KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Rat anti B220 (clone: RA3 6B2) PerCPCy5.5 | BD Biosciences | Catalog # 561101 RRID AB_10565970 |
| Rat anti CD19 (clone 1D3) FITC | BD Biosciences | Catalog # 553785 RRID AB_395049 |
| Rat anti IgM (clone B7-6) A488 | Prepared in the lab | N/A |
| Rat anti CD21 (clone 7G6) A488 | Prepared in the lab | N/A |
| Rat anti CD23 (clone B3B4) PE | eBioscience | Catalog # 12-0232-82 RRID AB_465595 |
| Rat anti CD4 (clone GK1.5) BV421 | Biolegend | Catalog # 100401 RRID AB_10900241 |
| Hamster anti TCR-β (clone H57-597) PECy7 | Biolegend | Catalog # 109222 |
| Rat anti CD138 (clone 281-2) APC | Biolegend | Catalog # 142506 RRID AB_10960141 |
| Rat anti CD44 (IM7) APCCy7 | Biolegend | Catalog # 103028 RRID AB_830785 |
| Rat anti CD73 (clone TY-11.8) bi | Biolegend | Catalog # 127204 RRID AB_1089062 |
| Hamster anti CD80 (clone 16-10A1) APC | eBioscience | Catalog # 16-0801-82 RRID AB_467348 |
| Rat anti PD-L2 (clone TY25) PE | eBioscience | Catalog # 12-5986-82 RRID AB_466845 |
| Hamster anti CD95 (clone Jo2) PECy7 | BD Biosciences | Catalog # 557653 RRID AB_2739999 |
| Rat anti CD169 (clone 3D6.112) A647 | Biolegend | Catalog # 142402 RRID AB_2563620 |
| Anti CD11b (clone M1-70) APCCy7 | Biolegend | Catalog # 101214 RRID AB_830641 |
| Anti CD11c (clone N418) A647 | eBioscience | Catalog # 14-0114-82 RRID AB_469346 |
| Anti CD69 (H1.2F3) PE | eBioscience | Catalog # 12-0691-82 RRID AB_467326 |
| Rat anti AID (clone mAID2) bi | eBioscience | Catalog # 14-5959-82 RRID AB_468662 |
| Anti T-bet (clone 4B10) PECy7 | Biolegend | Catalog # 644824 RRID AB_2561760 |
| Bacterial and Virus Strains | ||
| Ehrlichia muris | This paper and Thirumalapura et al., 2009 | N/A |
| Chemicals, Peptides, and Recombinant Proteins | ||
| E. muris antigens Omp 12 and Omp 19 | This paper and Crocquet-Valdes et al., 2011 | N/A |
| PNA | Vector laboratories and conjugated in the lab | Catalog # L1070 RRID AB_2315097 |
| Oligonucleotides | ||
| 5-GGGAATTCGAGGTGCAGCTGCAG-3 | This paper and Di Niro et al., 2015 | N/A |
| 5-TGCGAAGTCGACGCTGAGGAGACGGTGACCGTGG-3 | ||
| 5-TGCGAAGTCGACGCTGAGGAGACTGTGAGAGTGG-3 | ||
| 5-TGCGAAGTCGACGCTGCAGAGACAGTGACCAGAG-3 | ||
| 5-TGCGAAGTCGACGCTGAGGAGACGGTGACTGAGG-3 | ||
| 5-GGGAATCGAGGTGCAGCTGCAGGAGTCTGG-3 | ||
| 5- TGGTCCCTGTGCCCCAGACATCG -3 | ||
| 5- GTGGTGCCTTGGCCCCAGTAGTC -3 | ||
| 5- AGAGTCCCTTGGCCCCAGTAAGC -3 | ||
| 5- GAGGTTCCTTGACCCCAGTAGTC -3 | ||
| Critical Commercial Assays | ||
| Click IT Plus Edu kit | Thermofisher | Catalog # C10634 |
| Ni NTA Spin kit | Qiagen | Catalog # 31314 |
| RNeasy plus micro kit | Qiagen | Catalog # 74034 |
| Zero Blunt PCR Cloning kit | Thermofisher | Catalog # 450031 |
| Deposited Data | ||
| mRNA-seq data | Gene Expression Omnibus database | GSE137154 |
| Experimental Models: Organisms/Strains | ||
| C57BL/6 mice | Jackson Laboratories | Catalog # 000664 |
| B18+/+ C57BL/6 mice | This paper and Sonoda et al., 1997 | N/A |
| B18+/+ Vk8R+/+ C57BL/6 mice | This paper and Sonoda et al., 1997 | N/A |
| huCD20 TamCre C57BL/6 mice | This paper and Khalil et al., 2012 | N/A |
| T-bet fl/fl C57BL/6 mice | This paper and Intlekofer et al., 2008 | N/A |
| huCD20 TamCre T-bet fl/fl C57BL/6 mice | This paper | N/A |
| B18+/− Vk8R+/− CD45.1/2 C57BL/6 mice | This paper | N/A |
| Software and Algorithms | ||
| Flow Jo version 10 | Flow Jo |
https://www.flowjo.com/ RRID SCR_008520 |
| GraphPad Prism 7 | GraphPad |
https://www.graphpad.com/scientific-software/prism/ RRID SCR_002798 |
| IMGT V quest | IMGT |
http://www.imgt.org/ RRID SCR_012780 |
| MUSCLE | European Bioinformatics |
https://www.ebi.ac.uk/Tools/msa/muscle/ RRID SCR_011812 |
| FastQC v0.11.7 | Babraham Institute |
https://www.bioinformatics.babraham.ac.uk/projects/fastqc/ RRID SCR_014583 |
| Trimgalore v0.3.8 | Babraham Institute |
https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/ RRID SCR_016946 |
| cutadapt v1.18 | Babraham Institute |
https://github.com/marcelm/cutadapt/ RRID:SCR_011841 |
| STAR v2.6.1a | Dobin et al., 2013 | https://github.com/alexdobin/STAR |
| Subread v1.6.2; featureCounts | Liao et al., 2014 |
http://subread.sourceforge.net RRID SCR_009803 |
| Limma v3.20.9-voom | Law et al., 2014; Ritchie et al., 2015 |
https://ucdavis-bioinformatics-training.github.io/2018-June-RNA-Seq-Workshop/thursday/DE.html RRID SCR_010943 |
| Limma v3.20.9-rankSumTestWithCorrelation | Barry et al. 2008 |
https://www.rdocumentation.org/packages/limma/versions/3.28.14/topics/rankSumTestWithCorrelation RRID SCR_010943 |
| ImmuneDB v0.24.0 | Rosenfeld, et al., 2018 |
https://immunedb.readthedocs.io/en/latest/ RRID:SCR_017125 |