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md tms minimum essential media mem gibco  (Thermo Fisher)


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    Thermo Fisher md tms minimum essential media mem gibco
    Md Tms Minimum Essential Media Mem Gibco, supplied by Thermo Fisher, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/md+tms+minimum+essential+media+mem+gibco/pm38806059-194-83-88
    Average 86 stars, based on 1 article reviews
    md tms minimum essential media mem gibco - by Bioz Stars, 2026-10
    86/100 stars

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    SYBR Green Assay:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    Polymerase Chain Reaction:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    DNA Extraction:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    Purification:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    cDNA Synthesis:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    Plasmid Preparation:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    Crocin Bleaching Assay:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A

    Recombinant:

    Article Title: Salmonella Typhimurium expansion in the inflamed murine gut is dependent on aspartate derived from ROS-mediated microbiota lysis.
    Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER Bacterial and virus strains S. Typhimurium, IR715 ATCC 14028 NalR Stojiljkovic et al.47 IR715 S. Typhimurium, IR715 DphoN::Tn10d-CmR Faber et al.48 FF176 S. Typhimurium, IR715 DphoN::KmR Kingsley et al.49 AJB715 S. Typhimurium, IR715 Dtar DphoN::KmR This study WJ65 S. Typhimurium, IR715 DaspA DphoN:: KmR This study WJ66 S. Typhimurium, IR715 DdcuA DphoN:: KmR This study WJ57 S. Typhimurium, IR715 DfrdABCD DphoN:: KmR This study WJ29 S. Typhimurium, IR715 DfrdABCD This study WJ28 S. Typhimurium, IR715 DfrdABCD DphoN::Tn10d-CmR This study WJ30 S. Typhimurium, IR715 DfrdABCD Dtar DphoN:: KmR This study WJ67 S. Typhimurium, IR715 DfrdABCD DaspA DphoN:: KmR This study WJ68 S. Typhimurium, IR715 DfrdABCD DdcuA DphoN:: KmR This study WJ58 S. Typhimurium, IR715 DinvA DspiB Rivera-Chávez et al.50 SPN487 S. Typhimurium, IR715 DinvA DspiB DphoN::Tn10d-CmR This study WJ52 S. Typhimurium, IR715 DinvA DspiB DphoN:: KmR This study WJ111 S. Typhimurium, IR715 DinvA DspiB Dtar DphoN:: KmR This study WJ125 S. Typhimurium, IR715 DinvA DspiB DaspA DphoN:: KmR This study WJ133 S. Typhimurium, IR715 DinvA DspiB DdcuA DphoN:: KmR This study WJ135 S. Typhimurium, IR715 DinvA DspiB DfrdABCD DphoN::KmR This study WJ143 E. coli, S17-1 lpir zxx::RP4 2-(TetR ::Mu) (KmR::Tn7) lpir recA1 thi pro hsdR (r-m+) Simon et al.51 S17-1 lpir Bacteroides caecimuris DSMZ DSMZ 26085 Bacteroides thetaiotaomicron, VPI 5482 Dtdk Koropatkin52 N/A Bacteroides thetaiotaomicron, VPI 5482 Dtdk 1XtetR; pNBU2-erm P1TDP-GH023-ssbfe1 Lim et al.36 N/A Lactobacillus reuteri DSMZ DSMZ 32035 Clostridium clostridioforme DSMZ DSMZ 26114 Clostridium innocuum DSMZ DSMZ 26113 Clostridioides mangenotti DSMZ DSMZ 29133 Clostridium cochlearium DSMZ DSMZ 29358 Clostridium sporogenes DSMZ DSMZ 29420 Staphylococcus xylosus DSMZ DMSZ 28566 Streptococcus danieliae DSMZ DMSZ 22233 Akkermansia muciniphila DSMZ DMSZ 26127 Escherichia coli Mt1b1 DSMZ DSMZ 28618 Chemicals, peptides, and recombinant proteins Gibson