KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Bacterial and virus strains | ||
| Wild-type gut bacterial strains used in this study | See Table S4 | See Table S4 |
| E. coli Stbl4 ElectroMax | Invitrogen | 11635018 |
| Chemicals, peptides, and recombinant proteins | ||
| 3-nitrophenylhydrazine hydrochloride | Sigma Aldrich | N21804 |
| acetic acid | Sigma Aldrich | 6283 |
| acetic acid-d4, ≥99.9 atom % D | Sigma Aldrich | 233315 |
| acetonitrile | Fisher Scientific | A955-4 |
| allopurinol | Sigma Aldrich | A8003 |
| ammonium acetate | Fisher Scientific | A11450 |
| ammonium hydroxide solution | Honeywell Fluka | 4427310X1ML |
| butyric acid | Sigma Aldrich | B103500 |
| calcium chloride | Alfa Aesar | 89866 |
| chloramphenicol | Sigma Aldrich | C1919 |
| chopped meat medium | Anaerobe Systems | AS-811 |
| creatinine | Sigma Aldrich | C4255 |
| creatinine (N-methyl-D3, 98%) | Cambridge Isotope Laboratories | DLM-3653 |
| D(−)-fructose | Sigma Aldrich | F0127 |
| D(+)-cellobiose | Fluka Chemie GMBH | 22150 |
| D(+)-maltose, monohydrate | Acros | 329915000 |
| dansyl chloride | Sigma Aldrich | D2625 |
| D-cycloserine | Sigma Aldrich | C6880 |
| dextrose (D-glucose), anhydrous | Fisher Scientific | D16-500 |
| Difco Brain Heart Infusion Broth | BD | 237500 |
| Difco Brain Heart Infusion Agar | BD | 241810 |
| Difco LB Broth, Miller (Luria-Bertani) | BD | 244610 |
| Difco Reinforced Clostridial Medium (RCM) | BD | 218081 |
| dimethyl sulfoxide | MP Biomedicals | 219605590 |
| erythromycin | Sigma Aldrich | E5389 |
| ethanol | Fisher Scientific | BP2818 |
| ferrous sulfate heptahydrate | Fisher Scientific | I146 |
| formic acid | Fisher Scientific | A117-50 |
| GAM Agar | Nissui | 05420 |
| GAM Broth | Nissui | 05422 |
| GAM Broth, Modified | Nissui | 05433 |
| glycerol | Fisher Scientific | BP229-1 |
| glycine | Sigma Aldrich | G7126 |
| hematin, porcine | Sigma Aldrich | H3281 |
| hydrochloric acid | Fisher Scientific | SA49 |
| hydrocinnamic acid-d9 (phenylpropionic acid-d9) | C/D/N Isotopes | D-5666 |
| isobutyric acid | Sigma Aldrich | 58360 |
| isovaleric acid | Sigma Aldrich | 129542 |
| lactic acid | Fisher Chemical | A159-500 |
| L-cysteine hydrochloride monohydrate | Sigma Aldrich | C7880 |
| L-histidine | Sigma Aldrich | H8000 |
| M9 Minimal Salts, 5x | BD | 248510 |
| magnesium sulfate heptahydrate | Fisher Scientific | M63-500 |
| meat extract | Sigma Aldrich | 70164 |
| menadione | Sigma Aldrich | M5625 |
| methanol | Fisher Scientific | A456-4 |
| mucin type III | Sigma Aldrich | M1778 |
| N-(3-dimethylaminopropyl)-N′-ethylcarbodiimide | Sigma Aldrich | 3449 |
| n-butyric acid | Sigma Aldrich | B103500 |
| potassium oxonate | Ambeed | A157215 |
| potassium phosphate dibasic | Fisher Scientific | BP363 |
| potassium phosphate monobasic | Fisher Scientific | BP362 |
| propionic acid | Sigma Aldrich | 402907 |
| pyridine | Sigma Aldrich | 270970 |
| resazurin, sodium salt | Acros | 418900050 |
| sodium acetate | Sigma Aldrich | S2889 |
| sodium bicarbonate | Fisher Scientific | S233-500 |
| sodium butyrate | Sigma Aldrich | 303410 |
| sodium carbonate | Fisher Scientific | S263-500 |
| sodium chloride | Fisher Scientific | S271-500 |
| sodium fumarate dibasic | Sigma Aldrich | F1506 |
| sodium hydroxide | Fisher Scientific | S318-500 |
| sodium phosphate, dibasic, anhydrous | Caisson Labs | S018-500GM |
| sodium propionate | Sigma Aldrich | P1880 |
