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12 protocols using anti ter119 ter 119

1

Detailed Antibody Staining for Hematopoietic Cells

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The following antibodies (all from eBioscience, unless otherwise stated) were used: BM cell populations: anti-CD11b (M1/70) and anti-Gr1 (RB6-8C5). Assessment reciprocal BM chimeric mice: anti-CD45.1 (A20, BioLegend) and anti-CD45.2 (104). Hematopoietic stem and progenitor cells (HSPCs): anti-CD3ɛ (145-2C11), anti-CD4 (GK1.5, BioLegend), anti-CD8α (53-6.7, BioLegend), anti-B220 (RA3-6B2), anti-CD11b (M1/70), anti-Gr1 (RB6-8C5), anti-Ter119 (TER-119, BioLegend), anti-IL7Rα (A7R34), anti-NK1.1 (PK136, BioLegend), anti-cKit (2B8), anti–Sca-1 (D7, BioLegend), anti-CD34 (RAM34), anti-FcγR (93), anti-CD48 (HM48-1), and anti-CD150 (TC15-12F12.2, BioLegend). Classical and plasmacytoid dendritic cells: anti-CD3e (145-2C11), anti-CD19 (MB19-1), anti-NK1.1 (PK136; Becton Dickinson), anti-CD45RA (14.8; BD Biosciences), anti-CD11c (N418), and anti-MHCII (M5/114.15.2). BM non-hematopoietic BM stromal cells: anti-Sca1 (D7, BioLegend), anti-Ter119 (TER-119, BioLegend), anti-CD45 (30-F11, BioLegend), anti-CD31 (390), anti-CD105 (MJ7/18), and anti-CD140b (APB5). Interleukin-6 (IL-6) receptor α and β subunits: anti-CD126 (D7715A7, BioLegend) and anti-CD130 (KGP130).
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2

Analysis of Spleen and Lymph Node DCs

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Spleen and sLN DCs were analyzed as described elsewhere [23 (link),45 (link),46 (link)]. After density cut by 1.077 histopaque from digested spleen as shown in NK cell analysis, the light density fraction (<1.077 g/cm3) was collected and incubated for 30 min with the following FITC-conjugated monoclonal antibodies (mAbs): anti-CD3 (17A2), anti-Thy1.1 (OX-7), anti-B220 (RA3-6B2), anti-Gr1 (RB68C5), anti-CD49b (DX5), and anti-TER-119 (TER-119) (BioLegend, San Diego, CA, USA). The lineageCD11c+ cells were defined as DCs. Analysis was carried out on a FACS Aria II (Becton Dickinson, San Diego, CA, USA).
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3

Quantitative Analysis of T Follicular Helper Cell Migration

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For enrichment of CD4+ T cells, total splenocyte samples from WT and Rictor−/− mice at day 8 after infection with LCMV were subjected to depletion of cells that were positive for lineage markers (Lin+ cells) using biotin-conjugated antibodies [anti-CD8 (53–6.7), anti-B220 (RA3-6B2), anti-CD11c (N418), anti-Gr-1 (RB6-8C5), anti-TER119 (TER-119), and anti-NK1.1 (PK136), all from Biolegend] coupled to the BeaverBeads Mag500 Streptavidin Matrix (22302, Beaver). The surfaces of the Lin cells were then stained with anti-CD4, anti-CD44, anti-GITR, anti-CD25, and anti-CXCR5 to identify TFH cells. Next, 4 × 105 TFH cells from WT or Rictor−/− mice were loaded into the upper chamber of a 24-well transwell plate (5-µm pore, Corning), and 600 µl of chemotaxis medium supplemented with or without the CXCL13 (4 µg/ml, 4583906, Biolegend) was added to the lower chamber. The cells were allowed to migrate for 3 h in a 5% CO2 incubator at 37°C. Then, all the migrated cells were collected from the lower chamber, and the numbers of migrated TFH cells were determined by flow cytometry (FACS Canto II). Based on the absolute number of TFH cells, the “net migration (% of input)” was calculated as follows: Net migration (% of input) = (# of migrated TFH cells to CXCL13 − # of migrated TFH cells in the absence of CXCL13)/(# of TFH cells in the input sample).
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4

