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26 protocols using w6 32

1

SPR Analysis of TCR Binding

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SPR was performed largely as described (Sim et al., 2020 (link)) with a BIAcore 3000 instrument and analyzed with BIAevalution software v4.1 (GE Healthcare). The HLA-A, -B, -C-specific mAb W6/32 (#311402, BioLegend) was immobilized to CM5 chips (Cytiva, USA) in 10 mM sodium acetate pH 5.5 at 5000–7000 response units (RU) by primary amine-coupling with a 2 μl/min flow rate. HLA-C was captured by W6/32 at 400–700 RU in PBS. Soluble TCR heterodimers were used as analytes in 10 mM HEPES pH 7.5 and 0.15 M NaCl with a flow rate of 50 μl/min. TCRs were injected for 2 min followed by a dissociation of 10 min. Binding was measured with serial dilutions of TCR from 80 μM to 1.25 μM for TCR10 and 1200 nM to 37.5 nM for TCR9a. Four independent TCR10-binding experiments were carried out with initial concentrations of 10 μM (two experiments), 40 μM (one experiment), and 80 μM (one experiment). Dissociation constants were obtained by modeling steady-state kinetics for TCR10 and kinetic curve fitting for TCR9a with BIAevaluation software.
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2

Characterization of KIR and NCR Expression

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Expression of killer-cell immunoglobulin-like receptors (KIRs) was determined by flow cytometry. The following antibodies were used: CD158a (clone 143211; R&D systems, Minneapolis, MN), CD158b1/2 (DX27; Biolegend), CD158e1 (DX9; Biolegend), and CD159a (REA110; Miltenyi Biotec). For analysis, CD3 (UCHT1) and CD56+ cells (NCAM16.2; BD Biosciences, San Jose, CA) were gated. KIR phenotype analysis was conducted with WinList, v9.0 (Verity Software House, Topsham, ME). For analysis of expression of natural cytotoxicity receptors and NK-cell G2D, the following antibodies were used: NKp30 (p30-15), NKp44 (P44-8), NKp46 (9E2), and NK-cell G2D (1D11; all Biolegend). HLA status was recognized by W6/32 (Biolegend).
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3

Expansion of HSV-1-specific CD8+ T Cells

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Peripheral blood mononuclear cells were isolated from heparinized blood of HLA-A*2402-positive donors seropositive for HSV-1 using Ficoll density gradient centrifugation. CD8 + T cells were isolated from the mononuclear cells using a magnet beads based negative selection kit (IMag, BD Bioscience, San Jose, CA). To expand the CD8 + T cells, the HCEn cells infected with HSV-1 (KOS strain) at MOI 0.1 for 24 h were irradiated and cocultured with CD8 + T cells in RPMI supplemented with 10% fetal bovine serum and recombinant IL-2 (10 ng/ml) as described4 (link).
HLA-A*2402-restricted peptide, AYLPRPVEF, was used for the HSV-1 epitopes of UL378 (link). The peptide-pulsed HCEn cells were co-cultured with the CD8 T cells at CD8 + T cells/HCEn cells ratio of 1/2. The supernatant collected after 6 h were measured for the released of granzyme B using a commercially available ELISA kit (Thermo Fisher, Waltham, MA). Anti-MHC class I antibody, W6/32 (Biolegend, San Diego, CA) or control antibody, were used for the blockade of MHC class I.
All of the procedures used in this study conformed to the tenets of the Declaration of Helsinki, and they were approved by the Institutional Review Board of Tottori University, Tottori, Japan. An informed consent was obtained from all of the participants.
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4

