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26 protocols using ctla 4

1

Multiparametric Flow Cytometry Analysis

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Cells were stained with fluorescently-labelled antibodies to mouse CD45, CD3, CD4, CD8 (Thermo Scientific), PD-1, CTLA-4, LAG-3, Tim-3, perforin, granzyme-b (Biolegend), Tox/Tox2 (Cell signaling) and to human CD45, CD4, CD69 (ThermosScientific), PD-1, CTLA-4 and LAG-3 (Biolegend). For intracellular cytokine staining the Cyto-Fast Fix/Perm Buffer Set (Biolegend) was used. Cells were re-stimulated with PMA (20 ng/ml)/ionomycin (500 ng/ml) (Sigma-Aldrich) and Golgi-Stop (1 μl/ml) (BD Biosciences) and stained with antibodies against mouse or human IL-10 and IFN-γ (eBiosciences). Foxp3 and Tox/Tox2 staining was performed using the True-Nuclear Transcription Factor Buffer Set (Biolegend). FACS acquisition was performed with the cytometer Cytomics FC500 (Beckman Coulter) and a BD FACSAria II (Becton Dickinson) and the data were analyzed using the FlowJo X software 10.07 (Tree Star, Inc).
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2

Phenotypic Characterization of CAR-T Cells

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Untransduced- or CD19CAR-T cells were cultured with the γ-irradiated CD19-K562 cell line in a 1:1 ratio for seven days without IL-2 supplementation. The T-cells were stained with monoclonal antibodies conjugated with fluorophores: CD3, CD8, CD45RA, CD62L (BD Biosciences), PD-1, LAG-3, CTLA-4, and TIM-3 (BioLegend, San Diego, CA, USA). The tEGFR+ cells were stained with biotinylated anti-EGFR antibody (R&D Systems, Bio-Techne, MN, USA) and counterstained with streptavidin-phycoerythrin (BD Biosciences). All samples were analyzed by a CytoFlex S flow cytometer machine (Beckman Coulter Inc, CA, USA) and data were analyzed using FlowJo software (Tree Star).
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3

In vitro Induction and Characterization of iTreg Cells

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In vitro induced Treg (iTreg) cells were differentiated from naive CD4+ T cells and activated by precoated 5 µg/mL CD3 Monoclonal Antibody (OKT3) (eBioscience,16-0037-85) overnight at 4 °C. The coating plate first washed once with phosphate-buffered saline to remove unbound soluble CD3 antibodies, followed by adding resuspended naïve CD4+ T cells at 3 × 105 cells per mL in culture medium (1,640 + 10% fetal bovine serum [FBS]) including 2 µg/mL CD28 Monoclonal Antibody (CD28.2) (eBioscience, 16-0289-85), 10 ng/mL IL-2 (PeproTech, 200-02-B), and 20 ng/mL TGF-β (R&D, 240-B-002). Two hundred microliters of cells suspension was added per well in a 96-well plate (6 × 104 cells per well), and cultured at 37 °C for 4 d. Naive CD4+ T cells were isolated from human PBMCs using the MACS human naive CD4 T-cell isolation kit II (Miltenyi Biotec, 130-094-131). Generated iTreg cells were confirmed using a staining antibody mixture against human CD4 (Biolegend, 317408), CD25 (Biolegend, 356108), CTLA-4 (Biolegend, 349908), and FoxP3 (Biolegend, 320208). Pan-T cells were isolated from human PBMCs using a Pan T Cell Isolation Kit (Meltenyi, 130-096-535). The obtained pan-T cells were confirmed using staining mixture against human CD3 (Biolegend, 300406) and CTLA-4 (Biolegend, 369611). The iTreg and pan-T cells were labeled with Calcein AM (Invitrogen, C34851) and used in the ADCC assay.
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4

Comprehensive Immune Phenotyping by Flow Cytometry

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The antibodies used for immunofluorescence staining include CD4, CD11b, CD80, B220, DX5, TCR-β, and SiglecF (BD Biosciences). CD2, CD8, CD11c, CD28, CD40, CD48, CD86, CTLA-4, ICOS, IA/IE (MHCII), Ly6G, OX-40, and 4-1BB were from Biolegend, San Diego, CA. The catalog number and clone for each of the antibody used is included in Supplemental Table 2. Fluorochrome conjugated CD1d-tetramer (CD1d-Tet) loaded with glycolipid antigen (PBS57), or unloaded controls were provided by the NIH Tetramer Core Facility (Emory University, Atlanta, GA). Data was collected on a LSRII flow cytometer (BD Biosciences) and analyzed using FlowJo software (FlowJo LLC, Ashland, OR).
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5

