Key resources table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Anti-mouse CD3ε-FITC | Biolegend | Cat# 152304, RRID: AB_2632667 |
| Anti-mouse NK1.1-FITC | Biolegend | Cat# 108706, RRID: AB_313393 |
| Anti-mouse CD11c-FITC | Biolegend | Cat# 117306, RRID: AB_313775 |
| Anti-mouse CD19-FITC | BD Biosciences | Cat#553785, RRID: AB_395049 |
| Anti-mouse CD5-FITC | Biolegend | Cat# 100606, RRID: AB_312735 |
| Anti-mouse FceR1 alpha-FITC | Thermo Fisher Scientific | Cat# 11–5898-82, RRID: AB_465308 |
| Anti-mouse IL33Rα-APC | Biolegend | Cat# 146606, RRID: AB_2728175 |
| Anti-mouse CD127-PE/Cy7 | Biolegend | Cat# 135014, RRID: AB_1937265 |
| Anti-mouse CD127-BV421 | Biolegend | Cat# 135024, RRID: AB_11218800 |
| Anti-mouse CD25-BV421 | BD Biosciences | Cat# 562606, RRID: AB_11153485 |
| Anti-mouse CD45-AF700 | BD Biosciences | Cat# 560510, RRID: AB_1645208 |
| Anti-mouse CD25-BV605 | Biolegend | Cat# 102036, RRID: AB_ 2563059 |
| Anti-mouse NK1.1-FITC | BD Biosciences | Cat# 561082, RRID: AB_10563221 |
| Anti-mouse IL-9-PE | Biolegend | Cat# 514103, RRID: AB_2126639 |
| Anti-mouse IL-4-BV786 | Biolegend | Cat# 564006, RRID: AB_2738538 |
| Anti-mouse IL-13-PerCP-eFluor710 | Thermo Fisher Scientific | Cat# 46–7133-80, RRID: AB_11218893 |
| Anti-mouse Siglec-F-BV786 | BD Biosciences | Cat# 740956, RRID: AB_2740581 |
| Anti-mouse GATA3-BV711 | BD Biosciences | Cat# 565449, RRID: AB_2739242 |
| Anti-mouse Ly6G-BUV395 | Thermo Fisher Scientific | Cat# 363–9668-82, RRID: AB_2925309 |
| Anti-mouse CD4-BV785 | Biolegend | Cat# 100453, RRID: AB_2565843 |
| Anti-mouse CD3-PE-Cy7 | Biolegend | Cat# 100220, RRID: AB_1732057 |
| Anti-human CD3-FITC | BD Biosciences | Cat# 561802, RRID: AB_10893003 |
| Anti-human CD4-FITC | BD Biosciences | Cat# 555346, RRID: AB_395751 |
| Anti-human CD8-FITC | BD Biosciences | Cat# 555634, RRID: AB_395996 |
| Anti-human CD14-FITC | BD Biosciences | Cat# 555397, RRID: AB_395798 |
| Anti-human CD15-FITC | BD Biosciences | Cat# 555401, RRID: AB_395801 |
| Anti-human CD16-FITC | BD Biosciences | Cat# 555406, RRID: AB_395806 |
| Anti-human CD19-FITC | BD Biosciences | Cat# 555412, RRID: AB_395812 |
| Anti-human CD20-FITC | BD Biosciences | Cat# 555622, RRID: AB_395988 |
| Anti-human CD33-FITC | BD Biosciences | Cat# 555626, RRID: AB_395992 |
| Anti-human CD34-FITC | BD Biosciences | Cat# 555821, RRID: AB_396150 |
| Anti-human CD203C-FITC | Thermo Fisher Scientific | Cat# MA5–28586, RRID: AB_2745545 |
| Anti-human FcepsilonRIalpha-FITC | Biolegend | Cat# 334608, RRID: AB_1227653 |
| Anti-human CD56-FITC | Biolegend | Cat# 362546, RRID: AB_2565964 |
| Anti-human CD56-AF700 | BD Biosciences | Cat# 557919, RRID: AB_396940 |
| Anti-human CD56-BUV395 | BD Biosciences | Cat# 563554, RRID: AB_2687886 |
| Anti-human CD56-APC | Biolegend | Cat# 981204, RRID: AB_2715759 |
| Anti-human CD127-APC | BD Biosciences | Cat# 558598, RRID: AB_647113 |
| Anti-human CD127-BV421 | Biolegend | Cat# 351310, RRID: AB_10960140 |
| Anti-human CD127-PE | Biolegend | Cat# 351340, RRID: AB_2564136 |
| Anti-human CD117-BV711 | Biolegend | Cat# 313230, RRID: AB_2566217 |
