Key resources table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| anti-CD16/32, mouse clone 93, purified | Biolegend | 101302 |
| anti-CD4, mouse clone RM4–5, eFluor450 | eBioscience | 48–0042 |
| anti-CD45.2, mouse clone Ly-5.2, Alexa Fluor 700 | Biolegend | 109822 |
| anti-CD8a, mouse clone 53–6.7, PE | eBioscience | 12–0081 |
| anti-CD90.2, mouse clone 53–2.1, PE-Cyanine7 | eBioscience | 25–0902 |
| anti-NeuN, monoclonal clone EPR12763, Alexa Fluor | Abcam | ab190195 |
| 4nti-NeuN, monoclonal clone EPR12763, Alexa Fluor | Abcam | ab190565 |
| 6nti-TCR-β, mouse clone 53–2.1, FITC | Biolegend | 109206 |
| InVivoMAb anti-CD4, rat monoclonal mouse clone | BioXCell | BE0003 |
| InVivoMAb rat IgG2b isotype control; anti-keyhole | BioXCell | BP0090 |
| Virus strains and plasmids | ||
| AAV9-cFos-tTA | this paper | N/A |
| AAV9-hSyn1 -IRES-eGFP-WPRE | Vectorbiolabs | N/A |
| AAV 9-TRE-H2B-GFP | this paper | N/A |
| CMV-H2B-GFP | Addgene | 11680 |
| pAAV-cFos-tTA | Addgene | 66794 |
| pAAV -TRE-EGFP | Addgene | 89875 |
| pENN.AAV.hSyn.HI.eGFP-Cre.WPRE.SV40 | Addgene | 105540-AAV9 |
| Chemicals, peptides, and recombinant proteins | ||
| (+) bicuculline | Sigma | 14340 |
| 4-hydroxytamoxifen | Sigma | H6278 |
| 6-Diamidino-2-phenylindole | Sigma-Aldrich | D9542 |
| ACK Lysing Buffer | Quality Biological | 118–156-101CS |
| artificial cerebrospinal fluid | Harvard Apparatus | 597316 |
| Benzaldehyde | Sigma-Aldrich | B1334 |
| Castor oil | Sigma | 259853 |
| Cs-gluconate | Hello Bio | HB4822 |
| D-AP5 | Tocris | 106 |
| Deoxyribonuclease I | Sigma-Aldrich | DN25–1G |
| DNQX | Sigma | D0540 |
| Doxycycline diet (40 mg / kg) | Envigo | TD.120240 |
| EGTA | Sigma | E3889 |
| Formalin, Phosphate Buffered (10%) | Fisher Scientific | SF100–4 |
| Heparin Sodium | Fisher Scientific | H19 |
| Hoechst 33342 | Sigma-Aldrich | 14533 |
| Interleukin-4, recombinant murine protein | eBioscience | 14–8041-80 |
| K-gluconate | Sigma | P1847 |
| Kainic acid | Sigma-Aldrich | 420318 |
| LS columns | Miltenyi Biotec | 130–042-401 |
| Opal 520 Reagent Pack | Perkin Elmer | FP1487001KT |
| Opal 570 Reagent Pack | Perkin Elmer | FP1488001KT |
| Opal 690 Reagent Pack | Perkin Elmer | FP1497001KT |
| Optiprep density gradient medium (Iodixonoal) | Sigma-Aldrich | D1556 |
| Papain, Suspension | Worthington | LS003126 |
| Paraformaldehyde, Aqueous, EM grade (16%) | Fisher Scientific | 50–980-487 |
| ProLong Gold | Thermo Fisher | P36934 |
| Proteose Inhibitor Tablets, Complete Mini, EDTA-free | Thermo Fisher | 4693159001 |
| RNAscope Target Probe EGFP-O3 | Sigma-Aldrich | 492011 |
| RNAscope Target Probe Mm-Cdkl5-C2 | Advanced Cell | 500851-C2 |
| RNAscope Target Probe Mm-Fos-C2 | Advanced Cell | 316921-C2 |
| RNAscope Target Probe Mm-Gad1-C2 | Advanced Cell | 400951 |
| RNAscope Target Probe Mm-Gad2-C3 | Advanced Cell | 439371-C3 |
| RNAscope Target Probe Mm-IL4ra-C1 | Advanced Cell | 520171 |
| RNAscope Target Probe Mm-Rbfox3-C3 | Advanced Cell | 313311-C3 |
| RNAscope Target Probe Mm-Sall1-C3 | Advanced Cell | 469661-C3 |
| RNAscope Target Probe Mm-Slc17a6-C2 | Advanced Cell | 319171-C2 |
| RNAscope Target Probe Mm-Slc17a7-C3 | Advanced Cell | 416631 |
