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16 protocols using cd4 rpa t4

1

Multiparameter Immune Cell Profiling

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Live/Dead dye (Invitrogen), CD4 (RPA-T4, BD Biosciences), CD3 (UCHT1), CD8 (5K1), Vα7.2 (3C10), and CD161 (191B8) [all Biolegend].
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2

Flow Cytometry Analysis of Regulatory T Cells

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The following conjugated mouse antibodies were used for flow cytometry analysis (clone [fluorophore]): anti-CD3 (HIT3a [FITC]), CD4 (RPA-T4 [PE and PerCP]), CD45RA (HI100 [APC]) CD25 (M-A251 [APC] or 2A3 [FITC]), CD69 (FN50 [PE]), CD127 (HIL-R7-M21 [FITC]), TNFR2 (hTNFR-M1 [PE]) and CTLA-4 (BNI3 [PE]) (BD Pharmingen, San Jose-CA, USA). The anti-GITR conjugated antibody (621 [APC]) was obtained from BioLegend. The anti-LAP conjugated antibody (27232 [PE]) was obtained from R&D Systems (Minneapolis, MN, USA) and PE conjugated anti-human FOXP3 (PCH101) was obtained from eBiosciences (San Diego, CA, USA). For FOXP3 intracellular staining, the cells were fixed and permeabilized using a Human FOXP3 Human Buffer Set kit (BD Pharmingen, San Jose-CA, USA). The reagents and cytokines used included: RPMI 1640 medium and all-trans retinoic acid from Sigma-Aldrich (St. Louis, MO, USA), recombinant human TGF-β1 and IL-2 from Peprotech (Rocky Hill, NJ, USA), anti-CD2/CD3/CD28 beads (T Cell Activation/Expansion Kit) and carboxyfluoresceinsuccinimidyl ester (CFSE) from Invitrogen (Carlsbad, CA, USA).
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3

Characterization of CD1d-Reactive T Cells

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Enriched CD3+ CD1d–α-GalCer tetramer+ cells were stained with Vδ1 (clone A13 supernatant, which can bind to Vδ1 when incorporated in hybrid Vδ1-Jα-Cα TCR chains, was produced in L. Moretta’s laboratory), anti–mouse IgG (clone Poly 4053; BioLegend), 5% normal mouse serum, and then with antibodies specific for αβTCR (clone T10B9.1A-31; BD), CD3ε (clone UCHT1; BD), CD8α (SK1; BD), CD4 (RPA-T4; BD), Vβ11 (C21; Beckman Coulter), CD69 (FN50; BD), γδTCR (11F2; BD), and CD161 (191B8; Miltenyi Biotec). Cells were costained with 7-aminoactinomycin D viability dye (Sigma-Aldrich) and with human CD1d tetramers (produced in-house), as previously described (Uldrich et al., 2013 (link)). TCR-Vβ repertoire analysis was performed using a TCR-Vβ repertoire kit (Beckman Coulter). Cells were analyzed using an LSR Fortessa (BD), and data were analyzed using FlowJo software (Tree Star Inc.).
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4

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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5

Proliferation and STAT1 Activation Assay

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PBMCs were incubated with CellTrace violet (1 μM, Cell Proliferation Kit, Thermo), stimulated with anti-IgM (10 μg/ml, Jackson Lab; 109-006-129), CD40L (100 ng/ml, Enzo; ALX522-110-C010), IL-4 (10 ng/ml, Peprotech; 200-04), IL-21 (100 ng/ml, Peprotech; 200-21), CpG (1μM, Enzo; ALX746-006-C100), BAFF (100 ng/ml, Enzo ALX-522-025-C010), anti-CD3 (1 μg/ml, eBioscience; 16-0037-85), anti-CD28 (1 μg/ml, eBioscience; 16-0289-85) and PHA (1 μg/ml, Sigma; L9017). Seventy-two hours later the cells were stained with surface markers and analyzed by flow cytometer. Staining was performed with following antibodies from BD: CD3 (UCHT1), CD4 (RPAT4), CD8 (RPAT8), CD19 (HIB19) and CD80 (L307.4). For p-STAT1 detection, staining was performed using following antibodies from BD: CD4 (RPAT4), CD8 (SK1) and p-STAT1 (4a), and from Biolegend: CD3 (UCHT1), CD14 (M5E2) and CD45RA (HI100).
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6

Multicolor Flow Cytometry Panel

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Live/Dead dye (Invitrogen), CD4 (RPA-T4, BD Biosciences), CD3 (UCHT1), CD8 (5K1) and CD57 (HNK-1)[all Biolegend]. Added to all flow cytometry-staining panels.
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7

