KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER | ||
|---|---|---|---|---|
| Antibodies | ||||
| Anti-mouse CD4 Antibody, clone RM4-5, BV421 conjugated | BioLegend | Cat#100544; RRID: AB_11219790 | ||
| Anti-mouse TCR beta antibody, clone H57-597, APC-eFluor780 conjugated | eBioscience/ThermoFisher Scientific | Cat#47-5961-82; RRID: AB_1272173 | ||
| Anti-mouse CD45 antibody, clone 30-F11, PE/Dazzle 594 conjugated | BioLegend | Cat#103146; RRID: AB_2564003 | ||
| Anti-mouse IL-17A antibody, clone TC11-18H10.1, PE/Cy7 conjugated | BioLegend | Cat#506922; RRID: AB_2125010 | ||
| Anti-mouse TCR V beta 6 antibody, clone RR4-7, PerCP-eFluor710 conjugated | eBioscience/ThermoFisher Scientific | Cat#46-5795-82; RRID: AB_11150054 | ||
| Anti-mouse TCR V beta 14 antibody, clone 14-2, Biotin conjugated | BD Biosciences | Cat#553257; RRID: AB_394737 | ||
| Anti-mouse TCR V beta 14 antibody, clone 14-2, FITC conjugated | BD Biosciences | Cat#553258; RRID: AB_394738 | ||
| Anti-mouse CD44 antibody, clone IM7, Alexa Fluor 700 conjugated | BioLegend | Cat#103026; RRID: AB_493713 | ||
| Anti-mouse CD45.1 antibody, clone A20, FITC conjugated | BioLegend | Cat#110705; RRID: AB_313494 | ||
| Anti-mouse CD45.2 antibody, clone 104, Alexa Fluor 700 conjugated | BioLegend | Cat#109822; RRID: AB_493731 | ||
| Anti-mouse PD-1 antibody, clone RPM1-30, PE conjugated | BioLegend | Cat#109104; RRID: AB_313421 | ||
| Anti-mouse CXCR5 antibody, clone 2G8, Biotin conjugated | BD Biosciences | Cat#551960; RRID: AB_394301 | ||
| Anti-mouse IFN-γ antibody, clone XMG1.2, PE conjugated | BioLegend | Cat#505808; RRID: AB_315402 | ||
| Anti-mouse CD4 antibody, clone RM4-5, PE conjugated | BioLegend | Cat#100512; RRID: AB_312715 | ||
| Anti-mouse CD19 antibody, clone 1D3, FITC conjugated | BD Biosciences | Cat#553785; RRID: AB_395049 | ||
| Anti-mouse CD19 antibody, clone 6D5, PerCP/Cy5.5 conjugated | BioLegend | Cat#115534; RRID: AB_2072925 | ||
| Alkaline Phosphatase AffiniPure Goat Anti-Mouse IgG, Fcγ fragment specific | Jackson ImmunoResearch Laboratories | Cat#115-055-008; RRID: AB_2338530 | ||
| Anti-mouse IgG1 antibody, clone RMG1-1, biotin conjugated | BioLegend | Cat#406604; RRID: AB_315063 | ||
| Rat IgM, κ Isotype Control, clone R4-22, biotin conjugated | BD Biosciences | Cat#553941; RRID: AB_10053773 | ||
| Rat IgM, κ Isotype Control, clone R4-22, FITC conjugated | BD Biosciences | Cat#553942; RRID: AB_479631 | ||
| Biological Samples | ||||
| SFB feces | Laboratory of H.-J.J.W.; Teng et al., 2016 | N/A | ||
| Chemicals, Peptides, and Recombinant Proteins | ||||
| A6 peptide (DVQFSGAVPNKTD) | GenScript; Yang et al., 2014 | N/A | ||
| N3 peptide (STGKFNVSGITAPGIYT) | GenScript; Yang et al., 2014 | N/A | ||
| GPI protein | Laboratory of H.-J.J.W.; Monach et al., 2008 | N/A | ||
| CD4 (L3T4) MicroBeads, mouse | Miltenyi Biotec | Cat#130-049-201 | ||
| CD11c MicroBeads UltraPure, mouse | Miltenyi Biotec | Cat#130-108-338 | ||