Assembly Master Mix NEB Cat# E2611L LB Broth, Miller (Luria Bertani) Becton Dickinson Cat# 244520 LB Agar, Miller (Luria Bertani) Becton Dickinson Cat# 244620 MRS Broth (DifcoTM Lactobacilli) Becton Dickinson Cat# 288130 Columbia Agar, (BBLTM) Becton Dickinson Cat#211124 Bacto Brain Heart Infusion Becton Dickinson Cat# 237500 Sheep Blood Fisher BioReagents Cat# R54008 Bacto Tryptone Becton Dickinson Cat# 211705 (Continued on next page) e1 Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 .. REAGENT or RESOURCE SOURCE IDENTIFIER L-Aspartic Acid Fisher Scientific Cat# BP374-100 Glycerol Fisher BioReagents Cat# G33-4 Mucin from porcine stomach, Type II Sigma Cat# M2378 Dextran Sulfate Sodium Salt (DSS) Alfa Aesar Cat# J63606 Streptomycin Sulfate Fisher Scientific Cat# BP910-50 TRI Reagent Molecular Research Cat# TR118 iQ SYBR Green Supermix Bio-Rad Cat# 1708882 Platinum PCR Supermix High Fidelity Invitrogen Cat# 12532-016 PCR SuperMix Invitrogen Cat# 10572-014 Acid Casein Peptone Fisher Scientific Cat# BP1424-500 Vitamin Supplement ATCC Cat# MD-VS Trace Mineral Supplement ATCC Cat# MD-TMS Minimum Essential Media (MEM) Gibco Cat# 11090081 Fetal Bovine Serum (FBS) Gibco Cat# 10500064 GlutaMAXTM-I Gibco Cat# 35050 MEM Nonessential Amino Acids Solution (NEAA) Corning Cat# 25-025 Sodium Pyruvate Gibco Cat# 11360070 DPBS Gibco Cat# 14190144 HEPES Gibco Cat# 15630080 Gentamicin Solution Sigma Cat# G1397 Anhydrotetracycline Cayman Chemicals Cat#10009542 Hydrogen Peroxide ThermoFisher Cat# L14000.AP Critical commercial assays Aspartate Colorimetric/Fluorometric Assay Kit BioVision Cat# K552 Fumarate Colorimetric/Fluorometric Assay BioVision Cat#K633-100 PowerSoil DNA Isolation Kit Mo-Bio Cat# 12888 SurePrepTM TrueTotalTM RNA Purification Kit Fisher BioReagents Cat# BP2800 Total RNA Purification Plus Micro Kit Norgen Cat# 48500 PureLinkTM mini RNA Purification Kit Invitrogen Cat#: 12183020 iScript gDNA Clear cDNA Synthesis Kit Bio-Rad Cat# 1725035 ZymocleanTM Gel DNA Recovery Kit Zymo Research Cat# D4002 PureLinkTM Quick Plasmid Miniprep Kit Invitrogen Cat# K210011 DNeasy PowerSoil Kit Qiagen Cat# 12888 Experimental models: Organisms/strains Mouse: C57BL/6J Jackson Laboratory Cat# 000664 Mouse: CBA/J Jackson Laboratory Cat# 000656 Mouse: Cybb -/- Jackson Laboratory Cat# 002365 Mouse: Germ-free Swiss Webster Byndloss Lab N/A Caco-2 ATCC Cat# HTB-37 Oligonucleotides Primers used in this study, see Table S1 This study N/A Recombinant DNA Plasmid: pRDH10, ori(R6K) mobRP4 sacRB CmR TetR Kingsley et al.53 pRDH10 Plasmid: Up- and downstream region of tar (IR715) in pRDH10 This study pWJ39 Plasmid: Up- and downstream region of aspA (IR715) in pRDH10 This study pWJ40 Plasmid: Up- and downstream region of dcuA (IR715) in pRDH10 This study pWJ41 Plasmid: Up- and downstream region of frdABCD (IR715) in pRDH10 This study pWJ51 Plasmid: pKD46, SpecR PBAD-gam-beta-exo oriR101 repA101 ts Datsenko and Wanner54 pKD46 (Continued on next page) Cell Host & Microbe 32, 887–899.e1–e6, June 12, 2024 e2 .. REAGENT or RESOURCE SOURCE IDENTIFIER Plasmid: pKD3, CarbR FRT CmR FRT PS1 PS2 oriR6Kg Datsenko and Wanne54 pKD3 Plasmid: pKD13, CarbR FRT KmR FRT PS1 PS4 oriR6Kg Datsenko and Wanner54 pKD13 Software and algorithms GraphPad Prism 10 GrapPad Software N/A



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