| sodium thioglycolate | BD | B12081 |
| sterilized rumen fluid | Bar Diamond Inc. | SRF |
| succinic acid | Tokyo Chemical Industry (TCI) | S0100 |
| thiamphenicol | Sigma Aldrich | T0261 |
| trace mineral supplement | ATCC | MD-TMS |
| tryptone | BD | 211705 |
| tryticase peptone, pancreatic digest of casein | BD | 221921 |
| tween 80 | Fisher Scientific | T164-500 |
| uric acid | Sigma Aldrich | U2625 |
| uric acid (1,3-15N2, 98%+) | Cambridge Isotope Laboratories | NLM-1697-PK |
| uric acid (13C5, 99.3%) | Acanthus Research | U-10826-01 |
| valeric acid | Sigma Aldrich | 240370 |
| vitamin K1 | Sigma Aldrich | V3501 |
| vitamin supplement | ATCC | MD-VS |
| water | Fisher Scientific | W6-4 |
| xanthine | Tokyo Chemical Industry (TCI) | X0004 |
| xanthine (1,3-15N2, 98%+) 90% PURE | Cambridge Isotope Laboratories | NLM-1698-PK |
| yeast extract | BD | 288620 |
| Medium formulations | See Table S4 | See Table S4 |
| Critical commercial assays | ||
| AcroPrep Advance Filter Plates for Ultrafiltration with Omega Membrane, MWCO 3K | Pall Corporation | 8033 |
| DNA Clean & Concentrator-5, Capped Columns | Zymo Research | D4013 |
| RNAprotect Bacteria Reagent | Qiagen | 76506 |
| PowerUp SYBR Green Master Mix | ThermoFisher | A25778 |
| PrimeSTAR Max DNA Polymerase | Takara | R045A |
| Qubit RNA BR assay kit | ThermoFisher | Q10210 |
| SuperScript IV VILO Master Mix with ezDNase Enzyme | ThermoFisher | 11766050 |
| Terra PCR Direct Genotyping Kit | Takara | 639285 |
| Urea Assay Kit | Sigma Aldrich | MAK006 |
| Deposited data | ||
| RNA-seq data | NCBI Gene Expression Omnibus | GSE206419 |
| Metagenomic reads from Uox mice | NCBI BioProject | PRJNA947216 |
| Metagenomic data re-analyzed from the FARMM study | NCBI BioProject | PRJNA675301 |
| Metabolomics data re-analyzed from the FARMM study | Metabolomics Workbench | Study ID ST001519 |
| Reference genomes analyzed from the Human Microbiome Project | NCBI BioProject | PRJNA43021 |
| Custom R script for the metagenomic data processing and figure generation | Github | https://github.com/HAugustijn/uric_acid_project/ |
| Experimental models: Organisms/strains | ||
| Uricase deficient mice (B6; 129S7-Uoxtm1Bay/J) | The Jackson Laboratory | 002223;RRID:IMSR_JAX:002223 |
| Germ-free C57BL/6 mice (C57BL/6NTac) | Taconic Biosciences | http://www.taconic.com |
| C. sporogenes ATCC 15579; wild-type | ATCC | http://www.atcc.org |
| C. sporogenes ATCC 15579; ygeX(1026a)::CT | This study | N/A |
| C. sporogenes ATCC 15579; pbuX(952a)::CT | This study | N/A |
| C. sporogenes ATCC 15579; hyuA(524a)::CT | This study | N/A |
| C. sporogenes ATCC 15579; ygeW(1034a)::CT | This study | N/A |
| C. sporogenes ATCC 15579; ygfK(1440a)::CT | This study | N/A |
| C. sporogenes ATCC 15579; ssnA(784s)::CT | This study | N/A |
| C. sporogenes ATCC 15579; ygeY(358s)::CT | This study | N/A |
| C. sporogenes ATCC 15579; xdhAC(1084s)::CT | This study | N/A |
| E. coli MG 1655; wild-type | E. coli Genetic Stock Center | http://www.cgsc.biology.yale.edu |
| E. coli MG 1655; Δ(ygeW::cat)1 | This study | N/A |
| E. coli MG 1655; Δ(ygeX::cat)1 | This study | N/A |
| E. coli MG 1655; Δ(ygeY::cat)1 | This study | N/A |
| E. coli MG 1655; Δ(hyuA::cat)1 | This study | N/A |
| E. coli MG 1655; Δ(ygfK::cat)1 | This study | N/A |
| E. coli MG 1655; Δ(ssnA::cat)1 | This study | N/A |
| Oligonucleotides | ||
