART reagent at the indicated concentrations.
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4

In Vivo CD8+ T Cell Cytotoxicity Assay

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Lymphocytes from lung or spleen were incubated in digestion buffer (RPMI medium containing 5% fetal bovine serum, 0.02% Collagenase IV, 0.002% DNase I and 10 U/ml of Heparin) for 40 min before use in phenotypic and functional assays. Primed OT-1 CD8+ T cells were isolated and re-stimulated with OVA peptide (SIINFEKL, Sigma, 0.2 μg/ml) in the presence of 1 μl/ml of GolgiPlug™ (BD Bioscience) for 4 h ex vivo. Following incubation, cell surface staining was performed followed by fixation, permeabilization, and intracellular staining. For the in vivo CTL assay, OVA peptide-pulsed or control peptide-pulsed spleen cells (as target cells) from syngeneic mice were labeled with a high dose of CFSE (5 μM) or low dose of CFSE (0.5 μM), mixed at 1:1 (2.5×106 of each) before injection. Target cells were intravenously injected into immunized mice on day 4 after re-challenge with cognate antigen protein. The CTL activity was determined 4 h after target cell transfer. Specific lysis was calculated using the following formulas: ratio=(%CFSEhigh/%CFSElow), % specific lysis=[1−(ratio primed/ratio unprimed)] × 100%.
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5

IFN-γ ELISA assay for T cell function

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IFN-γ levels in the cell culture supernatants were determined by BD OptEIA™ - Mouse ELISA Set (BD Biosciences) following manufacturer's instructions. To this end, TdLN or cLN cells (2×105) were co-cultured for 48 h with EG7-OVA or YAC-1 irradiated cells (2×104) or OVA-specific SIINFEKL (5 μg, Sigma) peptide at 37° C and 5% CO2.
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6

Evaluating Antigen Cross-presentation in BM-DCs

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For the evaluation of antigen cross-presentation, WT and P2X7KO BM-DCs were stimulated for 24 h with H-AC-OVA and H-ACs-OVA-P2X7, in a 2:1 ratio of ACs/BM-DCs. As a positive control, BM-DCs were incubated with 5 μM of OVA257-264 peptide (SIINFEKL, Sigma-Aldrich, St. Louis, MO, USA) for 180 min at 37° C in a 5% CO2 atmosphere. After the pulse period, BMDCs labeling was performed with the anti-mouse- CD11c FITC and anti-mouse OVA antibodies (SIINFEKL/H-2Kb, clone eBio25D1.16 APC) from, both from eBioscience, San Diego, CA, USA. Total viable cells were evaluated by PI + exclusion. SIINFEKL/MHC-I complex was analyzed in the BM-DCs surface using the Accuri C6 Flow Cytometer and the information was processed using CFlow Plus software (eBioscience, San Diego, CA, USA)
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7

GABA Modulates T Cell Proliferation

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Lymphocytes were isolated from lymph nodes of OTI or OTII mice and stimulated with SIINFEKL (OVA257–264; Sigma-Aldrich) or ISQAVHAAHAEINEAGR (OVA323–339; Sigma-Aldrich) peptide at 5 μM for 24 hours. Cells were then labeled with 5 μM CSFE (Thermo Fisher Scientific) at 37 °C for 10 minutes. After two washes, cells were seeded in 48-well plates (1×106 cells per well) and then treated with the indicated concentrations of GABA. Three days after incubation, stained cells were counted to quantify the proliferation of OTI CD8+ T and OTII CD4+ T cells using a BD FACS Canto flow-cytometry system.
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8

Quantifying Antigen-Specific Antibody Responses

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ELISA 96-well microplates (Corning; Sigma-Aldrich) were coated overnight at 4°C with 10 µg/ml of SIINFEKL (Sigma-Aldrich) diluted in PBS. Plates were washed three times with PBS containing 0.05% Tween-20 to remove unbound SIINFEKL. A volume of 100 µl PBS-BSA 1% was used for blocking for 1 h at room temperature. 50 µl per well of diluted IgG sample was added to corresponding wells in duplicate. The plates were incubated at room temperature for 1 h and washed three times. To measure OVA-specific Ab, anti-mouse IgG coupled to peroxidase was added to wells at the dilution of 1:1,000 (Thermo Fisher). Secondary Abs were incubated for 1 h at room temperature. Plates were washed three times, and 50 µl of streptavidin coupled with horse-peroxidase was added to the plates and incubated at room temperature for 20 min. After three washes, the signal was revealed by adding 50 µl tetramethylbenzidine, and the plates were incubated at room temperature for 15 min in the dark. The reaction was stopped by adding 25 µl H2SO4 2N. Optical density at 492 nm was measured using the Genemate Uniread 800 plate reader.
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9

In Vitro CD8+ T Cell Killing Assay

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Lymph node and spleen CD8+ T cells were enriched and sorted (XDP, Beckman Coulter) from OVA‐heart transplanted or MVA‐OVA immunized recipients 4–5 days following transplantation or immunization. As target cells, EL4 C57BL/6N T‐cell lymphoma cells (ATCC TIB‐39) were used. Target cells were labeled with eFluor 670 (eBioscience) before culture, and half of the cells were incubated with 30 μM SIINFEKL (Sigma‐Aldrich) at 37°C for 30 min. GFP+ OT‐1 T cells were mixed with peptide‐loaded or unloaded target cells at the indicated effector‐target (E:T) ratios and incubated for 4 h. Each E:T ratio was assayed in duplicate and 3 × 103–5 × 103 target cells were used per well. Following incubation, cells were harvested and stained with antibodies and DAPI. The percent of DAPI+ killed targets was calculated.
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10

CD8+ T Cell Proliferation Assay

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CFSE-labeled splenocytes from OT-I mice were incubated with or without MDSCs in RPMI supplemented with ovalbumin257-264 peptide (SIINFEKL, 0.2 µg/mL, Sigma-Aldrich). After 3 d, cells were labeled with PE anti-CD8 Ab (53-6.7) and APC-Cy7 anti-TCR Ab (H57-597) (Biolegend).
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