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24 protocols using anti cd11c clone n418

1

FcγR-Mediated BMDC Maturation and Cytokines

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To assess FcγR dependent BMDC maturation, ova ICs were added directly to culture wells on day 6–7 of culture; ova or rabbit anti-ova alone were used as controls. 24 hours later, BMDCs were harvested, washed, blocked with a non-fluorescent FcγRII/III antibody (clone 2.4G2, BioLegend) and stained for cell surface expression of CD54, CD80, CD86 and MHCII I-Ab (clones YN1/1.7.4, 16-10A1, GL-1 and AF6-120.1 respectively, BioLegend). To identify live DCs, cells were also stained with anti-CD11c (clone N418, BioLegend) and a viability marker (Zombie Fixable Viability dye, BioLegend). Cells were washed with FACS buffer (5% FBS, 1 mM EDTA in PBS) and fixed using 1% paraformaldehyde (PFA, Electron Microscopy Sciences) in PBS prior to flow cytometry. Maturation marker expression was determined by gating on live CD11c+ singlets.
To determine FcγR induced cytokine production, BMDCs were harvested on day 7 of culture, counted and replated in 96 well round bottom plates at 2 × 105/well, and stimulated with ova, rabbit anti-ova, ova pre-incubated with rabbit IgG, or ova ICs for 3–24 hours, in the presence of polymyxin B (50 µg/ml, Sigma). Cell-free supernatants were removed and assessed for IL-6, TNFα, and IL-12/23p40 cytokine expression by immunoassay as per the manufacturer’s instructions (BioLegend).
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2

Comprehensive Immune Profiling of Tumor Microenvironment

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Tumors enzymatically digested by ± 2.3 Wunsch units / ml Liberase TL (Roche, Basel, Switzerland) and tumor draining lymph nodes were passed through 70 μm cell strainers. The generated single cell suspensions were stained with the live/dead marker Zombie Aqua (Biolegend, San Diego, CA, USA) and subsequently blocked for unspecific binding to CD16/32 (TruStain fcX, Biolegend). In order to investigate different myeloid cell populations and endothelial cell activation the following antibodies were diluted in FACS buffer (1% FCS, 0.02% NaN3 and 3 mM EDTA in PBS): anti-CD11b (clone M1/70, Biolegend), anti-CD11c (clone N418, Biolegend), anti-B220 (clone RA3-6B2, Biolegend), anti-CD86 (clone GL-1, Biolegend), anti-CD45 (clone 30-F11, Biolegend), anti-Gr1 (clone RB6-8CS, Biolegend), anti-Ly6C (clone HK1.4, Biolegend), Ly6G (clone 1A8, Biolegend), ICAM-1 (clone YN1/1.7.4, Biolegend), VCAM-1 (clone MVCAM.A, Biolegend) and CD31 (clone MEC 13.3, BD Biosciences, Franklin Lakes, NJ, USA). Samples were washed with FACS-buffer and analyzed in a FACSCanto II cytometer (BD Biosciences, Franklin Lakes, NJ, USA). Data analysis was performed with FlowJo software (TreeStar, Ashland, OR, USA).
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3

Phenotypic Analysis of BMDC Maturation

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For phenotypic analysis cell from BMDC cultures were harvested by repeated pipetting and centrifuged at 350 g to include moderately adherent and smaller cells. The cells were then blocked one ice in FACS buffer (1% FBS and 0.5 mM EDTA in PBS) with anti-CD16/CD32 antibody (Fc Block, BD Pharmingen). Cells were then stained with anti-CD11c (clone N418, Biolegend), CD11b (clone M1/70, Biolegend), MHCII I-A/I-E (clone M5/114, Invitrogen), CD40 (clone 1C10, Invitrogen), CD80 (clone 16-10A1, Invitrogen) and/or CD86 (clone GL1, Invitrogen) antibodies in FACS buffer, fixed with 2% PFA and analyzed on a BD LSRFortessa flow cytometer (BD Biosciences). For maturation experiments BMDCs were challenged with freshly egressed T. gondii tachyzoites (PRU-RFP, MOI 1, infection frequencies ranged between 15 and 30%) or 100 ng/mL LPS or left unchallenged for 24 h.
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4