Comprehensive TIL Phenotyping by Flow Cytometry

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Single-cell suspensions of tumor-infiltrating lymphocytes (TIL), draining lymph nodes (DLN), and spleens were prepared as previously described (10 (link)). Briefly, suspensions were prepared by mechanical dissociation, followed by density gradient centrifugation on an 80%/40% Percoll (GE Healthcare) gradient. Cells were Fc-blocked with purified rat anti-mouse CD16/CD32 (Clone: 2.4 G2, Becton Dickinson: BD) for 30 minutes in 4°C. Dead cells were discriminated using the LIVE/DEAD (LD) Fixable Near-IR Dead Cell Stain Kit (Thermo Fisher Scientific) and samples were stained with the following antibodies: CD3 (Clone 17A2, BioLegend), CD4 (Clone RM4-5, Thermo Fisher Scientific), CD8a (Clone 53-6.7, BioLegend), Foxp3 (Clone FJK-16s, eBioscience), CCR4 (Clone 2G12, BioLegend), 4-1BB (Clone 17B5, BioLegend), Ki-67 (Clone SolA15, BioLegend), CTLA-4 (Clone UC10-4B9, BioLegend), and Helios (Clone 22F6, BioLegend). Stained samples were analyzed on an LSR II flow cytometer (BD). Flow data were quantified using FlowJo software.
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6

Comprehensive Mouse Spleen and Bone Marrow Immunophenotyping

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Briefly, mouse spleens and BM were collected and dissociated through a 40μm strainer to produce a single cell suspension. Red blood cells were lysed using 0.86% ammonium chloride (Sigma). Cells were counted, washed in flow cytometry buffer (1% BSA (Sigma), 2mM EDTA (Invitrogen) in PBS. FcR were blocked with 2.4G2 (BioXCell) and Rat IgG (Invitrogen) while staining with McAb at 40 for 30 minutes. Intracellular staining was carried out using the eBioscience kit. Samples were acquired using a FACSCanto II or LSRFortessa flow cytometer (BD Biosciences) and analyzed with FlowJo software (Tree Star, Inc.). The following mAb against mouse antigens were used as FITC, PE, PerCP-Cy5.5, PE-Cy7, allophycocyanin (APC), APC-ef780, Pacific blue, AF450, AF700, PE Texas Red, or biotin conjugates: FcεRI, AA4.1, CD23, CD43, IgM, FcγRII/III, ckit, Sca-1, CD34, CD138, CD45R (B220; RA3-6B2), CD278 (ICOS; C398.4A), IgD (11–26) (eBioscience), CD4 (RM4–5), CD8a (53–6.7), CD95 (Fas; Jo2), CXCR5 (2G8) (BD Biosciences), CD3 (17A2), CD19 (6D5), Foxp3, CTLA-4, Siglec F, CD11b, F4/80, TCRβ, Gr-1, FcεRI, and CD279 (PD-1; J43) (Biolegend). Biotinylated antibodies were detected using PerCP-Cy5.5– (BD Biosciences) or APC-conjugated streptavidin (eBioscience). FITC or biotin-conjugated PNA was obtained from Vector Laboratories. Plots shown are on a Logicle scale.
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7

Multiparametric Flow Cytometry Analysis

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For surface receptor expression, cells were stained with mAbs for the following receptors: CD3, CD4, CD28, CD25, TCR Vβ, CTLA4, PD1, Lag-3, Tim-3 and CD40L (Biolegend). Live cell staining was performed with LIVE DEAD fixable violet or yellow dead cell stain (eBioscience). Cells were fixed and permeabilized with BD Cytofix Cytoperm kit (BD PharMingen) according to the manufacturer’s instructions before flow cytometry. Intracellular cytokine staining was performed with anti-FoxP3 and anti-CTLA4. For apoptosis assays, cells were stained with Annexin V eFluor 450 and LIVE DEAD yellow fixable dead cell stain. For LAM staining assays, CD4+ T cells pretreated with LAM were harvested and stained with anti-LAM mAb (Cs35-biotin) or biotin mouse IgG3, k isotype control (BD Biosciences) for 30 min, followed by streptavidin-alexafluor-488 for 30 min on ice. For GRAIL expression, cells were stained for intracellular GRAIL using rabbit anti-GRAIL primary antibody (Abcam) followed by goat anti-rabbit IgG-FITC secondary antibody (southern Biotech). After staining, cells were analyzed by flow cytometry on an LSR II (BD Biosciences) and data analyzed with FlowJo software (TreeStar).
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8

