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19 protocols using cd8 sk1

1

Immunophenotyping of PBMC and T cells

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PBMC and T cells were surfaced stained with fluorochrome-conjugated mAbs: CD3 (SP34-2), CD45 (HI30), CD4 (OKT4), CD8 (SK1; BD Biosciences), NGFR (ME20.4-1.H4; Miltenyi Biotech, San Diego, CA). 1 × 106 cells were washed and stained with antibodies diluted in 100 μL staining buffer (PBS with 1% vol/vol FBS) at room temperature for 20 minutes and then washed 3 times with staining buffer. At least 100,000 events were acquired on a BD LSRII (BD Biosciences). Sorting was done using the BD FACS ARIA II (BD Biosciences). Data analysis was performed using FCS Express 4 (De Novo Software, Glendale, CA).
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2

Multi-Marker Immune Profiling Protocol

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Antibodies used in this study are as follows: CD3 (clone SP-34–2; BD Biosciences), CXCR5 (MU5UBEE; eBioscience), GagCM9 tetramer (NIH tetramer core), CD28 (CD28.2; eBioscience), CD95 (DX2; BD Biosciences), CD279 (PD-1; clone EH12.2H7; BioLegend), CD8 (SK1; BD Bioscience), Ki67 (B56; BD Biosciences), CD4 (L200; BD Biosciences), GrzB (GB11; BD Biosciences), perforin (Pf-344; Mabtech), FoxP3 (206D; BioLegend), HLA-DR (L243; BioLegend), IFNλ (B27; BD Biosciences), TNFα (MAb11; BD Biosciences), and IL-2 (MQ1- 17H12; BD Biosciences).
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3

Multiparameter Phenotyping of Dissociated LCH

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Fresh LCH tissue was dissociated using a gentle MACS tissue dissociator (Miltenyi Biotec) and single cells were cryopreserved in DMSO and albumin containing Roswell Park Memorial Institute (RPMI) culture medium. Before flow cytometric analysis, cells were thawed in RPMI + 20% fetal calf serum (FCS) + Penicillin-Streptomycin (P/S) containing 1,600 IU/ml DNAase (Sigma-Aldrich). After washing, the cells were stained with a mixture of different antibodies: CD45 (2D1, 1:50, BD Biosciences), CD1a (HI149, 1:50, BD Biosciences), CD207 (DCGM4, 1:25, Beckman Coulter), CD14 (MØP9, 1:20, BD Biosciences), CD3 (UCHT1, 1:200, BD Biosciences), CD8 (SK1, 1:100, BD Biosciences), HLA-DR (G46-6, 1:200, BD Biosciences), and panHLA class I (G46-2.6, 1:40, BD Biosciences). The cells were then re-washed and immediately analyzed on a FACS ARIA3 or FACS Fusion cell sorter (BD Biosciences).
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4

Multiparametric Immunofluorescence Profiling

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Frozen skin sections were fixed with acetone and blocked with 10% normal goat serum (Vector Laboratories) for 30 minutes. Primary antibodies were incubated overnight at 4°C and amplified with the appropriate Alexa Fluor® 488 (A-488) or 568 (A-568) conjugated secondary antibody for 30 minutes at room temperature. Antibodies used are: IL-32αβγδ (KU32–52, BioLegend), CD3 (SK7, BD Biosciences), CD4 (SK3, BD Biosciences), CD8 (SK1, BD Biosciences), hNKp46 (195314, R&D Systems), CD20 (L27, BD Biosciences), CD14 (M5E2, BioLegend), CD11c (B-ly6, BD Pharmingen), CD303 (AC144, Miltenyi Biotec), and CD163 (5C6-FAT, Acris Antibodies).
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5

T cell activation and phenotyping

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CD3+ T cells were isolated from PBMC as above and incubated for 24h either unstimulated or with 1μg/ml CD3 and CD28 antibodies (BD Biosciences), together with 10ng/ml IL-1β or 100ng/ml truncated IL-36α, β or γ. Cultures were subsequently prepared for qRT-PCR or flow cytometry. Cells were washed in FACS buffer (PBS+0.5%BSA+0.1%NaN3) then stained with antibodies against CD3 (clone S4.1, Invitrogen), CD4 (OKT-4, eBioscience), CD8 (SK1, BD), CLA (HECA-452, Biolegend), CD103 (Ber-ACT8, Biolegend), CD25 (BC96, Biolegend), CD69 (FN50, Biolegend), CD54 (HCD54, Biolegend) and appropriate isotype-matched control antibodies for 30 min at 4°C in the dark. After 2 washes in FACS buffer, cells were analyzed using a BD LSR2 flow cytometer gating on lymphocytes expressing CD3 and CD4 or CD8.
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6

Multiparametric Flow Cytometry for T Cell Phenotyping

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T cell phenotype was assessed by flow cytometry (LSRFortessa, BD) using fluorochrome-conjugated antibodies specific for CD3 (clone UCHT1; BD), CD4 (SK3; BD), CD8 (SK1; BD), CD45RO (UCHL1; BD), CX3CR1 (2A9-1; BioLegend), CD57 (HNK-1; BioLegend), CD27 (M-T271; BD), CD28 (CD28.2; BioLegend), CD69 (FN50; BD), and CCR7 (3D12; BD). Viable cells were gated using Live/Dead Aqua viability dye (Invitrogen). For induction and detection of intracellular cytokines, cells were cultured overnight with 20ng/ml recombinant human IL-15 (247-ILB; R&D Systems) or medium control (RPMI 1640 [Gibco], supplemented with 10% fetal bovine serum [Gemini Bio-Products], 1% L-glutamine [Gibco], and 1% penicillin/streptomycin [Gibco]), then treated with brefeldin A (GolgiPlug, BD) for 6h prior to harvest. After Live/Dead and surface staining, cells were fixed and permeabilized with Cytofix/Cytoperm (BD) for 20 min on ice and stained for 40 minutes on ice with anti-IFNγ (B27, BD) and anti-TNF (MAb11, BD). For intracellular accumulation of cytolytic molecules, cells were treated with IL-15-supplemented or control medium for 48 hours, then harvested, stained with Live/Dead and surface antibodies, treated with Cytofix/Cytoperm, stained with anti-granzyme B (GB11; BD) and anti-perforin (B-D48; BioLegend).
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7