| Vancomycin | Hospira | Cat#CA-2581 | ||
| Collagenase D | Roche | Cat#11088882001 | ||
| Deoxyribonuclease I from bovine pancreas | Sigma | Cat# DN25-1G; CAS: 9003-98-9 | ||
| Anti-CD3 | BioLegend | Cat#100314 | ||
| Anti-CD28 | BioLegend | Cat#102112 | ||
| Recombinant mouse IL-2 | Peprotech | 212-12 | ||
| Recombinant mouse IL-12 | Peprotech | 210-12 | ||
| Recombinant mouse IL-6 | Peprotech | Cat#216-16 | ||
| recombinant human TGF-β1 | Peprotech | Cat#100-21 | ||
| 6-Formylindolo(3,2-b)carbazole (FICZ) | Enzo Life Sciences | BML-GR206-0100 | ||
| Tripure Isolation Reagent | Roche | 11667165001 | ||
| Streptavidin, APC conjugated | BioLegend | Cat#405207 | ||
| Streptavidin, BV605 conjugated | BioLegend | Cat#405229 | ||
| Phosphatase Substrate Tablets | Sigma | Cat#S0942-200TAB | ||
| Critical Commercial Assays | ||||
| Click-iT Plus EdU Imaging Kit | ThermoFisher Scientific | C10637 | ||
| Dead Cell Apoptosis Kit with Annexin V Alexa Fluor 488 | ThermoFisher Scientific | V132415 | ||
| LIVE/DEAD Fixable Yellow Dead Cell Stain Kit | ThermoFisher Scientific | Cat#L34968 | ||
| Mouse/rat IL-17A ELISPOT Ready-SET-Go! Kit | eBioscience | 88-7370-21 | ||
| CCL20 TaqMan Gene Expression Assay | ThermoFisher Scientific | Cat#4453320; Assay ID: Mm01268754_m1 | ||
| HPRT TaqMan Gene Expression Assay | ThermoFisher Scientific | Cat#4453320; Assay ID: Mm01545399 | ||
| TaqMan Fast Advanced Master Mix | ThermoFisher Scientific | Cat#4370074 | ||
| Maxima First Strand cDNA Synthesis Kit | ThermoFisher Scientific | Cat#K1642 | ||
| SYBR Select Master Mix | ThermoFisher Scientific | Cat#4472908 | ||
| Experimental Models: Organisms/Strains | ||||
| Mouse: K/BxN (KRN transgenic on C57BL/6J background × NOD) | Laboratory of H-J.J.W; Monach et al., 2008 | N/A | ||
| Mouse: BxN (B6 × NOD) | Monach et al., 2008 | N/A | ||
| Mouse: Tcra−/−.B6: B6.129S2-Tcratm1Mom/J | Jackson Laboratories | JAX: 002116 | ||
| Mouse: Tcra−/−.BxN (Tcra−/−.B6 × Tcra−/−.NOD) | Laboratory of H-J.J.W; Teng et al., 2016 | N/A | ||
| Mouse: Rorc−/−.KRN | Laboratory of H-J.J.W; Teng et al., 2016 | N/A | ||
| Mouse: Rag−/−.KRN | Laboratory of H.H. and H-J.J.W; Teng et al., 2016 | N/A | ||
| Mouse: 7B8 SFB-TCR CD45.1/B6 | Laboratory of D.R.L; Yang et al., 2014 | N/A | ||
| Oligonucleotides | ||||
| Primer: SFB Forward: GAC GCT GAG GCA TGA GAG CAT | Eurofins Genomics; Teng et al., 2016 | N/A | ||
| Primer: SFB Reverse: GAC GGC ACG GAT TGT TAT TCA | Eurofins Genomics; Teng et al., 2016 | N/A | ||
| Primer: EUB Forward: CGG CAA CGA GCG CAA CCC | Eurofins Genomics; Teng et al., 2016 | N/A | ||
| Primer: EUB Reverse: CCA TTG TAG CAC GTG TGT AGC C | Eurofins Genomics; Teng et al., 2016 | N/A | ||
| Software and Algorithms | ||||
| FlowJo v10.0.8 | FlowJo | http://www.flowjo.com | ||
| Prism (v7) | GraphPad | http://www.graphpad.com | ||
| ImageJ | NIH | https://imagej.nih.gov/ij/ | ||