Multiparametric Immune Profiling of T Cells

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Cells were stained with CD3 (BioLegend, clone: HIT3a), CD8 (BioLegend, clone: SK1), CD45RO (BioLegend, clone: UCHL1), T-bet (BioLegend, clone: 4B10), Eomes (R&D Systems, clone: 644730), NFATC1 (BioLegend, clone: 7A6), PD-1 (BioLegend, clone: EH12.2H7), TIM-3 (BioLegend, clone: F38-2E2), CTLA4 (BioLegend, clone: L3D10), LAG3 (BioLegend, clone: 11C3C65), Bcl-XL (Abcam, clone:7B2.5), FABP5 (R&D Systems, clone: 311215),CPT1α (Proteintech, 15184-1-AP), CD137 (BioLegend, clone: 4B4-1), mito Tracker Red CMXROS (Invitrogen, M7512), TMRM (Invitrogen, M20036), LIVE/DEAD Viability/Cytotoxicity Kit (Invitrogen, L3224), CD27 (BioLegend, clone: M-T271), CD127 (eBioscience, clone: eBioRDR5), IFNγ (BD Pharmingen, clone: B27), TCF7 (BioLegend, clone: 7F11A10), IRF4 (BioLegend, clone: IRF4.3E4), Blimp1 (BD Pharmingen, clone: 6D3), BCL2 (Cell Signaling Technology, clone: 124), Ki67 (Abcam, clone: B126.1), PPARγ (Abcam, clone: EPR18516), Annexin V (BD Pharmingen, 556547), CFSE (BD Pharmingen, 565082), KLRG1 (BioLegend, clone: 2F1/KLRG1), as well as BODIPY 493/503 (Invitrogen, D3922) and BODIPY FL C16 (Invitrogen, D3821). For intracellular staining, cells were given PMA/ionomycin (BioLegend, 423303) re-stimulation and then intracellular staining was performed as previously described.6 (link) FACS analysis was performed on a BD FACS Aria II flow cytometer and analyzed by FlowJo V.6 software.
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9

Monoclonal Antibody Profiling of Immune Checkpoints

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The following monoclonal antibodies were used to evaluate surface expression on PBMCs and allergen-specific TCC: PD-1-PE (EH12.2H7), BTLA-PE (MIH26), CD4-PE (OKT4) and appropriate isotype controls (MOPC-21) all purchased from Biolegend (San Diego, CA). LAG-3-PE (3DS223H) and CTLA-4-PE (14D3) were purchased from eBioscience (San Diego, CA). Cells were stained in FACS buffer (PBS, 1% BSA, 0.1% NaN3) for 30 min. For immune checkpoint stainings, 10 mg/mL Beriglobin (CSL Behring) were added to prevent unspecific binding to Fc-receptors. Exclusion of dead cells from analysis was done using 7-AAD (Biolegend) where appropriate. Intracellular CTLA-4 expression was determined using the Cytofix/Cytoperm kit from BD Biosciences according to the manufacturer’s instructions.
To assess the effect of coinhibitory pathways, the following monoclonal blocking antibodies were added at a final concentration of 8 μg/ml: functional grade PD-1 (EH12.2H7; LEAF), PD-L1 (29E.2A3; LEAF) and PD-L2 (MIH18; LEAF) from Biolegend, CTLA-4 (Ipilimumab, Yervoy), BTLA, LAG-3 and a mouse IgG1 κ isotype control antibody (MOPC-21; LEAF, Biolegend). Blocking antibodies to BTLA and LAG-3 was described previously35 (link). Flow cytometry analysis was performed using FACSCalibur and LSRFortessa flow cytometers (BD Bioscience). FlowJo software (version 10.0.6., Tree Star, Ashland, OR) was used for data analysis.
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10

Murine Immune Cell Phenotyping

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Murine antibodies against the following proteins were obtained from Biolegend: CD4 (RM4-5), CD8 (53-6.7), Foxp3 (150D), CD44 (1M7), CD62L (MEL-14), IFNγ (XMG1.2), TNFα (MP6-XT22), IL-17A (TC11-18H10.1), IL-2Rα (PC61), CD103 (2E7), CTLA4 (UC10-4B9), CD39 (24DMS1), CD73 (TY/11.8), GITR (DTA-1), GFP (FM264G), and Ki67 (16AB). For intracellular detection of cytokines, splenocytes were stimulated ex vivo with PMA (Sigma) and ionomycin (Sigma) in the presence of Brefeldin A (Sigma) for 4 hours at 37°C; cells were fixed and permeabilized with the Foxp3 Transcription Factor Fixation/Permeabilization kit (eBioscience) prior to intracellular staining. All samples were analyzed on an Accuri C6 or LSRFortessa (BD Biosciences).
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