Appendix 1—key resources table.
| Reagent type (species) or resource | Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Strain, strain background (Mus musculus) | C57BL/6 J | Charles River, Italy | Strain code: 632 | Inbred |
| Strain, strain background (Mus musculus) | BALB/c | Charles River Lab | Strain code: 028 | Inbred |
| Strain, strain background (Mus musculus) | NSG (NOD.Cg-Prkdcscid Il2rgtm1Wjl/SzJ) | Charles River Lab | Strain code: 614 | Immun odeficient |
| Strain, strain background (Mus musculus) | Ifnar1fl/fl (B6(Cg)-Ifnar1tm1.1Ees/J) | Jackson Lab | JAX:028256 | C57BL/6 J background |
| Strain, strain background (Mus musculus) | AlbCre (B6.Cg-Speer6-ps1Tg(Alb-cre)21Mgn/J) | Jackson Lab | JAX:003574 | C57BL/6 J background |
| Strain, strain background (Mus musculus) | PdgfrbCreERT2 (B6.Cg-Tg(Pdgfrb-cre/ERT2)6096Rha/J) | Jackson Lab | JAX:029684 | C57BL/6 J background |
| Strain, strain background (Mus musculus) | ItgaxCre (CD11c, B6.Cg-Tg(Itgax-cre)1-1Reiz/J) | Jackson Lab | JAX:008068 | C57BL/6 J background |
| Strain, strain background (Mus musculus) | Rosa26-ZsGreen (B6.Cg-Gt(ROSA)26Sortm6(CAG-ZsGreen1)Hze/J) | Jackson Lab | JAX:007906 | C57BL/6 J background |
| Strain, strain background (Mus musculus) | VeCadCreERT2 (Cdh5(PAC)-CreERT2 mice) | Taconic, Models for life | Provided by S. Brunelli (UniMib, Milan) | C57BL/6 J background |
| Strain, strain background (Mus musculus) | OT-I mice (C57BL/6-Tg(TcraTcrb) 1100Mgb/Crl) |
Charles River Lab | JAX:003831 | C57BL/6 J background |
| Antibody | Anti-CD126, IL-6RA, (clone: D7715A7) (Rat monoclonal) | Biolegend | Cat# 115806, RRID:AB_313676 | FC (1:100) |
| Antibody | anti-CD18, ITGB2 (clone M18/2) (Rat monoclonal) | Biolegend | Cat# 101402, RRID:AB_312811 | FC (1:100) |
| Antibody | Anti-CD49d, ITGA4, (clone 9C10(MFR4.B)) (Rat monoclonal) | Biolegend | Cat# 103706, RRID:AB_313046 | FC (1:100) |
| Antibody | Anti-H-2Kb/H-2Db (clone 28-8-6) (Mouse monoclonal) | Biolegend | Cat# 114605, RRID:AB_313596 | FC (1:100) |
| Antibody | Anti-CD86 (clone GL-1) (Rat monoclonal) | Biolegend | Cat# 105007, RRID:AB_313150 | FC (1:100) |
| Antibody | Anti-CD146 (clone ME-9F1) (Rat monoclonal) | Biolegend | Cat# 134704, RRID:AB_2143527 | FC (1:100) |
| Antibody | Anti-CD44 (clone IM7) (Rat monoclonal) | Biolegend | Cat# 103044, RRID:AB_2650923 | FC (1:100) |
| Antibody | Anti-CD62L (clone MEL-14) (Rat monoclonal) | Biolegend | Cat# 104420, RRID:AB_493376 | FC (1:100) |
| Antibody | Anti- CD16/CD32, (Rat monoclonal) | BioXCell | Cat# BE0307; RRID:AB_2736987 | FC (1:100) |
| Antibody | Anti-GFP, (Rabbit polyclonal) | Thermo Fisher Sci | Cat# A11122, RRID:AB_221569 | IF (1:100) |
| Antibody | Anti-GFP (clone FM264G) (Rat monoclonal) | Biolegend | Cat# 338008, RRID:AB_2563288 | IF (1:100) |
| Antibody | Anti-CD31, PECAM1, (Goat polyclonal) | R&D Systems | Cat# AF3628, RRID:AB_2161028 | IF (1:300) |
| Antibody | Anti-PDGFRβ, CD140b (clone APB5) (Rat monoclonal) | eBioscience | Cat# 14-1402-82, RRID:AB_467493 | IF (1:200) |
| Antibody | Anti-CD11c, (clone N418)(Armenian hamster monoclonal) | Biolegend | Cat#117312, RRID:AB_492850 | IF (1:100) |
| Antibody | Anti-Heparan Sulfate (clone F58-10E4) (Mouse monoclonal) | Amsbio | Cat# 370255 S, RRID:AB_10891554 | IF (1:50) |
