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17 protocols using cd4 vioblue

1

Flow Cytometric Analysis of Dendritic and T Cell Markers

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For the analysis of DC surface molecules, DCs were stained with APC-conjugated human anti-CD80, PEVio770-CD83, FITC-CD86, PE-CD14, and VioBlue-HLA-DR monoclonal antibodies (Miltenyi Biotech, Bergisch Gladbach, Germany). T cell surface molecules were analyzed with APC-conjugated human anti-CD8 and VioBlue-CD4 (Miltenyi Biotech, Germany), while proliferation was measured with CFSE. In order to avoid unspecific antibody binding, all cytometry samples were previously blocked using FcR Blocking Reagent (Miltenyi Biotech, Germany). Flow cytometry was conducted on a MACSQuant cytometer, and data analysis was performed using the MACSQuantify software v2.13 (Miltenyi Biotech, Germany). The gating strategy is presented in Figure 3 and Figure 5.
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2

Comprehensive Immune Cell Profiling

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Cells were stained according to standard procedures using the following antibodies (clone, manufacturer): PerCP/APC-CD3 (SK7, BD), Vioblue-CD4 (VIT4, Miltenyi Biotec Germany), APC-H7-CD8α (SK1, BD), FITC/APC-CD62L (LT-TD180, ImmunoTools), APC-CD25 (2A3, BD Pharmingen), PE-CF594-A-CCR7 (150503, BD), CD45RO, PE-Cy7-CD45RA (H/100, BD), CD27, UV1-A-CD25, APC-CD69 (FN50, Biolegend), CD276, UV3-CD28, CD95. Intracellular fixation/permeabilization kit (eBioscience) and Brilliant-Violet 785-TNF-α (MAb11), PE-IFN-γ (B27) were used for intracellular cytokine staining according to the manufacturer’s instructions. Dead cells were excluded via Alexa Fluor 350 (Invitrogen) or via Zombie Aqua™ (Biolegend). PBMCs were pretreated with FcR Blocking Reagent (Miltenyi Biotec) according to the manufacturer’s recommendations. Samples were analyzed on a LSR II or FACS Canto II with FACS Diva software (BD Biosciences).
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3

Single-cell expansion and antigen-specific T-cell analysis

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Up to 4 biopsies per patient were pooled and digested in 1 mL of Hanks’ balanced salt solution Ca2+Mg2+ (Gibco) supplemented with 0.5% (v/v) human AB-serum, 100 IU ml−1 of penicillin, 100 µg ml−1 of streptomycin, 0.25 µg ml−1 of amphotericin B, 10 IU ml−1 of DNase I (CellSystems) and 1 mg ml−1 of collagenase type CLS IV (Biochrom) for 30 min at 37 °C while shaking. Cells were filtered through a 40-µm cell strainer to remove aggregates and stained with fluorochrome-conjugated antibodies to CD4-VioBlue, CD3-PE, CD8-PerCP, CD14-PerCP, CD20-PerCP, CD45RO-APC and CCR7-PE-Vio770 (all Miltenyi Biotec). Each 200 CD3+CD4+CD45RO+ cells were sorted in multiple wells of a 96-well plate containing irradiated allogeneic feeder cells in TexMACS medium, supplemented with 5% (v/v) human AB-serum, 200 U ml−1 of IL-2 and 100 IU ml−1 of penicillin, 100 µg ml−1 of streptomycin, 0.25 µg ml−1 of amphotericin B at a density of 2 × 105 cells cm−2. Cells were polyclonally expanded for 4 weeks in the presence of 30 ng ml−1 of anti-CD3 (OKT-3; Miltenyi Biotec). Restimulation with different fungal lysates was performed as described above. To calculate the frequencies of reactive T cells, the mean values were calculated for each antigen and divided by the number of input wells.
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4

Analyzing Tumor Immune Microenvironment

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To study the immune cells in distant tumors, right tumors were harvested from mice in different groups (n = 5) and stained with Viobility 405/520 Fixable Dye (Miltenyi), CD45.2 APC-CY7 (Biolegend, Clone: 104), CD3e FITC (Biolegend, Clone: 17A2), CD8a PE-vio615 (Miltenyi, Clone: REA601), PD-1 PE (Biolegend, Clone: 29F.1A12), TIM3 APC (Miltenyi, Clone: REA602), CD4 VioBlue (Miltenyi, Clone: REA604), and Foxp3 Alexa Fluor 700(Biolegend, Clone: MF-14.1A12) antibodies, according to the manufacturer's protocols.
Briefly, tumor tissues were cut into small pieces and digested with collagenase and DNase. Then, cell suspension was filtered through a 75-μm cell mesh and resuspended in PBS (pH 7.4) with 0.5% FBS for further analysis. Flow cytometric analysis was performed using a FACS LSRFortessa flow cytometer (BD).
Tumor-infiltrating cytotoxic T lymphocytes (CTL) and helper T cells were CD45+CD3+CD4CD8+ and CD45+CD3+CD4+CD8, respectively. Then, the expressions of PD-1 and TIM-3 in cytotoxic T lymphocytes were analyzed. Further, CD4+ helper T cells were classified into regulatory T cells (Tregs) (CD3+CD4+Foxp3+) and effective T cells (CD3+CD4+Foxp3).
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5