| Anti-human CD117-PE | BD Biosciences | Cat# 555714, RRID: AB_396058 |
| Anti-human CRTH2-PE-Cy7 | Biolegend | Cat# 350118, RRID: AB_2562470 |
| Anti-human CD5-BV510 | Biolegend | Cat# 364018, RRID: AB_2565728 |
| Anti-human CD161-BV785 | Biolegend | Cat# 339930, RRID: AB_2563968 |
| Anti-human CD161-PE | Biolegend | Cat# 307504, RRID: AB_2876602 |
| Anti-human DNAM-1-AF647 | Biolegend | Cat# 338328, RRID: AB_2728298 |
| Anti-human NKG2D-PE | BD Biosciences | Cat# 557940, RRID: AB_396951 |
| Anti-human NKp30-BV421 | BD Biosciences | Cat# 563385, RRID: AB_2738171 |
| Anti-human CD122-APC | Biolegend | Cat# 339007, RRID: AB_2248891 |
| Anti-human CD112-PE | Biolegend | Cat# 337410, RRID: AB_2269088 |
| Anti-human CD155-APC | Biolegend | Cat# 337618, RRID: AB_2565815 |
| Anti-human MICA-APC | R&D | Cat# FAB1300A, RRID: AB_416836 |
| Anti-human MICA-PE | R&D | Cat# FAB1300P, RRID: AB_416837 |
| Anti-human MICB-APC | R&D | Cat# FAB1599A, RRID: AB_2297703 |
| Anti-human TIGIT-BV605 | BD Biosciences | Cat# 747841, RRID: AB_2872304 |
| Anti-human PD-1-PE-Cy7 | Thermo Fisher Scientific | Cat# 25–9969-42, RRID: AB_2688257 |
| Anti-human TIM3-APC-Cy7 | Biolegend | Cat# 345026, RRID: AB_2565717 |
| Anti-human IL-33R-APC | Thermo Fisher Scientific | Cat# 17–9338-42, RRID: AB_2762446 |
| Anti-human IL17RB-PE | R&D | Cat# FAB1207P, RRID: AB_2125555 |
| Anti-human KLRG1-APC | Miltenyi Biotec | Cat# 130–117-703, RRID: AB_2733432 |
| Anti-human CD45-BUV395 | BD Biosciences | Cat# 563792, RRID: AB_2869519 |
| Anti-human CD45-BV510 | BD Biosciences | Cat# 563204, RRID: AB_2738067 |
| Anti-human CD45RO-APC/Cy7 | Biolegend | Cat# 304228, RRID: AB_10895897 |
| Anti-human CD45RA-BV650 | Biolegend | Cat# 304136, RRID: AB_2563653 |
| Anti-human HLA-DR-BV510 | Biolegend | Cat# 307645, RRID: AB_2561396 |
| Anti-human CD14-BV421 | Biolegend | Cat# 367143, RRID: AB_2810579 |
| Anti-human CD16-PE | Biolegend | Cat# 360704, RRID: AB_2562749 |
| Anti-human CD206-PE/Cy7 | Biolegend | Cat# 321123, RRID: AB_10900995 |
| Anti-human CD24-APC/Cy7 | Biolegend | Cat# 311131, RRID: AB_2566346 |
| Anti-human CD11c-BV785 | Biolegend | Cat# 301643, RRID: AB_2565778 |
| Anti-human CD66b-PE | Biolegend | Cat# 392903, RRID: AB_2750201 |
| Anti-CD11b-PE/Cy7 | BD Biosciences | Cat# 552850, RRID: AB_394491 |
| Anti-human CD123-BV650 | Biolegend | Cat# 306019, RRID: AB_11218792 |
| Anti-human CD33-BV785 | Biolegend | Cat# 303428, RRID: AB_2650888 |
| Anti-human IL-4-BV510 | Biolegend | Cat# 500835, RRID: AB_2650992 |
| Anti-human IL-5-eFluor450 | Thermo Fisher Scientific | Cat# 48–7052-82, RRID: AB_2802295 |
| Anti-human IL-9-PE | Biolegend | Cat# 507605, RRID: AB_315487 |
| Anti-human IL-13-APC | Biolegend | Cat# 501907, RRID: AB_315202 |
| Anti-human Perforin-BV421 | BD Biosciences | Cat# 563393, RRID: AB_2738178 |
| Anti-human IFN-γ-PE-Cy7 | Biolegend | Cat# 502528, RRID: AB_2123323 |
| Anti-humanTNF-α-APC | Biolegend | Cat# 502912, RRID: AB_315264 |
| Anti-GATA3-PE-CF594 | BD Biosciences | Cat# 563510, RRID: AB_2738248 |
| Anti-GATA3-PE | Biolegend | Cat# 653804, RRID: AB_2562723 |
| Anti-T-bet Antibody-APC | Biolegend | Cat# 644814, RRID: AB_10901173 |