| Antibody | Anti-LYVE-1 (Rabbit polyclonal) | Novus Biol | Cat# NB600-1008, RRID:AB_10000497 | IF (1:300) |
| Antibody | Anti-Collagen type IV (Rabbit polyclonal) | Abcam | Cat# ab19808, RRID:AB_445160 | IF (1:100) |
| Antibody | Anti-Laminin (Rabbit polyclonal) | Sigma-Aldrich | Cat# L9393, RRID:AB_477163 | IF (1:300) |
| Antibody | Anti-CD54, ICAM1 (clone YN1/1.7.4) (Rat monoclonal) | Biolegend | Cat#116101, RRID:AB_313692 | IF (1:100) |
| Antibody | Anti-CD62E, E-selectin (clone 10E9.6) (Rat monoclonal) | BD Bioscience | Cat#550290, RRID:AB_393585 | IF (1:100) |
| Antibody | Anti-Rabbit AF488 (Donkey polyclonal) | Thermo Fisher Sci | Cat#32790, RRID:AB_2762833 | IF (1:200) |
| Antibody | Anti-Goat AF546 (Donkey polyclonal) | Thermo Fisher Sci | Cat#A-11056, RRID:AB_2534103 | IF (1:200) |
| Antibody | Anti-Rat AF647 (Donkey polyclonal) | Jackson IR | Cat#712-605-153, RRID:AB_2340694 |
IF (1:200) |
| Antibody | Anti-IgM conjugated to APC (clone II/41) (Rat monoclonal) | Thermo Fisher Sci | Cat#17-5790-82, RRID:AB_469458 | IF (1:100) |
| Antibody | Anti-Ki-67 (clone SP6) (Rabbit recombinant antibody) | Thermo Fisher Sci | Cat# MA5-14520, RID:AB_10979488 | IHC (1:200) |
| Antibody | Anti-CD34 (clone MEC14.7) (Rat monoclonal) | Biolegend | Cat# 119301, RRID:AB_345279 | IHC (1:300) |
| Antibody | Anti-F4/80 (clone A3-1) (Rat monoclonal) | Bio-Rad | Cat# MCA497, RRID:AB_2098196 | IHC (1:200) |
| Antibody | Anti-CD3 (clone SP7) (Rabbit monoclonal) | Abcam | Cat# ab21703, RRID:AB_446487 | IHC (1:100) |
| Antibody | Anti-pSTAT1 (Clone 58D6) (Rabbit monoclonal) | Cell Signaling | Cat# BK9167S, RRID:AB_561284 | IHC (1:800) |
| Antibody | Anti-CD11c microbeads ultrapure | Miltenyi Biotec | Cat# 130-125-835 | 100 µL per 10⁸ total cells |
| Antibody | Anti-F4/80 microbeads ultrapure | Miltenyi Biotec | Cat# 130-110-443 | 100 µL per 10⁸ total cells |
| Antibody | InVivoMAb Anti-mouse GM-CSF(clone MP1-22E9) (Rat monoclonal) | BioXcell | Cat# BE0259 RRID:AB_2687738 | 40 ng/ml |
| Peptide, recombinant protein | Recombinant mouse IFNα1, carrier-free | Biolegend | Cat# 751802 | |
| Peptide, recombinant protein | NH2-SIINFEKL-COOH (SL-8 peptide) | Proimmune | Cat# GMPT5995 | |
| Chemical compound, drug | Albumin from chicken egg white (ovalbumin) | Sigma-Aldrich | Cat# 55039 | |
| Chemical compound, drug | Gadoxetic acid (Primovist; Gd-EOB-DTPA) | Bayer Schering Pharma | N/A | |
| Chemical compound, drug | Tamoxifen | Sigma Aldrich | Cat# T5648-5G | |
| Chemical compound, drug | Lipofectamine 2000 | Thermo Fisher Sci | Cat# 11668019 | |
| Chemical compound, drug | Paraformaldehyde powder |
Sigma-Aldrich | Cat# 158127 | |
| Chemical compound, drug | Sodium Cacodylate powder | Sigma-Aldrich | Cat# C0250 | |
| Chemical compound, drug | 25% EM grade Glutaraldehyde | ProSciTech | Cat# C001 | |
| Chemical compound, drug | Osmium tetroxide | ProSciTech | Cat# C011 | |
| Chemical compound, drug | Lanthanum (III) nitrate hexahydrate | MERK | Cat# 331937–11 G | 2% |
| Chemical compound, drug | Zinc formalin fixative | Sigma-Aldrich | Cat# Z2902-3.75L | |
| Chemical compound, drug | Fibronectin human plasma | MERK | Cat# F2006-1MG | |
| Chemical compound, drug | Percoll | Sigma-Aldrich | Cat# P4937-500ML | |