Immunohistochemistry of Influenza A Virus

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Tissues were processed as previously described51 . Briefly, tissues were fixed in paraformaldehyde (PFA), lysine, and sodium periodate buffer (PLP, 0.05M phosphate buffer, 0.1M L-lysine, pH 7.4, 2 mg/mL NaIO4, and 10mg/mL PFA) overnight at 4°C followed by 30% sucrose overnight at 4oC and subsequent embedding in OCT media. Frozen tissues were sectioned at 20μm using Leica CM3050S cryostat, and FcR blocked with anti-CD16/32 Fc-block (Clone 93, BioLegend) diluted in PBS containing 2% donkey serum, 2% fetal bovine serum (FBS), and 0.1% Triton-X for 1h at 25oC. Sections were stained with anti-CD8α (Clone 53–6.7, BD Bioscience), anti-EpCAM (clone G8.8, eBioscience), anti-Influenza A virus (polyclonal, Abcam) and anti-CD11c (clone N418, BioLegend) diluted in PBS containing 2% goat serum, 2% FBS, 0.1% Triton-X, and 0.05% Fc block for 1h at 25oC. Images were acquired using a Zeiss LSM 880 confocal microscope (Carl Zeiss) with the Zen Black software. The imaging data were processed and analyzed using Imaris software version 9.0.1 (Bitplane, Oxford Instruments).
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5

Immunohistochemistry of Influenza A Virus

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Tissues were processed as previously described51 . Briefly, tissues were fixed in paraformaldehyde (PFA), lysine, and sodium periodate buffer (PLP, 0.05M phosphate buffer, 0.1M L-lysine, pH 7.4, 2 mg/mL NaIO4, and 10mg/mL PFA) overnight at 4°C followed by 30% sucrose overnight at 4oC and subsequent embedding in OCT media. Frozen tissues were sectioned at 20μm using Leica CM3050S cryostat, and FcR blocked with anti-CD16/32 Fc-block (Clone 93, BioLegend) diluted in PBS containing 2% donkey serum, 2% fetal bovine serum (FBS), and 0.1% Triton-X for 1h at 25oC. Sections were stained with anti-CD8α (Clone 53–6.7, BD Bioscience), anti-EpCAM (clone G8.8, eBioscience), anti-Influenza A virus (polyclonal, Abcam) and anti-CD11c (clone N418, BioLegend) diluted in PBS containing 2% goat serum, 2% FBS, 0.1% Triton-X, and 0.05% Fc block for 1h at 25oC. Images were acquired using a Zeiss LSM 880 confocal microscope (Carl Zeiss) with the Zen Black software. The imaging data were processed and analyzed using Imaris software version 9.0.1 (Bitplane, Oxford Instruments).
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6

Identification and Quantification of ILC2 in BALF

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Cells were analyzed by flow cytometry following staining with live/dead aqua dyes (Live/Dead fixable aqua dead cell stain kit, Invitrogen, 1/1000) and antibodies specific for the following markers: anti-TCRβ (clone H57-597, 5.0 μg/ml) from BioLegend; anti-CD45R/B220 (clone RA3-6B2, 1.0 μg/ml), anti-CD2 (clone RM2-5, 0.8 μg/ml), anti-CD25 (clone PC61, 1.0 μg/ml), anti-CD90.2 (clone 53-2.1, 2.5 μg/ml), and anti-CD11b (clone M1/70, 0.3 μg/ml) antibodies from BD Pharmingen; anti-CD45.2 (clone 104, 0.5 μg/ml) from eBioscience. ILC2 were gated as CD45+, CD2 TCRb B220 CD11b, CD90+ and CD25+ cells in a similar manner to that described by Roediger et al.10 (link). Bronchoalveolar lavage fluid (BALF) cells were additionally labeled using anti-Siglec F (clone E50-2440, 2.0 μg/ml), from BD Pharmingen; anti-Gr-1 (clone RB6-8C5, 0.4 μg/ml), anti-CD8 (clone 53-6.7, 5.0 μg/ml), anti-CD4 (clone GK1.5, 1.0 μg/ml), anti-CD3 (clone 2C11, 1.0 μg/ml) from eBioscience; and anti-CD11c (clone N418, 2.5 μg/ml) from BioLegend.
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7