Immunofluorescence Analysis of CD4+ T Cells

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For immunofluorescence analysis, freshly isolated CD4+ T cells were attached to poly-L-lysine coated glass slides by 30 minutes of incubation at room temperature and stained with CD4 (RPA-T4) (BD Biosciences) and BMPRIA (R&D Systems) antibodies followed by Alexa Fluor 594 or Alexa Fluor 488-conjugated multiadsorbed F(ab’)2 fragments of donkey anti-mouse and donkey anti-goat IgG. For intracellular staining of BMPRIA, cells were fixed with Cytofix/Cytoperm solution (BD Biosciences) before CD4 staining and stained for BMPRIA using Perm/Wash buffer (BD Biosciences). Finally, cells were stained with Hoechst 33342 (Invitrogen, Life Technologies) for cell nucleus visualization and mounted with Prolong Gold (Invitrogen, Life Technologies). Slides were examined on a FluoView 1200 Confocal Microscope (Olympus) from the Centro de Citometría y Microscopía de Fluorescencia, Complutense University of Madrid.
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8

Multicolor Flow Cytometry of PBMCs and Lung Lymphocytes

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Monoclonal antibodies used to stain human PBMCs were from BioLegend CD27 (O323), CD8α (RPA-T8), CD3 (OKT3), IFN-γ (4S.B3), TNFα (MAb11), and BD Biosciences CD4 (RPA-T4). Monoclonal antibodies used to stain lung-derived murine lymphocytes were BioLegend CD3 (17A2), CD8α (53–6.7), CD4 (RM4–5); eBioscience CD11b (M1/70), CD44 (IM7); and BD Biosciences IFN-γ (XMG1.2). Samples were run on a BD Biosciences LSRII flow cytometer and analyzed with FlowJo software.
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9

Phenotyping Antigen-Specific B cells

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Freshly isolated peripheral blood mononuclear cells were stained first for viability with Live/dead Yellow (ThermoFisher) and then for markers with the following monoclonal antibodies: IgA (IS11–8E10, Miltenyi), IgD (IA6–2, BD), IgG (G18–145, BD), IgM (MHM-88, Biolegend), CD3 (SK7, BD), CD4 (RPA-T4, BD), CD8 (SK1, BD), CD14 (61D3, eBioscience), CD16 (CB16, eBioscience), CD19 (SJ25C1, BD), CD20 (2H7, BD), CD27 (O323, BioLegend or M-T271, BD), CD38 (HB7, BD), and CD71 (CY1G4, BioLegend. Antigen-specific B cells were detected by staining with RBD conjugated to Alexa Fluor 488 (Protein Labeling Kit, ThermoFisher). RBD was conjugated according to manufacturer’s instructions, with the following changes: protein was labeled at a concentration of 1mg/mL, and incubated for 30 minutes without the addition of bicarbonate. After staining, PBMCs were washed and then fixed for 30 minutes using 2% paraformaldehyde (ThermoFisher). Data were acquired on a BD FACSymphony A5 and analyzed using FlowJo 10.7.1 (BD).
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10

Multiparametric Flow Cytometry of T Cell Responses

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Tumour cells or T cells suspended in FACS staining buffer were stained with fluorochrome-conjugated antibodies against combinations of the following surface human antigens: CD4 (RPA-T4, BD, Franklin Lakes, NJ), CD8 (SK1, BD), CD3e (SK7, BD), HLA-A*02/MART-1:27–35 tetramer (DMF5, Beckman Coulter Immunotech, Monrovia, CA); NY-ESO-1 tetramer (NIH Tetramer Core Facility); PD1-L1 (MIH1, eBiosciences, San Diego, CA); PD1-L2 (24F.10C12, Biolegend, San Diego, CA); IFNγ (25723.11, BD), CD58 (1C3, BD) and β2M (2M2, Biolegend). Cell viability was determined using propidium iodide exclusion or a fixable live/dead kit (Invitrogen). Intracellular staining assay (ICS) on ESO T cells after 5–6 hours of co-culture with A375 cells, where T cells were pre-treated with monensin (512092KZ, BD) and brefeldin A (512301KZ, BD), was performed using manufacturer’s instructions for BD Flow cytometry ICS. Flow cytometric data were acquired using either a FACSCanto II or LSRII Fortessa cytometer (BD), and data were analysed with FlowJo version 7.5 software (FlowJo LLC, Ashland, OR).
The amount of IFNγ release by T cells after co-culture with tumour cells was measured by Sandwich ELISA assay using anti-IFNγ (Thermo Scientific #M700A) coated 96-well plates, biotin-labeled anti-IFNγ (M701B), HRP-conjugated streptavidin (N100) and TMB substrate solution (N301).
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