Key Resources Table
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Bacterial and Virus Strains | ||
| S. Typhimurium SL1344, StrepR | Monack Lab strain collection | N/A |
| S. Typhimurium SL1344 ΔorgA, StrepR/TetR | Monack Lab strain collection | N/A |
| Listeria monocytoqenes 10403S | Monack Lab strain collection | N/A |
| Clostridioides difficile 630 | Sonnenburg Lab strain collection | N/A |
| Yersinia pseudotuberculosis IP2666 | Monack Lab strain collection | N/A |
| Bacteroides ovatus | ATCC | 8483 |
| Bacteroides uniformis | ATCC | 8492 |
| Bacteroides acidifaciens | DSMZ | 15896 |
| Bacteroides acidifaciens, mouse isolate 1 | This study, C57BL/6 Nramp+/+ feces | N/A |
| Bacteroides acidifaciens, mouse isolate 2 | This study, C57BL/6 Nramp+/+ feces | N/A |
| Bacteroides thetaiotaomicron VPI Δtdk | Sonnenburg Lab strain collection | N/A |
| Bacteroides thetaiotaomicron VPI Δ1686–1689 Δtdk, clone 1.2 | Kovatcheva-Datchary et al., 2015 | N/A |
| Bacteroides thetaiotaomicron VPI A1686–1689Δtdk, clone 1.8 | Kovatcheva-Datchary et al., 2015 | N/A |
| Prevotella copri | DSMZ | 18025 |
| Rikenella microfusis | ATCC | 29728 |
| Clostridiaceae sp. 4 1 37FAA | ATCC | 35704 |
| E. coli S17λ pir | Sonnenburg Lab strain collection | N/A |
| Chemicals, Peptides, and Recombinant Proteins | ||
| LB Broth, Miller | Fisher Scientific | BP1426 |
| LB Agar, Miller | Fisher Scientific | BP1425 |
| Brain Heart Infusion | BD | 237500 |
| Sheep Blood | Hemostat Laboratories | DSB500 |
| PowerSoil DNA Isolation Kit | MoBIO | 12955 |
| 5PRIME HotMasterMix | QuantaBio | 2200400 |
| UltraClean PCR Cleanup Kit | MoBIO | 12596 |
| Quant-iT High-Sensitivity dsDNA Assay Kit | ThermoFisher Scientific | Q33120 |
| Sodium formate | Sigma | 71539 |
| Sodium acetate | Sigma | S2889 |
| Sodium propionate | Sigma | P1880 |
| Sodium butyrate | Sigma | 303410 |
| Sodium L-lactate | Sigma | L7022 |
| Succinic Acid, disodium salt | Sigma | S2378 |
| MTBSFTA | Sigma | 394882 |
| 37% HCI, HPLC-grade | Sigma | 339253 |
| DNase | Roche | 10104159001 |
| Liberase TL | Roche | 05401020001 |
| ACK Lysis Buffer | Lonza | 10–548E |
| BCECF-AM | ThermoFisher Scientific | B1170 |
| Propionic acid (<99.7%) | Sigma | 402907 |
| Inulin | Orafti | N/A |
| Inulin propionate ester | This study | N/A |
| Dialysis tubing, MWCO 500 | Spectrum Laboratories | 131060 |
| Critical Commercial Assays | ||
| Cytofix/Cytoperm Kit | BD Biociences | 554714 |
| RNeasy Mini Kit | QIAGEN | 74106 |
| Superscript III First-Strand Synthesis Kit | Invitrogen | 18080 |
| FastStart Universal SYBR Green Master Mix | Roche | 04913914001 |
| Deposited Data | ||
| 16s Sequencing Data | Mendeley | http://dx.doi.orq/10.1 7632/79h97qpxz5.1 |
| Antibodies | ||
| TruStain fcx anti-mouse CD16/32(Fc Block) | Biolegend | 101320 |
| Live/Dead Fixable Blue Viability Dye | Invitrogen | L34962 |
| CD45-Brilliant Violet 510 | Biolegend | 103138 |
| CD19-Alexa Fluor 780 | eBioscience | 47–0193-82 |
| CD11 b-Brilliant Violet 785 | Biolegend | 101243 |
| CD11c-PE-Cy7 | BD Biosciences | 558079 |
| Ly6G-BUV395 | BD | 563978 |
| Ly6C-APC | eBioscience | 17–5932-82 |
| CD3e-Pac Blue | eBioscience | 48–0032-82 |
| NK1.1-e650NC | eBioscience | 95–5941-42 |
| CD64-PE | BioLegend | 139304 |
| Experimental Models: Organisms/Strains | ||
| 129SvJ/X1 | Jackson Laboratory | Cat# 000691 |
| C57BL/6 Nramp+/+ | In-house colony | N/A |
| Oligonucleotides | ||
| For primers used in this study, see Table S2. | ||
| Recombinant DNA | ||
| Plasmid: pHBU2-tdk, CarbR/ErmR | Sonnenburg Lab | N/A |
| Plasmid: pNBU2–7686–1689, CarbR/TetR | This study | N/A |
| Software and Algorithms | ||
| QIIMEv. 1.9.1 | Caporasoetal., 2010 | www.qiime.orq |
| FastQCv. 0.11.4 | http://www.bioinformatics.bab raham.ac.uk/proiects/fastqc/ | N/A |
| MATLAB | Mathworks | https://www.mathwor ks.com/products/mat lab.html |
| FACSDIVA | BD Biosciences | http://www.bdbioscie nces.com/us/instrum ents/clinical/software/flow-cvtometrv-acquisition/bd-facsdiva-software/m/333333/o verview |
| FlowJo v. 10.0.8 | FlowJo, LLC | https://www.flowio.co m/ |
| Prism | GraphPad | https://www.qraphpa d.com/scientific-software/prism/ |