KEY RESOURCES TABLE.
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
|
| ||
| Antibodies | ||
| Anti-CD62L (MEL-14) | Biolegend | Cat# 104438, RRID:AB_2563058 |
| Anti-CD62L (MEL-14) | Biolegend | Cat# 104453, RRID: AB_2800559 |
| Anti-CD103 (2E7) | Biolegend | Cat# 121420, RRID:AB_10714791 |
| Anti-EpCAM (G8.8) | Biolegend | Cat# 118206, RRID: AB_1134172 |
| Anti-CD90.1 (OX-7) | Biolegend | Cat# 202539, RRID: AB_2562645 |
| Anti-CD90.1 (OX-7) | Biolegend | Cat# 202522, RRID: AB_1595477 |
| Anti-CD45.1 (A20) | Biolegend | Cat# 110722, RRID: AB_492866 |
| Anti-CD45.1 (A20) | Biolegend | Cat# 110708, RRID: AB_313497 |
| Anti-Ly-6C (HK1.4) | Biolegend | Cat# 128041, RRID: AB_2565852 |
| Anti-CD69 (H1.2F3) | Biolegend | Cat# 104536, RRID: AB_2565583 |
| Anti-CD69 (H1.2F3) | Biolegend | Cat# 104507, RRID: AB_313110 |
| Anti-CD69 (H1.2F3) | Biolegend | Cat# 104518, RRID: AB_492847 |
| Anti-CD69 (H1.2F3) | Biolegend | Cat# 104545, RRID: AB_2686969 |
| Anti-CD8a (53–6.7) | Biolegend | Cat# 100734, RRID: AB_2075238 |
| Anti-CD8b (YTS156.7.7) | Biolegend | Cat# 126610, RRID: AB_2260149 |
| Anti-CD44 (IM7) | Biolegend | Cat# 103026, RRID: AB_493713 |
| Anti-CD279/PD-1 (RMP1–30) | Biolegend | Cat# 109110, RRID: AB_572017 |
| Anti-CD186/CXCR6 (SA051D1) | Biolegend | Cat# 151109, RRID: AB_2616760 |
| Anti-T-bet (4B10) | Biolegend | Cat# 644817, RRID: AB_11219388 |
| Anti-Eomes (Dan11mag) | Invitrogen | Cat# 12–4875-82, RRID: AB_1603275 |
| Anti-P2X7R (1F11) | Biolegend | Cat# 148704, RRID: AB_2650952 |
| Anti-Granzyme B Recombinant (QA16A02) | Biolegend | Cat# 372215, RRID: AB_2728382 |
| Anti-CD49a (Ha31/8) | BD Biosciences | Cat# 740262, RRID: AB_2740005 |
| Anti-Ki67 (Rabbit Polyclonal) | Abcam | Cat#ab15580, RRID:AB_443209 |
| Anti-Keratin-5 (Rabbit polyclonal) | Biolegend | Cat#905503, RRID:AB_2734679 |
| Anti-P63 | SantaCruz Biotechnology | Cat#sc-25268 PE, RRID:AB_628092 |
| Donkey anti-rabbit Cy-3 secondary | Jackson Immunoresearch | Cat#711–165-152, RRID:AB_2307443 |
| Goat anti-rabbit AF488 secondary | Jackson Immunoresearch | Cat#111–545-144, RRID:AB_2338052 |
| anti-IFN-g (XMG1.2) | Biolegend | Cat# 505826, RRID:AB_2295770 |
| anti-TNF-a (MP6-XT22) | Biolegend | Cat# 506328, RRID:AB_2562902 |
| anti-IL-2 (JES6–5H4) | Biolegend | Cat# 503808, RRID:AB_315302 |
| anti-mouse CD3e | Biolegend | Cat# 100302, RRID:AB_312667 |
|
Bacterial and virus strains | ||
| Lymphocytic choriomeningitis virus (LCMV)- Armstrong strain | Dr. David Masopust, University of Minnesota | N/A |
| HSV-2 186 kpn (TK−) | Dr. David Masopust, University of Minnesota and Dr. Jennifer Lund, Fred Hutch Cancer Center | N/A |
| HSV-1K26-GFP | Dr. David Knipe, Harvard University | N/A |
| HSV-2 333(ZAG)-GFP | Dr. Betsy Herold, Albert Einstein College of Medicine, and Dr. P. Spear, Northwestern University | N/A |
| Runx3 expressing retrovirus | Dr. J. Justin Milner, Univ. of North Carolina12 | N/A |
|
Chemicals, peptides, and recombinant proteins | ||
| Collagenase IV | Sigma | Cat# C5138 |
| Dnase I | Sigma | Cat# DN25 |
| Ghost Dye Red 780 | Tonbo Biosciences | Cat# 13–0865-T100 |
| H-2Kb -restricted peptide SIINFEKL | Alan Scientific | N/A |
| H-2Db -restricted LCMV peptide GP33–41 | Alan Scientific | N/A |
| H-2Kb -restricted peptide HSV gB498–505 peptide | Alan Scientific | N/A |
| B-27™ Supplement (50X), serum free | Thermo Fisher Scientific | Cat# 17504044 |
| Y-27632 dihydrochloride | Tocris Biosciences | Cat# 12–541 |
