KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Anti-GFAP (dilution 1:400) | Novus Biologicals | AB_10001722 |
| Anti-GFP (dilution 1:1000) | Aves labs | AB_2307313 |
| Anti-NOS1 (dilution 1:400) | Millipore Sigma | AB_91824 |
| Anti-HuC/D/ANNA-1 (dilution 1:20000) | Gift from Vanda Lennon | AB_2313944 |
| Anti-ChAT (dilution: 1:100) | Novus Biologicals | AB_1968484 |
| Anti-Nestin (dilution: 1:200) | Santa Cruz | AB_627994 |
| Donkey Anti-rabbit Cy2 (dilution 1:400) | Jackson Immuno Research | AB_2340612 |
| Donkey Anti-rat Cy2, Cy5 (dilution 1:400) | Jackson Immuno Research | AB_2340673, AB_2340671 |
| Donkey Anti-chicken Cy5 (dilution 1:400) | Jackson Immuno Research | AB_2340365 |
| Donkey anti-goat AF647 (dilution 1:400) | Jackson Immuno Research | AB_2340436 |
| Donkey anti-human Cy3 (dilution 1:400) | Jackson Immuno Research | AB_2340535 |
| Rat APC/Cy7 anti-mouse CD45 (dilution 1:200) | Biolegend | 103116 |
| Rat PE/Cy5 anti-mouse CD45 (dilution 1:200) | Thermo Fisher Scientific | 15-0451-82 |
| Armenian Hamster PE/Cyanine5 anti-mouse TCR B (dilution 1:200) | Biolegend | 109209 |
| Rat FITC anti-mouse CD64 (dilution 1:200) | Biolegend | 139316 |
| Rat PE/dazzle anti-mouse CD3 (dilution 1:200) | Biolegend | 100245 |
| Rat PE/dazzle anti-mouse CD5 (dilution 1:200) | Biolegend | 100643 |
| Rat PE/dazzle anti-mouse CD19 (dilution 1:200) | Biolegend | 115553 |
| Rat APC anti-mouse CD11c (dilution 1:200) | Biolegend | 117310 |
| Rat PE/Cy7 anti-mouse CD11b (dilution 1:200) | Biolegend | 101216 |
| Rat PE anti-mouse CSF1R (dilution 1:200) | Thermo Fisher Scientific | MA5-16531 |
| Rat PerCP/Cy5.5 anti-mouse Ly6G (dilution 1:200) | Biolegend | 127616 |
| Rat BV605 anti-mouse CD103 (dilution 1:200) | Biolegend | 121433 |
| Rat BV421 anti-mouse MHCII (dilution 1:200) | Biolegend | 107632 |
| Rat BV711 anti-mouse CX3CR1 (dilution 1:200) | Biolegend | 149031 |
| Rat AF700 anti-mouse Ly6C (dilution 1:200) | Biolegend | 128024 |
| Mouse APC-eFluor 780 anti-mouse CD90 (dilution 1:200) | Thermo Fisher Scientific | 47-0900-82 |
| Rat Anti-mouse TNFα monoclonal antibody | BioXCell | AB_1107764, BP0058 |
| Rat Anti-mouse IL-23 (p19) monoclonal antibody | BioXCell | AB_2754551, BE0313 |
| Rat Anti-mouse CSF1 monoclonal antibody | BioXCell | AB_10950309, BE0204 |
| Mouse Anti-mouse TGFβ monoclonal antibody | BioXCell | AB_1107757, BP0057 |
| Rat anti-mouse IL-6 | BioXCell | AB_1107709, BE0046 |
| Rat anti-mouse IL-10R (CD210) | BioXcell | AB_1107611, BE0050 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Dextran sulfate sodium | MP Biomedicals | 160110 |
| Tamoxifen | Sigma | T5648-1G |
| 6-hydroxydopamine hydrochloride (6-OHDA) | Sigma | H4381-500MG |
| Dexamethasone | Med Chem Express | HY-14648 |
| ICI118,551 | Sigma | 5052750001 |
| RU486 | Cayman Chemicals | 10006317 |
| Antalarmin | Sigma | A8727-50MG |
| Nicotine | Sigma | N3876 |
| BRAINSPAReDT | Gift from Ana Domingos (Oxford) | N/A |
| Diphtheria Toxin | Sigma | D0564-1MG |
| clozapine N-oxide | Sigma | C0832 |
| Carmine red dye | Sigma | C1022 |
| Methylcellulose | Sigma | 94378-100G |
| 4% paraformaldehyde | Thermo scientific | J19943.K2 |
| Methanol | Sigma | 322415-1L |
| Donkey serum | Jackson ImmunoResearch | 017-000-001 |