Comprehensive Immune Cell Profiling

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Cells harvested after overnight incubation were stained following standard protocols. Experiments used antibodies specific for human FcR block (BioLegend #422302), CD11c (Bu15, BioLegend #337214), CD80 (2D10, BioLegend #305220), CD86 (Bu63, BioLegend #374210) HLA-DR (L243, BioLegend #307629), HLA-A,B,C (W6/32, BioLegend #311410), CD14 (M5E2, BioLegend #301828), CD63 (H5C6, BioLegend #353007), CD61 (VI-PL2, BioLegend #336416), CD41/CD61 (PAC-1, BioLegend 362804), CD62p (AK4, BioLegend #304906), mTCRb (H57-597, BioLegend #109206), CD4 (OKT4, BioLegend #317428), CD8 (SK1, BioLegend #344704), and human CD3-APC (Clone OKT3, BioLegend). Color-matched isotype control antibodies were obtained from the same vendors. Flow cytometry was performed with a Stratedigm flow cytometer with electronic gates set on live cells by a combination of forward and side light scatter and 7-AAD (BioLegend), EMA (Invitrogen), Zombie Aqua (BioLegend), or Zombie NIR (BioLegend) exclusion. A minimum of 3 × 104 events were collected per sample, and data were analyzed with FlowJo software (FlowJo LLC).
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5

Comprehensive Immunohistochemical Analysis of PDAC Tumor Microenvironment

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Frozen OCT blocks of tumors were cut using a cryostat into 8-μm thick sections and were stained using anti-PNAd (MECA79), anti-human CD31 (WM59, BioLegend), anti-Caspase-3 (4-1-18, BioLegend), anti-Collagen I (abcam), anti-Collagen IV (abcam), anti-Fibronectin (abcam), anti-alpha smooth muscle Actin (α-SMA, abcam), HECA 452 (HECA-452, BioLegend), anti-human HLA-A,B,C antibody (W6/32, BioLegend) and anti-mouse/human Ki-67 (11F6, BioLegend) antibodies. DAPI (VECTASHIELD, Vector Laboratories Burlingame, CA) was used to stain the cell nuclei. The stained tissue sections were imaged using a fluorescent confocal microscope and an EVOS FL2 auto microscope. For immunohistochemistry (IHC) staining, the human post-mortem PDAC samples were stained with anti-mouse/human PNAd (MECA79).
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6

Evaluating TIL IFNγ Production and Reactivity

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To assess the capability of IFNγ production by TILs, 1 × 105 post-REP TILs were stimulated with PMA (32.4 nM, Sigma-Aldrich) and ION (1 μg/mL, Sigma-Aldrich) in 96-well plates for 24 h. To examine the reactivity of the TILs against autologous cancer cells, the TILs were co-cultured for 24 h with 1 × 105 autologous breast cancer cells in 96-well plates at effector:target cell ratios of 1:1, 2:1, and 4:1. To perform MHC I- or MHC II-blocking experiments during the co-culture, autologous cancer cells were treated with anti-MHC I (W6/32, BioLegend, 10 μg/mL) or anti-MHC II (Tu39, BioLegend, 10 μg/mL) antibody for 1 h prior to the co-culture with TILs. After stimulation of TILs with PMA/ION or co-culture, culture supernatants were collected after centrifuging the culture plate at 1,500 rpm for 5 min to exclude cells and debris. The IFNγ level was measured using a human IFN-γ ELISA kit (K0331121, Koma Biotech, Seoul, Korea) according to the manufacturer’s guidelines.
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7

Anti-GD2 and Anti-HLA Antibody Protocol

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The anti-GD2 antibody Hu14.18K322A was provided to St. Jude Children’s Research Hospital and Children’s GMP, LLC (Memphis, TN) by Merck Serono (Darmstadt, Germany) and was manufactured by Children’s GMP, LLC. The anti- HLA antibody W6/32 (Biolegend, San Diego, CA) recognizes a monomorphic epitope on the 45kD polypeptide products of HLA-A, -B, and -C and was used at a concentration of 1.5 μg/mL to block HLA.
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8

