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5 protocols using cd14 af488

1

Multiparametric Flow Cytometry Analysis

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The following antibodies were used: Vα7.2‐PE, Vα7.2‐FITC, CD3‐PECy7, CD8‐PE, CD14‐AF488, CD80‐PECy7, CD86‐PerCPCy5.5, HLA‐A2‐PE, HLA‐DR‐FITC, IFN‐γ‐PerCPCy5.5 (Biolegend, London, UK), CD161‐APC, IFN‐γ‐FITC, HA‐PE (Miltenyi Biotec), CD8‐eFluor450, CD54‐APC (eBioscience). Samples were stained with Live/Dead Fixable Near IR dye (Invitrogen, Paisley, UK). Anti‐MR1 antibody (clone 26.5) and an isotype control (IgG2A, R&D Systems) were labeled with an AlexaFluor488‐conjugated anti‐mouse IgG Fab fragment (Jackson ImmunoResearch, West Grove, PA, USA), as previously described 40, 41. The reaction was quenched with normal mouse immunoglobulin (Sigma‐Aldrich). In some experiments, where indicated in the figure legend, anti‐MR1‐PE (clone 26.5) and an IgG2A‐PE isotype control were used (both Biolegend).
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2

Flow Cytometry Analysis of Activated Immune Cells

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The activated/rested cells were plated into a 96-well round bottom plate and pelleted at low speed. Cells were resuspended in chilled media containing titrated HS-131 or HS-198 (in 1% DMSO) and stained for 30 min at RT. Fluorochrome tagged inhibitors and media were washed away with a PBS wash, followed by a PBS wash containing 3% NMS. Surface antibody stains were performed in 3% NMS/PBS for 30 min followed by PBS washes (2×) (Table 2). Samples were analyzed on BD FACSCanto II flow cytometer. Permeabilized samples were prepared as previously described followed by fixation in 4% Formaldehyde/PBS overnight at 4 °C. Minimum gating of 2X105 cells/sample. Sample analysis was performed with Flowing Software and FlowJo.

Flow cytometry antibodies.

AntibodyTarget and fluorManufacturerConcentration
300434CD3- BV421BioLegend1:200
302616CD25-AF488BioLegend1:200
423113Viability-BV421BioLegend1:1000
423102Viability-BV510BioLegend1:1000
310903CD69-FITCBioLegend1:200
302605CD25-PEBioLegend1:200
561105Ly6G-AF488BD Biosciences1:500
103139CD45-BV605BioLegend1:800
563415IA/IE-BV650BD Biosciences1:1500
103121CD45-AF488BioLegend1:1000
300454CD3-AF488BioLegend1:1000
301817CD14-AF488BioLegend1:1000
400625Rat IgG2b Isotype ControlBioLegend1:1000
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3

Profiling Interferon Signaling in Down Syndrome

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Phospho-STAT1 staining: Whole blood from individuals with DS and healthy controls were subject to Ficoll gradient to collect the mononuclear cell layer (PBMC) and frozen. For direct stimulation, thawed PBMCs were incubated in complete RPMI overnight, washed, stained with live-dead in PBS for 10 min at 37°C, and finally were stimulated for 15 min with indicated amounts of IFNα2b. For staining, cells were washed 2 times with 0.5% BSA and surface-stained on ice for 30 minutes (CD16-AF647, CD14-AF488, CD3-BV510, CD19-AF700, CD56-BV711, all from Biolegend) followed by fixation/permeabilization in 90% ice-cold methanol and staining with PE anti-phospho-STAT1 Y701 (1:25, BD).
IFNAR1 and IFNAR2 staining: hTERT-immortalized fibroblasts were scraped off in 5mM EDTA, washed, and stained with live-dead in PBS for 30 min on ice. They were then washed and stained with anti-IFNAR1 (clone AA3, courtesy of Sandra Pellegrini in Supplemental Fig 1A and clone MARI-5A3 from Millipore Sigma for Supplemental Fig 3A) or anti-IFNAR2 (PBL) for 2 hours on ice. The cells were washed and stained with biotin-conjugated rat anti-mouse IgG (H+L) (Thermo Fisher) for 40 min on ice, followed by PE-conjugated Streptavidin for 10 min on ice.
Flow cytometry was acquired on a Cytek Aurora or BD LSR Fortessa, and data were analyzed with Cytobank (https://www.cytobank.org/).
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4

PBMC Immunophenotyping and ZIKV Infection

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Surface staining of PBMCs were performed with the following antibodies: CD45-BV421 (clone HI30, Biolegend), CD14-AF488 (clone M5E2, Biolegend), CD56-PerCP-Cy5.5 (clone 5.1H11, Biolegend), CD3-AF647 (clone HIT3a, Biolegend) and CD19-PerCP (clone HIB19, Biolegend). PBMCs specimens were either sorted based on surface markers expression using BD LSR III (BD) or proceed on to intracellular ZIKV staining for detection of ZIKV-infected cells. Indirect intracellular ZIKV staining was performed using pan flavivirus antibody (clone D1-4G2-4-15, EMD Millipore), followed by fluorescence-conjugated secondary antibody. For profiling of monocyte subsets, separate surface staining for CD45-BV421, CD14-AF488 and CD16-AF647 (clone 3G8, Biolegend) were performed on PBMCs. All fluorescence-conjugated antibodies were purchased from Biolegend. FACS acquisitions were performed on BD FACSCanto II (BD), using BD FACSDIVA software. All FACS data was analyzed using FlowJo software.
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5

PBMC Immunophenotyping and ZIKV Infection

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Surface staining of PBMCs were performed with the following antibodies: CD45-BV421 (clone HI30, Biolegend), CD14-AF488 (clone M5E2, Biolegend), CD56-PerCP-Cy5.5 (clone 5.1H11, Biolegend), CD3-AF647 (clone HIT3a, Biolegend) and CD19-PerCP (clone HIB19, Biolegend). PBMCs specimens were either sorted based on surface markers expression using BD LSR III (BD) or proceed on to intracellular ZIKV staining for detection of ZIKV-infected cells. Indirect intracellular ZIKV staining was performed using pan flavivirus antibody (clone D1-4G2-4-15, EMD Millipore), followed by fluorescence-conjugated secondary antibody. For profiling of monocyte subsets, separate surface staining for CD45-BV421, CD14-AF488 and CD16-AF647 (clone 3G8, Biolegend) were performed on PBMCs. All fluorescence-conjugated antibodies were purchased from Biolegend. FACS acquisitions were performed on BD FACSCanto II (BD), using BD FACSDIVA software. All FACS data was analyzed using FlowJo software.
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