| Benzyl alcohol | Sigma | 305197-1L |
| Bezyl benzoate | Sigma | W213810-100G-K |
| Collagenase V | StemCell | 07430, 07431, 100-0681 |
| DTT | Sigma | 10197777001 |
| Collagenase D | Sigma | 11088866001 |
| Dispase | Sigma | D4693-1G |
| DNase | Roche | 4716728001 |
| TRIzol | Invitrogen | 15596026 |
| DMSO | Sigma-Aldrich | cat. # D8418 |
| Triton X-100 | Sigma-Aldrich | X100-100ML |
| Fetal bovine serum (FBS) | Cell center | Cat. #7210 |
| LIVE/DEAD Fixable Aqua Cell Stain Kit | ThermoFisher | Cat. #L34957 |
| Dulbecco’s Phosphate Buffered Saline | Fisher Scientific | Cat. #11593377 |
| LPS | Novus Biologicals | NBP2-25295 |
| Recombinant murine CSF-1 | PeproTech | 315-02 |
| Dulbecco’s Modified Eagle Medium (DMEM) | Thermo Fisher Scientific | #10569010 |
| Penicillin-Streptomycin (10,000 U/mL) | Thermo Fisher Scientific/Gibco | #15140122 |
| Critical Commercial Assays | ||
| Mouse Lipocalin-2 DuoSet ELISA | R&D Systems | DY1857-05 |
| Norepinephrine ELISA Kit | IBL-America | IB89537 |
| Amplex® Red Acetylcholine Assay Kit | Invitrogen | A12217 |
| Corticosterone ELISA kit | DRG International | EIA-4164 |
| IL-6 ELISA kit | R&D Systems | DY406-05 |
| Dexamethasone ELISA kit | Elabscience | E-FS-E009 |
| TNF ELISA kit | Thermo Fisher Scientific, | 88-7324-22 |
| Monocyte Isolation kit (BM, Mouse) | Miltenyi | 130-100-629 |
| Click-iT™ EdU Alexa Fluor™ 647 Imaging Kit | Thermo Fisher Scientific | C10340 |
| Illumina TruSeq stranded mRNA kit | Illumina | 20020594 |
| Deposited Data | ||
| ENS snRNASeq | GEO | GSE229322 |
| Leukocyte ScRNASeq | GEO | GSE229321 |
| Bulk RNASeq Colon | GEO | GSE229320 |
| Experimental Models: Organisms/Strains | ||
| C57BL6/J | Jackson Laboratory | #000664 |
| C57BL6/J | Charles River | 027C57BL6/J |
| B6;CBA-Tg-Sox10-cre 1Wdr/J | Jackson Laboratory | #025807 |
| CBA;B6-Tg(Sox10-icre/ERT2)388Wdr/J | Jackson Laboratory | #027651 |
| B6.Cg-Tg(Plp1-cre/ERT)3Pop/J | Jackson Laboratory | #005975 |
| C57BL/6-Gt(ROSA)26Sortm1(HBEGF)Awai/ROSA26iDTR | Jackson Laboratory | #007900 |
| B6;129-Gt(ROSA)26Sortm5(CAG-Sun1/sfGFP)Nat/J | Jackson Laboratory | #021039 |
| B6.129P2-Il10tm1Cgn/J | Jackson Laboratory | #002251 |
| B6.Cg-Rag2tm1.1Cgn/J | Jackson Laboratory | #008449 |
| B6.Cg-Tg(RP23-268L19-EGFP)2Mik/J | Jackson Laboratory | #007902 |
| B6.Cg-Tg(Vil1-cre)1000Gum/J | Jackson Laboratory | #021504 |
| C57BL/6NTac.Cg-Rag2tm1FwaIl2rgtm1Wjl | Taconic | 4111-F/M |
| IL-17-GFP | Gift from R. Flavell (Yale) | N/A |
| Il22−/− | Gift from R. Flavell (Yale) | N/A |
| CCR2-DTR | Gift from M. Abt (UPenn) | N/A |
| Il22 tdTomato | Gift from S. Durum (NIH/NCI) | N/A |
| B6.129S6-Nr3c1tm2.1Ljm/J | Jackson Laboratory | # 012914 |
| B6.129P2-Lyz2tm1(cre)Ifo/J | Jackson Laboratory | 004781 |
| Software and Algorithms | ||
| GraphPad Prism version 9 | GraphPad Software | https://www.graphpad.com |
| Fiji | ImageJ | https://imagej.net |
| Microsoft Excel | Microsoft | https://www.microsoft.com/en-us/microsoft-365/excel |
| FlowJo 10 | BD | www.flowjo.com |
| Statistical computing environment R | R core team | www.r-project.org |
| Kallisto version 0.46 | Pachter lab | https://pachterlab.github.io/kallisto/ |
| Seurat | Satija lab | https://satijalab.org/seurat/ |
| SingleR version 1.4.0 | N/A | Aran, Looney et al., 2019 |