Multi-Parameter Flow Cytometry Analysis

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Flow cytometry was performed on a 4-laser BD LSRII (BD Biosciences), with subsequent analysis executed using FlowJo v.10 (TreeStar). Cells were stained according to the manufacturer’s instructions with Mouse TCR β constant-APC (clone H57-597, BioLegend, catalog no. 109211), Human TCRα/β PerCP-Vio 700 (clone REA652, Miltenyi Biotec, catalog no. 130-113-540), PD1-PE (clone PD1.3.1.3, Miltenyi Biotec, catalog no. 130-117-384), CD4-VioBlue (clone REA623, Miltenyi Biotec, catalog no. 130-114-534), and CD45-VioGreen (clone REA747, Miltenyi Biotec, catalog no. 130-110-638).
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6

Modulation of T Cell Activation by MSCs

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3 × 104 WT or TNFR2 KO-MSCs were co-cultured in 12-well plates with increasing numbers of mice WT-CD3+CD25T cells in a total volume of 2 ml. The ratios of MSCs to T cells were 1/1, 1/2, 1/4, 1/6, 1/8, and 1/10. 2 × 105 WT-CD3+CD25T cells were used as control T cells alone. T cells were stimulated with Dynabeads Mouse T-Activator CD3/CD28 (Gibco). For the condition using T cells from TNFα KO mice, 3 × 105 TNFα KO CD3+CD25T cells were activated with Dynabeads Mouse T-Activator CD3/CD28 and co-cultured with 3 × 104 WT-MSCs (1/10 ratio MSCs/T cells). After 3 days, T cells were collected and immunostained using the following Abs: CD4-VIOBLUE, CD8α-FITC, CD25-PE-Cy7, CTLA4–PE, TNFR2-APC (Miltenyi), and Foxp3-PE-Cy5 (eBioscience).
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7

Assessing MSC-Mediated T Cell Suppression

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5 × 104 WT or TNFR2 KO-MSCs were co-cultured in 6-well plates with increasing numbers of mice WT-CD3+CD25T cells (responder cells) in a total volume of 3 ml. The ratios of MSCs to T cells were 1/1, 1/2, 1/4, 1/6, 1/8, and 1/10. 2 × 105 WT CD3+CD25T cells were used as control T cells alone. Cells were labeled with carboxy fluorescein succinimidyl ester (CFSE) (Thermo Fisher) and stimulated by Dynabeads Mouse T-Activator CD3/CD28 (Gibco) according to the supplier’s protocol. After 3 days, T cells were collected and immunostained with CD4-VIOBLUE and CD8α-PeCy7 (Miltenyi). To eliminate the possibility of a non-specific effect of media on T cell proliferation, T cells were cultured in 50% RPMI-50% MEMα and compared to growth in 100% RPMI.
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8

Immunophenotyping of T Helper Subtypes

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TH1 and TH17 cells were restimulated using Cell Stimulation Cocktail and PTI diluted in mouse T-cell culture medium for 2 hours at 37°C under 5% CO2. All cells were stained with Fixable Viability Dye eFluor 780 (eBioscience) or LIVE/DEAD Fixable Blue Dead Cell Stain Kit, for UV excitation and CD4 Vioblue (clone REA604, Miltenyi Biotec). IL-9-GFP expression in TH9 cells was assessed by flow cytometry directly after extracellular staining. As for TH1 and TH17 cells, IFN-γ and IL-17 intracellular staining was performed using the Fixation/Permeabilization Solution Kit (BD Biosciences) and anti-IFN-γ APC antibody (clone AN.18.17.24, Miltenyi Biotec) or anti-IL-17 BV605 (clone TC11-18H10, BD Bioscience), respectively. Cells were analyzed using a BD FACSCANTO cytometer or a BD LSRFORTESSA cytometer equipped with BD FACSDiva software, and data were analyzed using FlowLogic software. Gating strategies are presented in online supplemental figure S1C–E.
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9

Profiling T Cell Responses in MSC Co-culture

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3 × 104 WT or TNFR2 KO-MSCs were co-cultured in 12-well plates with 1.5 × 105 (1/5 ratio) of fresh mice WT CD3+CD25T cells in a total volume of 2 ml. After 3 days, WT-CD3+CD25T cells were harvested. Cells were then stimulated with 1 μg/ml PMA and 0.5 μg/ml ionomycin for 4 h and 30 min (Sigma), in the presence of 1 μl/ml GolgiPlug for the last hour (BD Biosciences). They were then immunostained with CD4-VIOBLUE, CD8α- Pe-Cy7, IFNγ-APC, TNFα-FITC, IL-10-APC, IL-17-PE, IL-2-FITC (Miltenyi), and anti-TGFβ-PE (Biolegend).
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10

Immunophenotyping of PBMC and T-cells

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Staining of cell surface markers on PBMC and T-cells was performed with CD3-APC/Vio770, CD4-Vioblue, CD8-Viogreen, CD19-FITC, CD56-PE/Vio770, CD16-PE, CD62L-Vioblue, CD45RA-PE, CD45RO-APC, and CCR7-FITC (Miltenyi, San Diego, CA; BD, Franklin Lakes, NJ). All samples were acquired on a MACSQuant Cytometry (Miltenyi) and the data analyzed with Flow Jo (Treestar, Ashland, OR).
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