KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| APC-Cy7 anti-mouse CD90.1 (clone OX-7) | BD Biosciences | Cat#561401; RRID: AB_10645789 |
| PerCp anti-mouse CD45.1 (clone A20) | BioLegend | Cat#110725; RRID: AB_893347 |
| BV421 anti-mouse CD45.2 (clone 104) | BioLegend | Cat#109831; RRID: AB_10900256 |
| FITC anti-mouse CD8a (clone 53-6.7) | BioLegend | Cat#100705; RRID: AB_312744 |
| PeCy7 anti-mouse CD8a (clone 53-6.7) | BioLegend | Cat#100721; RRID: AB_312760 |
| FITC anti-mouse Klrg1 (clone 2F1) | BioLegend | Cat#138409; RRID: AB_10643998 |
| PE anti-mouse CD127 (clone A7R34) | BioLegend | Cat#135009; RRID: AB_1937252 |
| BV421 anti-mouse/human CD44 (clone IM7) | BioLegend | Cat#103309; RRID: AB_10895752 |
| BV605 anti-mouse CD62L (clone MEL-14) | BioLegend | Cat#104437; RRID: AB_11125577 |
| FITC anti-human CCR7 (clone G043H7) | BioLegend | Cat#353215; RRID: AB_10945291 |
| APCCy7 anti-human CD8 (clone SK1) | BioLegend | Cat#344713; RRID: AB_2044005 |
| PeCy7 anti-human CD95 (clone DX2) | BioLegend | Cat#305621; RRID: AB_2100370 |
| FITC anti-human CD38 (clone HB-7) | BioLegend | Cat#356609; RRID: AB_2561949 |
| Pe anti-human IFNg (clone 4S.B3) | BioLegend | Cat#502508; RRID: AB_315233 |
| APC anti-human CD45RO (clone UCHL1) | BioLegend | Cat#304210; RRID: AB_314426 |
| Alexa Fluor® 647 AffiniPure F(ab’)2 Fragment Goat Anti-Human IgG, F(ab’)2 fragment specific | Jackson ImmunoResearch | Cat#109-606-006; |
| Bacterial and virus strains | ||
| Lymphocytic choriomeningitis virus, Armstrong strain | NA | |
| XL10-Gold Ultracompetent E. Coli | Stratagene | Cat#200314 |
| Listeria monocytogenes | Gift from McGargill lab, St. Jude Children’s Research Hospital | NA |
| Biological samples | ||
| Human PBMCs | St. Jude blood donor bank | NA |
| Chemicals, peptides, and recombinant proteins | ||
| Ghost Dye Violet 510 viability dye | Tonbo Biosciences | Cat#13-0870 |
| BD Cytofix/Cytoperm | BD Biosciences | Cat#554714 |
| LCMV gp33 monomer | Yerkes NIH tetramer core facility | NA |
| LCMV gp33 peptides | Peptide synthesis facility at SJCRH | NA |
| Cas9-NLS, purified protein | MacroLab | NA |
| Protamine Sulfate | Fresenius Kabi | C22905 |
| CD28 Antibody, anti-human | Miltenyi Biotec | 130-093-375 |
| CD3 Antibody, anti-human | Miltenyi Biotec | 130-093-387 |
| Recombinant Human B7-H3 Fc Chimera Protein | R&D systems | 1027-B3 |
| Recombinant human IL-12 p70 | PeproTech | Cat#200-12 |
| Recombinant human IL-7 | PeproTech | Cat#200-07 |
| Recombinant human IL-2 | PeproTech | Cat#200-02 |
| Recombinant human IL-15 | PeproTech | Cat#200-15 |
| Recombinant human IL-21 | PeproTech | Cat#200-21 |
| Recombinant human IL-18 | Medical & biological laboratories | Cat#B001-5 |
| Critical commercial assays | ||