Isolation and Purification of T-Cell Subsets

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Patients’ blood was collected in heparin tubes (40–50 ml in total), and peripheral blood mononuclear cells (PBMCs) were isolated by density gradient centrifugation using Ficoll density gradient medium (GE Healthcare Bio-Sciences AB, Uppsala, Sweden). CD4+ cells and CD8+ cells were isolated from the PBMCs via positive selection using CD4 or CD8 MicroBeads on an autoMACS® Pro Separator (Miltenyi Biotec Norden AB, Lund, Sweden). Flow cytometry was used to determine the purity of some of the sorted T-cell samples, and over 90% of CD45+ cells expressed CD4 (n = 5) or CD8 (n = 5). The following antibodies were used: CD45 (HI30; BioLegend, San Diego, CA, USA), CD4 (OKT4; BioLegend), and CD8 (SK1; BD Biosciences, Stockholm, Sweden).
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8

Flow Cytometry Analysis of Immune Cells

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For flow cytometry analysis, cells were resuspended in phosphate-buffered saline (PBS; Fisher Scientific) containing 2% fetal bovine serum (FBS). For extracellular staining, cells were washed twice prior to incubation with antibody for 30 min at 4°C in the dark. For GP120 staining, cells were incubated with the VRC01 antibody (NIH AIDS reagent program, 12033)35 (link) for 30 min at 4°C in the dark, washed twice, and then incubated with Anti-Human-IgG APC antibody (Clone: IS11-3B2.2.3; Miltenyi). Other antibodies used in this study were CD3 (Clone: SK7; BD Biosciences), CD69 (Clone: L78; BD Biosciences), CD8 (SK1; BD Biosciences), CD4 (SK3; BD Biosciences), and EGFR (Clone: Ay13; BioLegend). Immediately before analyzing, 1/3 volume of 4′,6-diamidino-2-phenylindole (DAPI) was added to each sample for viability.
All samples were analyzed on the MACSQuant Analyzer 10 (Miltenyi). Greater than 100,000 events were collected and analyzed on FlowJo software (version 10; Tree Star). All experiments were gated for density using forward and side scatter, then single cells using area and height, and finally viability using DAPI before analysis.
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9

Activation and Phenotyping of T Cells

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Patients’ and healthy control (HC) PBMCs were purified by Ficoll density gradient centrifugation, washed with RPMI 1640 plus penicillin, streptomycin, and L-glutamine along with 10% FBS (R10) and filtered through a 40 µM strainer. Cells were resuspended to a concentration of 1 × 106 cells/mL and aliquoted (1 mL/well) into 48-well plates. PMA (final concentration 20 ng/mL), ionomycin (1 µM) and brefeldin A (5 µg/mL, Sigma-Aldrich) were added prior to incubation at 37°C for 5–6 hours. After incubation, cells were washed with FACS buffer and stained with LIVE/DEAD Blue (Life Technologies). Intracellular staining was performed using BD CytoFix/CytoPerm (BD Biosciences) reagents according to the manufacturer’s instructions using the following antibodies: CD3 (SK7, BD Biosciences), CD4 (RPA-T4, BD Biosciences), CD8 (SK1, BD Biosciences), CD45RO (UCHL1, Beckman Coulter), CXCR5 (RF8B2, BD Biosciences), CD25 (M-A251, BD Biosciences), IL-2 (MQ1–17H12, BioLegend), IL-4 (8D4–8, BD Biosciences), IL-5 (JES1–39D10, BD Biosciences), IL-13 (JES10-5A2, BD Biosciences), IFNγ (B27, BD Biosciences), IL-17A (eBio64DEC17, eBioscience). Cells were gated on viable CD3+ CD4+ CD45RO+ cells. Ex-vivo Treg staining was performed using anti-CD3 (UCHT1), CD4 (OKT4), CD25 (M-A251),, CD45RO (UCHL1), CD127 (HIL-7R–M21),, GATA3 (L50–823) and FOXP3 (236A/E7) antibodies as described 33 (link).
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10

CFSE-based Alloimmune Assay Protocol

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CFSE-MLRs were performed using pre-transplant recipient and either donor PBMCs, splenocytes or lymph node cells, or HLA-mismatched 3rd party PBMCs as described16 . For unstimulated CD4 and CD8 samples, pre- and post-transplant PBMC samples were thawed and stained with anti-CD3 (OKT3; BD Biosciences), CD4 (OKT4; Tonbo Biosciences), and CD8 (SK1; BD Biosciences). Samples were then FACS-sorted for CD3+CD4+ and CD3+CD8+ populations, followed by DNA extraction. Genomic DNA was isolated using the Qiagen DNeasy Blood and Tissue Kit (Germantown, MD) as per manufacturer’s instructions.
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