Isolation and Characterization of Murine Mast Cells

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Ears were harvested and separated into dorsal and ventral halves using forceps. For epidermal removal, the skin was incubated epidermis-down in 1.2 mg/ml Dispase II (Roche) at 37°C. After an hour, the epidermal layer was peeled off the dermis. To release cells, skin were torn into small fragments and digested for 1 h in 1 mg/ml collagenase D, 0.5 mg/ml type 2 hyaluronidase and 20 ug/ml Dnase 1 (all from Roche) at 37°C. Tissues were passed through a cell strainer and washed in PBS containing 3% FBS. Isolated cells were then stained for flow cytometry or cell sorting using anti-CD3 (clone 2C11, 1.0 µg/ml), anti-CD45R/B220 (clone RA3-6B2, 1.0 µg/ml), and anti-CD117 (cKit clone 2B8, 1.25 µg/ml) antibodies from BD Pharmingen, and anti-CD45.2 (clone 104, 0.5 µg/ml), anti-FcεRIα (clone MAR-1, 0.5 µg/ml) antibodies and streptavidin PE (0.4 µg/ml) from eBioscience, and anti-CD11c (clone N418, 2.5 µg/ml) from BioLegend. MCs were gated as CD45.2+, CD3, B220, CD11c, cKit+ and FcεR1α+. For mRNA isolation, sorted MCs were directly collected into lysis buffer (Bioline ISOLATE II RNA Micro Kit).
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8

Comprehensive Lung Cell Characterization

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Lung tissue was harvested as indicated and single cell suspension were prepared using a metal mesh. Absolute cell numbers were counted with a Neubauer chamber. Single-cell suspensions of the lungs respectively collected BAL fluid cells were incubated with CD16/CD32 Fc block (clone 93, BioLegend, 101310) to inhibit unspecific antibody binding. For flow cytometry, cells were stained with the following antibodies: anti-B220/CD45R (clone RA3-6B2, eBioscience, 45-0452), anti-CD3ε (clone 145-2C11, BioLegend, 100320), anti-CD11b (clone M1/70, BioLegend, 101206), anti-Ly-6G (clone 1A8, eBioscience, 17-9668), anti-CD45 (clone 30-F11, BioLegend, 103137), anti-CD11c (clone N418, Biolegend, 117333) and anti-SiglecF (clone E50-2440, BD, 562681). To exclude dead cells from the analysis, the samples were labeled with the Fixable Viability Dye eFluor 780 (eBioscience, 65-0865).
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9

Tumor-Infiltrating Immune Cell Analysis

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Tumors were harvested and dissociated into single-cell suspensions. Then, cells were blocked with anti‐FcR (clone 2.4 G2, BD Pharmingen) and labeled with indicated surface markers for 30 min at 4°C. For IFN-γ staining, single-cells were cultured in the presence of a cell activation cocktail (with Brefeldin A) (Biolegend) for 5 h. Cells were permeabilized and stained with intracellular antibodies for 30 min at 4°C as instructed by the manufacturer. Dead cells were excluded using LIVE/DEAD Fixable Dead Cell Stain Kit (Invitrogen). The antibodies used in the flow cytometry analysis were: anti-CD45 (clone 30-F11, Invitrogen), anti-CD3 (clone 145–2C11, Biolegend), anti CD4 (clone RM4-5, Biolegend), anti-CD8 (clone 53–6.7, Biolegend), anti-IFN-γ (clone XMG1.2, Biolegend), anti-CD11C (clone N418, Biolegend), anti-CD80 (clone 16–10A1, Biolegend), and anti-CD86 (clone GL1, Invitrogen). Because the specific reaction with ovalbumin-derived peptide SIINFEKL bound to H-2 Kb of MHC class I, anti–H-2kb bound to SIINFEKL (clone 25-D1.16, Biolegend) was used to recognize the tumor specific immune cells. Flow cytometry was performed on the FACS Aria III platform (BD Biosciences, San Jose, CA, USA) and results analyzed using FlowJo software version 10.4 (TreeStar).
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10

Comprehensive Lung Cell Characterization

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Lung tissue was harvested as indicated and single cell suspension were prepared using a metal mesh. Absolute cell numbers were counted with a Neubauer chamber. Single-cell suspensions of the lungs respectively collected BAL fluid cells were incubated with CD16/CD32 Fc block (clone 93, BioLegend, 101310) to inhibit unspecific antibody binding. For flow cytometry, cells were stained with the following antibodies: anti-B220/CD45R (clone RA3-6B2, eBioscience, 45-0452), anti-CD3ε (clone 145-2C11, BioLegend, 100320), anti-CD11b (clone M1/70, BioLegend, 101206), anti-Ly-6G (clone 1A8, eBioscience, 17-9668), anti-CD45 (clone 30-F11, BioLegend, 103137), anti-CD11c (clone N418, Biolegend, 117333) and anti-SiglecF (clone E50-2440, BD, 562681). To exclude dead cells from the analysis, the samples were labeled with the Fixable Viability Dye eFluor 780 (eBioscience, 65-0865).
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