| Chemical compound, drug | Matrigel Matrix | BD Bioscience | Cat# 354248 | |
| Chemical compound | 7-AAD Viability staining solution | Biolegend | Cat# 420404 | FC (1:100) |
| Chemical compound, drug | EGM-2MV endothelial cell growth medium-2 BulletKit | Lonza | Cat# CC-3202 | |
| Chemical compound, drug | Brefeldin A | Sigma-Aldrich | Cat# B7651 | |
| Commercial assay, kit | VeriKine-HS Mouse IFNα All-Subtype ELISA Kit | PBL Assay Sci | Cat# 42115–1 | |
| Commercial assay, kit | GeneArt CRISPR Nuclease Vector with OFP Reporter Kit | Thermo Fisher Sci | Cat# A21174 | |
| Commercial assay, kit | TOPO TA Cloning Kit | Thermo Fisher Sci | Cat# 450641 | |
| Commercial assay, kit | CellTiter-Glo Luminescent Cell Viability Assay | Promega | Cat# G7570 | |
| Commercial assay, kit | ReliaPrep RNA Cell Miniprep System | Promega | Cat# Z6011 | |
| Commercial assay, kit | ReliaPrep RNA Tissue Miniprep System | Promega | Cat# Z6111 | |
| Commercial assay, kit | TURBO DNA-free kit | Ambion | Cat# AM1907 | |
| Commercial assay, kit | QIAamp DNA Mini kit | Qiagen | Cat# 51304 | |
| Commercial assay, kit | RNeasy Mini Kit | Qiagen | Cat# 74104 | |
| Commercial assay, kit | Procyte kit | Idexx | Cat# 9926306–00 | |
| Commercial assay, kit | Live/Dead fixable near-IR dead cell stain kit | Thermo Fisher Sci | Cat# L34975 | FC (1:500) |
| Commercial assay, kit | Live/Dead fixable Green dead cell stain kit | Thermo Fisher Sci | Cat# L34970 | FC (1:100) |
| Commercial assay, kit | DNAse TURBO | Thermo Fisher Sci | Cat# AM1907 | |
| Commercial assay, kit | Foxp3/Transcription Factor Staining buffer set | Thermo Fisher Sci | Cat# 00-5523-00 | |
| Cell lines (Mus musculus) | CT26 | ATCC | Cat# CRL-2638, RID:CVCL_7256 | |
| Cell lines (Mus musculus) | MC38 | Kindly provided by P. Berraondo López - Centro de Investigación Médica Aplicada (Spain) | RRID:CVCL_B288 | |
| Sequence-based reagent | Ifnar1 intron 3 forward | Prigge et al., 2015 | PCR primers | ACTCAGGTTCG CTCCATCAG |
| Sequence-based reagent | Ifnar1 intron 3 reverse | Prigge et al., 2015 | PCR primers | GCACATTGACCATT ACAAGAGTAG |
| Sequence-based reagent | Ifnar1 exon2 forward | This paper | PCR primers | TCCAAGACTCC TGCTGTC |
| Sequence-based reagent | Ifnar1 exon2 reverse | This paper | PCR primers | GCACTTTTAC TTGCTCGGT |
| Sequence-based reagent | ItgaxCre forward | Jackson Lab | PCR primers | ACTTGGCAGCTG TCTCCAAG |
| Sequence-based reagent | ItgaxCre reverse | Jackson Lab | PCR primers | GTGGCAGATGG CGCGGCA |
| Sequence-based reagent | ALBCre forward | Jackson Lab | PCR primers | CCAGGCTAAGTGCC TTCTCTACA |
| Sequence-based reagent | ALBCre reverse | Jackson Lab | PCR primers | AATGCTTCTGTCC GTTTGCCGGT |
| Sequence-based reagent | PdgfrbCre forward | Jackson Lab | PCR primers | GAACTGTCACC GGGAGGA |
| Sequence-based reagent | PdgfrbCre reverse | Jackson Lab | PCR primers | AGGCAAATTTT GGTGTACGG |
| Sequence-based reagent | VeCadCre forward | Wang et al., 2010 | PCR primers | GCCTGCATTACCG GTCGATGCAACG |
| Sequence-based reagent | VeCadCre reverse | Wang et al., 2010 | PCR primers | GTGGCAGATGGCG CGGCAACACCAT |
| Sequence-based reagent | RosaZsgreen forward | Jackson Lab | PCR primers | AACCAGAAGTGG CACCTGAC |