CD4+ T Cell Purification Protocol

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CD4 T cells were purified from pLNs + mLNs or thymi of the indicated mice by incubating cell suspensions on ice for 20 min with a mixture of anti-CD11b (Mac-1; BioLegend), anti-CD19 (1D3, BioXcell), anti-Ter119 (TER-119, BioLegend) and anti-CD8α (53–6.7) Ab obtained from hybridoma supernatant and then with magnetic beads coupled to anti-rat Igs (Dynal Biotech). Then, in some experiments (Fig. 2f–h; Fig. S4d, e; Fig. S7c–e), CD4N cells were sorted by flow cytometry as CD44-/low Foxp3-GFP- Lineage- (NK1.1 TCRγδ CD8β CD11b CD11c CD19 CD25) cells using a FACSAria III flow cytometer (BD Biosciences) and injected i.v. into recipient mice.
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5

Single-cell Immune Profiling by Flow Cytometry

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Single-cell suspensions were stained with the appropriate monoclonal antibody in phosphate-buffered saline containing 5% rat serum. When necessary, intracellular staining was performed using True-Nuclear Transcription Factor Buffer Set (BioLegend) according to the manufacturer’s instructions. CytoFLEX (Beckman Coulter, Brea, USA) and FACSAria III (BD Biosciences, San Diego, USA) were used for analysis and cell sorting, with dead cells excluded by the LIVE/DEAD Fixable Violet Dead Cell Stain Kit (Invitrogen, Carlsbad, USA). Antibodies specific for CD45 (30-F11), NK1.1 (PK136), mouse CD3 (17A2), CD56 (HCD56), human CD3 (UCHT1), CD11b (M1/70), CD27 (LG.3A10), KLRG1 (2F1/KLRG1), CD43 (S11), Ki-67 (16A8), c-Kit (2B8), CD122 (TM-β1), NKG2D (CX5), Lineage Cocktail (anti-CD3ε, 145-2C11; anti–Ly-6G/Ly-6C, RB6-8C5; anti-CD45R/B220, RA3-6B2; anti–TER-119, Ter-119; and anti-CD11b, M1/70), CD107a (1D4B), CD69 (H1.2F3), IFN-γ (XMG1.2), and perforin (S16009A) were purchased from BioLegend (San Diego, USA). Antibodies specific for phospho-S6 (N7-548) and phospho-AKT (Ser473) (M89-61) were purchased from BD Biosciences (San Diego, USA). Annexin V Apoptosis Detection Kit (BioLegend, San Diego, USA) was used to assess the levels of annexin V+ apoptotic cells according to the manufacturer’s instructions.
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6

Multicolor Flow Cytometry for Immune Cell Analysis

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The following antibodies were purchased from BioLegend (San Diego, CA): anti‐CD3e (145‐2C11), anti‐CD4 (RM4‐5), anti‐CD11b (M1/70), anti‐CD31 (390), anti‐CD45 (30‐F11), anti‐CD45R/B220 (RA3‐6B2), anti‐CD169 (3D6.112), anti‐F4/80 (BM8), anti‐MAdCAM‐1 (MECA‐367), anti‐Syrian hamster biotin (Poly4056) and anti‐TER119 (TER119). Anti‐CD35 (8C12) and anti‐CD16/32 (2.4G2) were purchased from BD Biosciences. Streptavidin Alexa Fluor 594, Alexa Fluor 488 and Alexa Fluor 647 were purchased from ThermoFisher Scientific. Anti‐podoplanin/GP38 (8.1.1) was purchased from the Developmental Studies Hybridoma Bank (Iowa City, IA).
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7

Multicolor Flow Cytometry of Immune Cells

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Fluorophore- or biotin-conjugated antibodies specific for mouse cell-surface antigens and cytokines were as follows: anti-B220 (RA3-6B2, BioLegend), anti-CD4 (GK1.5, BioLegend), anti-CD8a (53-6.7, BioLegend), anti-CD11b (M1/70, BioLegend), anti-Gr1 (RB6-8C5, BioLegend), anti-CD25 (3C7, BioLegend), anti-Foxp3 (MF14, eBioscience), anti-TER119 (TER-119, BioLegend), anti-CD71 (R17 217.1.3, BioXCell for depletion; C2F2, BD biosciences for FACS analysis), anti-CD45 (I3/2.3, BioLegend), anti-CD90.1 (16-10A1, BioLegend), anti-Gzmb (GL1, BioLegend), anti-IFN-γ (XMG1.2, BioLegend). anti-CXCR5 (L138D7, BioLegend), anti-mouse/human CD44 (IM7, BioLegend), anti-human/mouse Bcl-6 (7D1, BioLegend), anti-T-bet (4B10, BioLegend), anti-mouse Ki-67 (16A8, BioLegend), anti-mouse TNF-α (MP6-XT22, BD). For human studies, the following fluorophore- or biotin-conjugated antibodies specific for cell surface markers or cytokines were used: anti-CD3 (UCHT, BioLegend), anti-CD8 (PRA-T8, BioLegend), anti-CD45 (2D1, BioLegend), anti-CD71 (CY1G4, BioLegend), anti-CD235a (HI264, BioLegend). ROS production was measured by labelling with 2′,7′ –dichlorofluorescin diacetate using the ROS detection kit (S0033, Beyotime).
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8