| RNAscope Target Probe Mm-Tmem119-C2 | Advanced Cell | 472901-C2 |
| Sunflower oil | Sigma | S5007 |
| Superase-In | Invitrogen | AM2696 |
| Tamoxifen diet (250 mg / kg) | Envigo | TD.130856 |
| Tetrodotoxin citrate | Hello Bio | HB1035 |
| Tissue-Plus O.C.T. Compound, clear | Thermo Fisher | 23–730-571 |
| TRIzol reagent | Thermo Fisher | 15596026 |
| Zombie Aqua Fixable Viability dye | Biolegend | 423102 |
| Critical commercial assays | ||
| Chromium Single Cell 3’ Library & Gel Bead Kit v2 | 10x Genomics | GN- B20237 |
| High-Capacity cDNA Reverse Transcription Kit | Applied Biosystems | 4374966 |
| iTaq Universal SYBR Green Supermix | Bio-Rad | 1725121 |
| Pan T cell Isolation Kit II, mouse | Miltenyi Biotec | 130–095-130 |
| RNAqueous-Micro Total RNA Isolation kit | Invitrogen | AM1931 |
| RNAscope Multiplex Fluorescent Reagent Kit v2 | Advanced Cell | 323110 |
| RNeasy Mini kit | Qiagen | 74106 |
| Deposited data | ||
| Fastq files and quantified gene counts for single nuclei | Gene Expression | GSE143183 |
| Experimental models: Organisms/strains | ||
| Mus musculus/C57BL/6J | The Jackson | 000664 |
| C57BL/6-Il4tm1Nnt/J (IL-4-/-) | The Jackson | 002518 |
| B6.Cg-Prkdcscid/SzJ (SCID) | The Jackson | 001913 |
| B6.129P2(Cg)-Cx3cr1tm2.1(cre/ERT2)Litt/WgadJ | The Jackron | 021160 |
| B6.Cg-Tg(Synl-cre)671Jxm/J (Syn-cre) | The Jackron | 003966 |
| The Il4ratm2Fbb (IL-4ra fl/fl) | Frank Brombacher, | |
| B6J.Cg-Gad2tm2(cre)Zjh/MwarJ (Gad2-cre) | The Jackson | 028867 |
| B6J.129S6(FVB)-Slc17a6tm2(cre)Lowl/MwarJ (Vglut2- | Hie Jackron | 028863 |
| B6.129(Cg)-Fostml.l(cre/ERT2)Luo/J (FosCreET) | Hie Jackron | 021882 |
| B6.Cg-Gt(ROSA)26Sortm6(CAGZsGreen1)Hze/J (Ai6) | Hie Jackron | 007906 |
| B6;129S-Gad2tm1.1Ksvo/J (Gad2-T2a-NLS-mCherry) | Hie Jackron | 023140 |
| Software and algorithms | ||
| CellProfiler v4.2.1 | Broad Institute | https://cellprofiler.or |
| Cellranger software pipeline v2.20 and v.4.0.0 | 10X Genomics | https://support.10xge |
| Cytobank | Beckman Coulter | https://www.cytoban |
| Fiji package for ImageJ | NIH | https://imagej.net/Fij |
| FlowJo v10.3 | Tree Star | https://www.flowjo.c |
| Illumina Bcl2fastq software g | Illumina | https://support.illumi |
| ImageJ | NIH | https://imagej.nih.go |
| MATLAB R2017b | MathWorks | https://mathworks.co |
| OriginPro v7.5 | OriginLab | https:/www.orginla |
| Prism v9.2.0 | GraphPad | https://www.graphpa |
| R Studio v3 | R Studio | https://rstudio.com/ |
| Seurat pipeline for R studio v.2.3.4 and 3.0 | Butler et al., 2018 | https://satijalab.org/s |
| Other | ||
| Axopatch- 2B amplifier | Molecular Devices | https://www.molecul |
| Capillary glass tubing | Warner Instruments | G150F-3 |
| Concentric bipolar stimulating electrode | FHC | CBATC75 |
| Digidata 1320A | Molecular Devices | https://www.molecul |
| Digidata 1440A | Molecular Devices | https://www.molecul |
| Isolator | AMPI | ISO-Flex |
| Mini-Beadbeater | Biospec Products | C321001 |
| MultiClamp 700B amplifier | Molecular Devices | https://www.molecul |
| pClamp 10.4 program | Molecular Devices | https://www.molecul |
| Peristaltic pump | Rainin | RP-1 |
| Vibratome | Leica | VT1200S |