| Sequence-based reagent | RosaZsgreen reverse | Jackson Lab | PCR primers | GGCATTAAAGC AGCGTATCC |
| Sequence-based reagent | crRNA1 | Thermo Fisher Sci | CRISPR RNA guide | TAGACGTCTATATT CTCAGGGTTTT |
| Sequence-based reagent | crRNA2 | Thermo Fisher Sci | CRISPR RNA guide | ATGTAGACGTCTAT ATTCTCGTTTT |
| Sequence-based reagent | Mm00516793_g1 | Thermo Fisher Sci | Taqman probe Irf7 | |
| Sequence-based reagent | Mm00836412_m1 | Thermo Fisher Sci | Taqman probe Oas1 | |
| Sequence-based reagent | Mm 99999915_g1 | Thermo Fisher Sci | Taqman probe Gapdh | |
| Software and algorithms | FlowJo v10.5 or greater | Tree Star | RRID:SCR_008520 | |
| Software and algorithms | Prism version 8 or greater | GraphPad | RRID:SCR_002798 | |
| Software and algorithms | ImageScope software | Leica Biosystems | RRID:SCR_014311 | |
| Software and algorithms | Imaris version 7.2.3 | Bitplane | RRID:SCR_007370; | |
| Software and algorithms | Fiji software or ImageJ software | NIH | RRID:SCR_002285; 003070 |
|
| Software and algorithms | MIPAV v5.3.4 or greater | CIT, NIH | RRID:SCR_007371 | |
| Software and algorithms | EsivisionPro 3.2 software | Soft Imaging Sys | N/A | |
| Software and algorithms | OsiriX DICOM viewer version 3.9.2 or greater | Pixmeo SARL | N/A | |
| Software and algorithms | Trimmomatic version 0.32 | Bolger et al., 2014 | RRID:SCR_011848 | |
| Software and algorithms | STAR aligner version 2.5.3 a | STAR SRL | RRID:SCR_004463 | |
| Software and algorithms | GENECODE version M22 | Ensmbl 97 | N/A | |
| Software and algorithms | R-4.0.3 software | R Core Team | N/A | |
| Software and algorithms | DESeq2 version 1.30.1 | Love et al., 2014 | N/A | |
| Software and algorithms | EnrichR R package version 3.3 | Chen et al., 2013 | RRID:SCR_020938 | |
| Software and algorithms | GeneArt CRISPR Search and Design Tool | Thermo Fisher Sci | N/A | |
| Other | Alzet osmotic pumps 1002 | Alzet | Cat# 10104844 | Mini osmotic pump (MOP) |
| Other | Alzet osmotic pumps 1004 | Alzet | Cat# 10104846 | Mini osmotic pump (MOP) |
| Other | ProCyte Dx Hematology Analyzer | IDEXX Lab | N/A | Instruments |
| Other | Bruker Horizontal 7-Tesla MRI scanner | BioSpec | N/A | Instruments |
| Other | ViiA7 Fast Real-Time PCR System | Applied Biosys | Cat# 4453543 | Instruments |
| Other | Aperio Scanscope XT Leica | Leica Biosystems | RRID:SCR_018457 | Instruments |
| Other | Leica SP8 LIGHTNING confocal microscope | Leica Biosystems | RRID:SCR_018169 | Instruments |
| Other | FEI Talos L120C G2 Transmission electron microscope | Thermo Fisher Sci | N/A | Instruments |
| Other | Zeiss FEG Gemini 500 Scanning electron microscope | Zeiss | N/A | Instruments |
| Other | FACSCanto II High Throughput Sampler | BD Bioscience | N/A | Instruments |
| Other | FACS LSRFortessa | BD Bioscience | N/A | Instruments |
| Other | FACSAria Fusion | BD Bioscience | N/A | Instruments |
| Other | Illumina NovaSeq 6000 machine | Illumina | RRID:SCR_016387 | Instruments |
| Other | Leica CM1520 Cryostat | Leica Biosystems | RRID:SCR_017543 | Instruments |
| Other | Leica VT1000S Vibratome | Leica Biosystems | RRID:SCR_016495 | Instruments |
| Other | EM UC7 ultramicrotome | Leica Biosystems | RRID:SCR_016694 | Instruments |