| Anti-T-bet Antibody-BV421 | Biolegend | Cat# 644816, RRID: AB_10959653 |
| Anti-EOMES-BUV395 | BD Biosciences | Cat# 567171, RRID: AB_2916488 |
| Anti-human RORγt-AF647 | BD Biosciences | Cat# 563620, RRID: AB_2738324 |
| Anti-human Granzyme B-PE | BD Biosciences | Cat# 561142, RRID: AB_10561690 |
| Anti-human/mouse Granzyme B-PE | Biolegend | Cat# 396406, RRID: AB_2801075 |
| Granzyme B Monoclonal Antibody (GB11) | Thermo Fisher Scientific | Cat# MA1–80734, RRID: AB_931084 |
| Perforin Polyclonal Antibody | Thermo Fisher Scientific | Cat# PA5–109315, RRID: AB_2854726 |
| IL-13 Monoclonal Antibody (JES10–5A2) | Thermo Fisher Scientific | Cat# AHC0132, RRID: AB_2536246 |
| IL-4 Monoclonal Antibody (MP4–25D2) | Thermo Fisher Scientific | Cat# 16–7048-81, RRID: AB_469210 |
| IL-5 Monoclonal Antibody (TRFK5) |
Thermo Fisher Scientific | Cat# 14–7052-85, RRID: AB_468421 |
| Purified anti-human CD226 (DNAM-1) | Biolegend | Cat# 338302, RRID: AB_1279155 |
| Purified anti-human CD314 (NKG2D) | Biolegend | Cat# 320802, RRID: AB_492956 |
| Ultra-LEAF(TM) Purified anti-human IL-9 | Biolegend | Cat# 512005, RRID: AB_2888812 |
| Purified anti-human CD124 (IL-4Ralpha) | Biolegend | Cat# 355002, RRID: AB_11219599 |
| Ultra-LEAF™ Purified anti-human CD337 (NKp30) Antibody | Biolegend | Cat# 325224, RRID: AB_2814183 |
| Anti-phospho-Akt (Ser473) | Cell Signaling Technology | Cat# 4060S, RRID: AB_2315049 |
| Anti-pan Akt | Cell Signaling Technology | Cat# 2920S, RRID:AB_1147620 |
| Alexa Fluor 647 Annexin V | Biolegend | Cat# 640943, RRID: AB_2616658 |
| 7-AAD Staining Solution 2mL antibody | BD Biosciences | Cat# 559925, RRID: AB_2869266 |
| DAPI Solution | BD Biosciences | Cat# 564907, RRID: AB_2869624 |
| Violet Live Cell Caspase Probe | BD Biosciences | Cat# 565521, RRID: AB_2869682 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Recombinant Human IL-2 | NCI | N/A |
| Recombinant Human IL-7 | NCI | N/A |
| Recombinant Human IL-15 | NCI | N/A |
| Recombinant Human IL-33 | PeproTech | Cat# 200–33 |
| Recombinant Murine IL-33 | PeproTech | Cat# 210–33 |
| Recombinant Murine IL-7 | PeproTech | Cat# 217–17 |
| Z-VAD-FMK | MCE | Cat# HY-16658B |
| Z-DEVD-FMK | MCE | Cat# HY-12466 |
| Necrostatin-1 | MCE | Cat# HY-15760 |
| Ferrostatin-1 | MCE | Cat# HY-100579 |
| AS1842856 | MCE | Cat# HY-100596 |
| Afuresertib | MCE | Cat# HY-15727 |
| Trametinib | MCE | Cat# HY-10999 |
| Cas9 Nuclease V3 | IDT | Cat# 1081059 |
| AmaxaTM P3 Primary Cell 4D-NucleofectorTM X Kit | Lonza | Cat# V4XP-3032 |
| RIPA Lysis and Extraction Buffer | Thermo Fisher Scientific | Cat# 89900 |
| Fixation/Permeabilization Solution Kit | BD Biosciences | Cat# 554714 |
| Leukocyte Activation Cocktail, with BD GolgiPlug™ | BD Biosciences | Cat# 550583 |
| Biological Samples | ||
| Peripheral Blood Samples of Patients with AML | City of Hope National Medical Center |
N/A |
| Peripheral Blood Samples of Healthy Donors | City of Hope National Medical Center |
N/A |
| Critical Commercial Assays | ||
| RosetteSep™ Human NK Cell Enrichment Kit | STEMCELL | Cat# 15065 |
| EasySep™ Human Pan-ILC Enrichment Kit | STEMCELL | Cat# 17975 |