| Mouse EGF Recombinant Protein | PeproTech | Cat#315–09-1MG |
| CWHM-12 | Peter Ruminski, Washington University, St.Louis | N/A |
| SB431542 | Selleck Chemical | Cat#50–797-0 |
| Cultrex BME | R&D Systems | Cat#343201001 |
| Recombinant Mouse B7.1 (CD80)-Fc Chimera | Biolegend | Cat#555406 |
| Recombinant Mouse IL-2 | Biolegend | Cat#575408 |
| Recombinant Mouse IL-12 | Biolegend | Cat#577002 |
| DAPI (4’,6-Diamidino-2-phenylindole dihydrochloride, 2-(4-Amidinophenyl)-6-indolecarbamidine) dihydrochloride | Sigma | Cat#D9542 |
| H-2Db/GP33–41 KAVYNFATM biotinylated tetramer | NIAID Tetramer core | N/A |
| H-2Kb/OVA257–264 SIINFEKL biotinylated tetramer | NIAID Tetramer core | N/A |
| H-2Kb/HSVgB 498–505 biotinylated tetramer | NIAID Tetramer core | N/A |
|
Critical commercial assays | ||
| LEGENDplex™ Mouse/Rat Free Active/Total TGF-β1 Assay | Biolegend | Cat#740490 |
| RNeasy Plus Micro Kit | Qiagen | Cat#74034 |
| MojoSort™ Mouse CD8 Naive T cell Isolation Kit | Biolegend | Cat#480044 |
|
Deposited data | ||
| Transcriptional comparison of VEO-differentiated CD8 TRM and the CD8 T cells maintained alone | This paper | GEO: GSE249204 |
| Transcriptional comparison of CD8 TRM and TCM in response to HSV-2 infection | This paper | GEO: GSE270942 |
| TCM and TRM signature | Milner et al.34 | GEO: GSE147080 |
|
Experimental models: Cell lines | ||
| Baby hamster kidney-21 cells | ATCC | Catalog# BHK-21 [C-13] (ATCC CCL-10) |
| Vero cells | ATCC | Catalog# Vero (ATCC CCL-81) |
| Vaginal epithelial organoid | This paper | N/A |
|
Experimental models: Organisms/strains | ||
| C57BL/6J | The Jackson Laboratory | Catalog# JAX:000664, RRID: IMSR_JAX:000664 |
| B6 CD45.1 | The Jackson Laboratory | Catalog# JAX:033076, RRID:IMSR_JAX:033076 |
| B6 Thy1.1 | The Jackson Laboratory | Catalog# JAX:000406, RRID: IMSR_JAX:000406 |
| OT-I | The Jackson Laboratory | Catalog# JAX:003831 RRID:IMSR_JAX:003831 |
| P14 | Dr. David Masopust, Univ. of Minnesota; Dr. Rafi Ahmed, Emory University | Catalog# MUGEN:M189001, RRID: IMSR_MUGEN:M189001 |
| gBT-1 | Dr. Gregoire Lauvau, Albert Einstein College of Medicine, Mueller et al.56 | N/A |
|
Oligonucleotides | ||
| Axin2_F: CGACCCAGTCAATCCTTATCAC | Ali et al.18 | N/A |
| Axin2_R: GGGACTCCATCTACGCTACTG | Ali et al.18 | N/A |
| Birc5_F: CCAGGCATGAAGAGTCAGGG | This paper | N/A |
| Birc5_R: GGCTGCCTGCTTAGAGTTGA | This paper | N/A |
| Ki67_F: GAGGAGAAACGCCAACCAAGAG | Origene | N/A |
| Ki67_R: TTTGTCCTCGGTGGCGTTATCC | Origene | N/A |
| Sprr1a_F: CAAGGCACCTGAGCCCTGCAA | Origene | N/A |
| Sprr1a_R: AGGCTCTGGTGCCTTAGGTTGG | Origene | N/A |
| Krt1_F: GACTCGCTGAAGAGTGACCAGT | Origene | N/A |
| Krt1_R: GGTCACGAACTCATTCTCTGCG | Origene | N/A |
|
Software and algorithms | ||
| Trimomatic | http://www.usadellab.org/cms/index.php?page=trimmomatic | Trimmomatic (RRID:SCR_011848) |
| STAR | http://code.google.com/p/rna-star/ | STAR (RRID:SCR_004463) |
| ClusterProfiler | http://bioconductor.org/packages/release/bioc/html/clusterProfiler.html | clusterProfiler (RRID:SCR_016884) |
| GSEA | http://www.broadinstitute.org/gsea/ | Gene Set Enrichment Analysis (RRID:SCR_003199) |
| Pheatmap | https://www.rdocumentation.org/packages/pheatmap/versions/0.2/topics/pheatmap | pheatmap (RRID:SCR_016418) |
| Flowjo v10 software | BD Biosciences https://www.flowjo.com/solutions/flowjo | FlowJo (RRID:SCR_008520) |
| GraphPad Prism v10 | GraphPad http://www.graphpad.com/ | GraphPad Prism (RRID:SCR_002798) |