| QIAGEN DNeasy kit | QIAGEN | Cat#69506 |
| EZ DNA methylation kit | Zymo Research | Cat#D5002 |
| EZ DNA methylation-Direct kit | Zymo Research | Cat#50-444-323 |
| pGEM-T Vector cloning kit | Promega | Cat#A3600 |
| JumpStart Taq ReadyMix | Sigma-Aldrich | Cat#P2893 |
| In-Fusion® HD Cloning Kit | TakaraBio | Cat#639650 |
| P3 Primary Cell 4D X Kit S | Lonza | V4XP-3032 |
| Directprep 96 Miniprep kit | QIAGEN | Cat#27361 |
| Taq polymerase-based PCR kit | QIAGEN | Cat#201225 |
| Human CD3/CD28 T cell activator | Stemcell technologies | Cat#10971 |
| EasySep human CD8+ T cell isolation kit | Stemcell | Cat#19053 |
| Deposited data | ||
| WGBS data | This paper | GEO: GSE182968 |
| Experimental models: Organisms/strains | ||
| Mouse: C57BL/6 | The Jackson Laboratory | Cat#000664 |
| Mouse: CD45.1/1 + | The Jackson Laboratory | Cat#002014 |
| Mouse: B6, Granzyme b-Cre | SJCRH animal house | NA |
| Mouse: Tet2 floxed | The Jackson Laboratory | Cat#017573 |
| Oligonucleotides | ||
| pUC/M13 reverse primer | Promega | Cat#5421 |
| Human IFNg Forward: 5′-GATTTAGAGTAATTTGAAATTTGTGG-3′ | IDT | NA |
| Human IFNg Reverse: 5′-CCTCCTCTAACTACTAATATTTATACC-3′ | IDT | NA |
| Mouse IFNg Forward: 5′-GTTTATTTTTATTGTTGTGGTTGGTAGCTG-3′ | IDT | NA |
| Mouse IFNg Reverse: 5′-CCTTTCTTCTCCAAATTACTTTTAATC-3′ | IDT | NA |
| Mouse Miseq IFNg Forward: 5′TCGTCGGCAGCGTCAGATGTGTATAAGAGACAGTATTTTTATTGTTGTGGTTGGTAGCTG-3′ | IDT | NA |
| Mouse Miseq IFNg Reverse: 5′GTCTCGTGGGCTCGGAGATGTGTATAAGAGACAGCTTTCTTCTCCAAATTACTTTTAATC3′ | IDT | NA |
| TET2 sgRNA:5′-CGAAGCAAGCCTGATGGAACNGG-3′ | Synthego | NA |
| sgRNA mCherry:5′-CAAGUAGUCGGGGAUGTCGG - 3′ | Synthego | NA |
| Recombinant DNA | ||
| Plasmid: pCL45.MND.m276.hCD8aTM.hCD28.z | This paper | NA |
| Software and algorithms | ||
| Prism 6 | GraphPad | https://www.graphpad.com/scientific-software/prism/ |
| FlowJo 9.9.5 | FlowJo | NA |
| SnapGene | Insightful Science | snapgene.com |
| Model-based analysis of bisulfite sequencing | https://www.ncbi.nlm.nih.gov/pubmed/26184873/ | |
| Gene Ontology (GO) enrichment analysis | GREAT | http://great.stanford.edu/public/html/index.php |
| Loci-specific bisulfite sequencing | Quma | http://quma.cdb.riken.jp/ |
| Other | ||
| Fortessa flow cytometer | Flow cytometry core facility at SJCRH | NA |
| Illumina NovaSeq | Hartwell Center at SJCRH | NA |
| Illumina HiSeq 4000 | Hartwell Center at SJCRH | NA |
| 4D-Nucleofector | Lonza | Cat#AAF-1002B |
| Ficoll-Paque PLUS | GE Healthcare | |
| BD GolgiPlug | Fisher scientific | Cat#15847968 |
| BD GogliStop | Fisher scientific | Cat#10716676 |
| CFSE | Fisher scientific | Cat#50-591-407 |
| Penicillin-streptomycin (GIBCO) | ThermoFisher | Cat#1514012 |
| Gentamycin (GIBCO) | ThermoFisher | Cat#15750060 |