| Anti-Cy7 MicroBeads | Miltenyi Biotec | Cat# 130–091-652 |
| Anti-FITC MicroBeads | Miltenyi Biotec | Cat# 130–048-701 |
| CellTrace™ Violet Cell Proliferation Kit | Thermo Fisher Scientific | Cat# C34557 |
| CellTrace™ Far Red Cell Proliferation Kit | Thermo Fisher Scientific | Cat# C34572 |
| CellTrace™ CFSE Cell Proliferation Kit |
Thermo Fisher Scientific |
Cat# C34554 |
| High-Capacity cDNA Reverse Transcription Kit with RNase Inhibitor |
Thermo Fisher Scientific | Cat# 4374967 |
| RNeasy Mini Kit (250) | QIAGEN | Cat# 74106 |
| Decemotinib (VX-509) | Selleck | Cat# S7541 |
| D-Luciferin, Potassium Salt | GOLDBIO | Cat# LUCK-10G |
| Caspase-Glo® 3/7 Assay System | Promega | Cat# G8090 |
| Steady-Glo® Luciferase Assay System | Promega | Cat# E2520 |
| Perforin Human ELISA Kit | Thermo Fisher Scientific |
Cat# BMS2306 |
| Human Granzyme B DuoSet ELISA Kit | R&D | Cat# DY2906–05 |
| Deposited Data | ||
| ScRNAseq data | This manuscript | GSE247205 |
| Bulk RNA Seq data | This manuscript | GSE247206 and GSE247207 |
| Experimental Models: Cell Lines | ||
| MOLM13 | DSMZ | Cat# ACC-554; RRID: CVCL_2119 |
| U937 | ATCC | Cat# CRL-1593.2, RRID: CRL-1593.2 |
| THP1 | ATCC | Cat# TIB-202, RRID: CVCL_0006 |
| A549 | ATCC | Cat# CRM-CCL-185, RRID: CVCL_0023 |
| Capan-1 | ATCC | Cat# HTB-79, RRID: CVCL_0237 |
| MIA PaCa-2 | ATCC | Cat# CRM-CRL-1420, RRID: CVCL_0428 |
| Gli36 | E. Antonio Chiocca | Department of Neurosurgery, Brigham and Women’s Hospital, Boston, Massachusetts, USA. |
| U251 | E. Antonio Chiocca | Department of Neurosurgery, Brigham and Women’s Hospital, Boston, Massachusetts, USA. |
| GBM30 | E. Antonio Chiocca | Department of Neurosurgery, Brigham and Women’s Hospital, Boston, Massachusetts, USA. |
| LN229 | ATCC | Cat# CRL-2611, RRID: CVCL_0393 |
| OP9 | ATCC | Cat# CRL-2749, RRID: CVCL_4398 |
| C1498 | ATCC | Cat# TIB-49, RRID: CVCL_3494 |
| HEK293T | ATCC | Cat# CRL-3216, RRID: CVCL_0063 |
| Experimental Models: Organisms/Strains | ||
| C57BL/6 mice | The Jackson Laboratory | Stock No: 000664; RRID: IMSR_JAX:000664 |
| Mouse: MllPTD/WT: Flt3ITD/ITD mouse | Michael A. Caligiuri (Zorko et al.,2012)60 | N/A |
| Mouse: C;129S4-Rag2tm1.1Flv Il2rgtm1.1Flv/J (Rag2− /−γc−/−) |
The Jackson Laboratory | Stock No: 014593; RRID: IMSR_JAX:014593 |
| NOD.Cg-Prkdcscid Il2rgtm1Wjl Tg(CMV-IL3,CSF2,KITLG)1Eav/MloySz J | The Jackson Laboratory | Stock No: 013062; RRID: IMSR_JAX:013062 |
| Software and Algorithms | ||
| GraphPad Prism 9 | GraphPad Software | https://www.graphpad.com/ |
| FlowJo software (version 10) | FlowJo | https://www.flowjo.com/ |
| Cell Ranger (Version 5. 0.0) | 10 × Genomics | https://support.10xgenomics.com/single-cell-geneexpression/software/pipelines/latest/installation |
| Trimmomatic | (Bolger et al., 2014)76 | http://www.usadellab.org/cms/?page=trimmomat ic |
| FASTP | (Chen et al., 2018)77 |
https://github.com/OpenGene/fastp |
| STAR (v. 020201) | (Anders and Huber, 2010)78 | https://github.com/alexdobin/STAR |
| HTSeq v.0.6.0 | (Anders and Huber, 2010)78 | https://github.com/simon-anders/htseq |
| GSEA-2.2.3 | (Subramanian et al., 2005)80 | https://www.gsea-msigdb.org/gsea/index.jsp |