Isolation of Hepatic ILC2s from Mice

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To expand hepatic ILC2s for isolation, C57BL/6 mice were treated with rmIL-33 (0.3 µg/mouse) on four consecutive days. Hepatic non-parenchymal cells were isolated by Percoll density gradient centrifugation. Single non-parenchymal cells were stained with lineage antibodies (anti-CD3, 145-2C11; anti-CD11b, M1/70; anti-CD45R/B220, RA3-6B2; anti-TER-119, TER-119; anti-GR1, RB6-8C5; all APC; all BioLegend), anti-Sca-1 (D7, Pacific Blue) and anti-ST2 (RMST2-2, PE-Cy7; both BioLegend) antibodies. Lineage-negative (lin-) cells were enriched by MACS and ST2+ Sca-1+ lin- ILC2s were isolated by FACS (BD FACSAriaTM III sorter; BD Biosciences, Heidelberg, Germany) (23 (link)).
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9

Multicolor Flow Cytometry of Immune Cells

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Fluorophore- or biotin-conjugated antibodies specific for mouse cell-surface antigens and cytokines were as follows: anti-B220 (RA3-6B2, BioLegend), anti-CD4 (GK1.5, BioLegend), anti-CD8a (53-6.7, BioLegend), anti-CD11b (M1/70, BioLegend), anti-Gr1 (RB6-8C5, BioLegend), anti-CD25 (3C7, BioLegend), anti-Foxp3 (MF14, eBioscience), anti-TER119 (TER-119, BioLegend), anti-CD71 (R17 217.1.3, BioXCell for depletion; C2F2, BD biosciences for FACS analysis), anti-CD45 (I3/2.3, BioLegend), anti-CD90.1 (16-10A1, BioLegend), anti-Gzmb (GL1, BioLegend), anti-IFN-γ (XMG1.2, BioLegend). anti-CXCR5 (L138D7, BioLegend), anti-mouse/human CD44 (IM7, BioLegend), anti-human/mouse Bcl-6 (7D1, BioLegend), anti-T-bet (4B10, BioLegend), anti-mouse Ki-67 (16A8, BioLegend), anti-mouse TNF-α (MP6-XT22, BD). For human studies, the following fluorophore- or biotin-conjugated antibodies specific for cell surface markers or cytokines were used: anti-CD3 (UCHT, BioLegend), anti-CD8 (PRA-T8, BioLegend), anti-CD45 (2D1, BioLegend), anti-CD71 (CY1G4, BioLegend), anti-CD235a (HI264, BioLegend). ROS production was measured by labelling with 2′,7′ –dichlorofluorescin diacetate using the ROS detection kit (S0033, Beyotime).
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10

Multimodal Isolation of Murine Organ Cells

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The lung, liver, spleen, kidney, and heart were extracted after mice were perfused with 1X PBS via the right atrium. For the heart, we used collagenase IV (10 mg/mL) as a digestive enzyme. For the spleen, no digestive enzymes were needed. The other tissues used collagenase type I, collagenase XI, and hyaluronidase. For the heart, we used collagenase IV. The cell suspensions were filtered through a 70-μm sterile nylon mesh cell strainer, washed with 1X PBS, and transferred to Eppendorf tubes. Fc receptors were blocked using TruStain fcX™ anti-mouse CD16/32 (BioLegend). The following antibodies were used: clone 6D5, 17A2, N418, M1/70, FA11, 30-F11, and 390. We also used anti-TER-119 (TER-119, BioLegend), anti-Annexin V (BioLegend), DAPI for nucleic acid staining (Sigma-Aldrich), PE anti-mCD47 (miap301, BioLegend), CD326 (G8.8, BioLegend), anti-Sca-1 (D7, BioLegend), anti-CD24 (M1/69, BD Biosciences), anti-CD271 (ME20.4, Invitrogen), and Monorab™ Rabbit Anti-Camelid VHH antibody, mAb (96A3F5, GenScript). Each stain was added at a 1:200 dilution to the cell suspension. Flow gating is shown (SI Appendix, Figs. S18 and S19). When Ai14 mice were used to quantify delivery, we also used PBS-treated Ai14 mice to control for flow gating.
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