HLA Allotype Binding Assay

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LABScreen Single Antigen Class I Combi beads (One Lambda), each coated with a single HLA allotype, were incubated with 3D12, 4D12 or W6/32 (BioLegend) for 30 minutes at room temperature, washed 3 times with PBS, incubated at room temperature for 30 minutes with goat anti-mouse IgG-R-PE (Invitrogen), washed 3 times as before, and analysed on a LABScan 100 flow analyser. Binding of each antibody was corrected by subtracting the fluorescence of the negative control beads, and the binding of 3D12 and 4D12 was normalised relative to the binding of W6/32, to control for variation in the amount of correctly folded protein for each HLA allele.
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9

Comprehensive Immune Cell Profiling

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For mouse Abs: isotype control Abs (IgG1, IgG2a or IgG2b), CD11c-APC-Cy7 (N418, #117324, 1:40), CD8α-PerCP-Cy5.5(53-6.7, #100734, 1:50), CD40-Alexa Fluor® 647 (HM40-3, #102911, 1:40), CD80-PE (16-10A1, #104707, 1:20), CD86-PE-Cy7 (GL-1, #105013, 1:40), anti-MHC class I-Alexa Fluor® 647 (AF6-88.5.3, #116511, 1:40), anti-MHC class II-Pacific Blue (M5/114.15.2, #107620, 1:40), anti-IFN-γ-PE-Cy7 (XMG1.2, #505825, 1:40), and anti-TNF-α- PE-Cy7 (MP6-XT22, #506323, 1:40) were procured from BioLegend; anti-PD-L1 (B7-H1, #BE0101) were obtained from BioXcell (West Lebanon, NH, US). For the human Abs: isotype control Abs (IgG1, IgG2a or IgG2b), CD11c (3.9, #254813, 1:25), CD80 (2D10, #207831, 1:20), CD83 (HB15e, #147674, 1:40), CD86 (BU63, #202906, 1:40), anti-HLA-A, B, C (W6/32, #212641, 1:40), anti-HLA-DR, DP, DQ (Tü39, #211013, 1:40), anti-CD1c (L161, #331510, 1:40), anti-CD141 (M80, #344112, 1:40), and anti-IFN-γ (4S.B3, #193274, 1:40) were obtained from BioLegend (San Diego, CA, US).
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10

Multicolor Flow Cytometry of Platelets

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Whole blood or washed platelets were labeled with anti-human BV421 CD62p (P-selectin; 1:100, AK4; 304926; BioLegend), BV421 CD42b (1:300, HIP1, 303930; BioLegend), fluorescein isothiocyanate (FITC) CD61 (β3; 1:25, RUU-PL7F12; 348093; BD), TO (200 ng/mL; 390062; Sigma), phycoerythrin (PE) CD42b (GPIbα 1:50, HIP1, 555437; BD), PE CD62p (1:100, AK4; 304906; BioLegend), AF599 Mitotracker Ros CMX (mitochondrial dye 5 μM; 9082; Cell Signaling), allophycocyanin (APC) CD62p (1:100, AK4; 304910; BioLegend), and/or APC HLA I (1:100, W6/32; 311410; BioLegend); or anti-mouse BV421-CD62p (1:100, VI P-44; 304926; BioLegend), FITC-CD41a (1:100, MWReg30; 133904; BioLegend), FITC-conjugated streptavidin (1:10, 405201; BioLegend), BD Retic-count (349204; BD), and/or APC-CD41 (1:100; MWReg30; 17-0411-82; ThermoFisher). A polyclonal rat anti-mouse GPIb antibody (R300; Emfret) was used to induce thrombocytopenia in mice. Isotypes BV421 mouse IgG1 (1:100; MOPC-21; 400157; BioLegend), BV421 rat IgG1(1:100, A110-1; 562604; BD), PE or APC mouse IgG1 (1:100; MOPC-21; 400112 and 400120, respectively; BioLegend) were used to quantify CD62p exposure. Fluorescence Minus One was used for all other markers. AF674 SiR tubulin probe (4 μM; CY-SC002; SpiroChrome) was used for ISFC tubulin labeling.
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