| ygeX (CLOSPO_02124, 1026a) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT AGACTCCCCTGATGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGATTGAGTCTCGATAGAGG AAAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAG TTAATATCAGGGACTTATCTGTTATCACCACATTTGT ACAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| pbuX (CLOSPO_02125, 952s) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT ACAAAACGTAGGGGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGGTTTTTTGTCGATAGAGGA AAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAGT TAAGCCCTACGACTTATCTGTTATCACCACATTTGTA CAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| hyuA (CLOSPO_02126, 524a) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT ACTGTACGTATACGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGGTTTACAGTCGATAGAGG AAAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAG TTATGGTATACGACTTATCTGTTATCACCACATTTGT ACAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| ygeW (CLOSPO_02127, 1034a) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT ACTGATCCAGCTAGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGGTTATCAGTCGATAGAGG AAAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAG TTAGGTAGCTGGACTTATCTGTTATCACCACATTTGT ACAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| ygfK (CLOSPO_02128, 1440a) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT AGTATTCTCCTTAGTGCGCCCAGATAGGGTGTTAAG TCAAGTAGTTTAAGGTACTACTCTGTAAGATAACACA GAAAACAGCCAACCTAACCGAAAAGCGAAAGCTGA TACGGGAACAGAGCACGGTTGGAAAGCGATGAGTT ACCTAAAGACAATCGGGTACGACTGAGTCGCAATGT TAATCAGATATAAGGTATAAGTTGTGTTTACTGAACG CAAGTTTCTAATTTCGATTAATACTCGATAGAGGAAA GTGTCTGAAACCTCTAGTACAAAGAAAGGTAAGTTA GCTAAGGAGACTTATCTGTTATCACCACATTTGTAC AATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| ssnA (CLOSPO_02129, 784s) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT AATAGCCGTACATGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGGTTGCTATCCGATAGAGG AAAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAG TTACAATGTACGACTTATCTGTTATCACCACATTTGT ACAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| ygeY (CLOSPO_02130, 358s) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT AGGCGGCATGGCCGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGATTCCGCCTCGATAGAGG AAAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAG TTAGAGGCCATGACTTATCTGTTATCACCACATTTGT ACAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| xdhAC (CLOSPO_02131, 1084s) gBlock: ATAAAGTTGTGTAATTTTTAAGCTTTATAATTATCCTT AGATGGCGATGGAGTGCGCCCAGATAGGGTGTTAA GTCAAGTAGTTTAAGGTACTACTCTGTAAGATAACA CAGAAAACAGCCAACCTAACCGAAAAGCGAAAGCT GATACGGGAACAGAGCACGGTTGGAAAGCGATGAG TTACCTAAAGACAATCGGGTACGACTGAGTCGCAAT GTTAATCAGATATAAGGTATAAGTTGTGTTTACTGAA CGCAAGTTTCTAATTTCGATTCCATCTCGATAGAGG AAAGTGTCTGAAACCTCTAGTACAAAGAAAGGTAAG TTAACTCCATCGACTTATCTGTTATCACCACATTTGT ACAATCTGTAGGAGAACCTATGG |
Integrated DNA technologies | N/A |
| ygeX (CLOSPO_02124) sequencing Csp.ygeX-F: AGTAACTGGAGATATGCCTA Csp.ygeX-R: TACTAAAGTTGCTATGCCT |
Integrated DNA technologies | N/A |
| pbuX (CLOSPO_02125) sequencing Csp.pbuX-F: TTTTGTTTTATTATGGCACCT Csp.pbuX-R: TGCCAAACATAGCTATACCA |
Integrated DNA technologies | N/A |
| hyuA (CLOSPO_02126) sequencing Csp.hyuA-F: AAATCATTGATGCTCATGG Csp.hyuA-R: TAATCTAACCCTAACTTACAGG |
Integrated DNA technologies | N/A |
| ygeW (CLOSPO_02127) sequencing Csp.ygeW-F: CATCTTATGGTAAGCCACT Csp.ygeW-R: GTTCTTCAAACTTTAGGGCTG |
Integrated DNA technologies | N/A |
| ygfK (CLOSPO_02128) sequencing Csp.ygfK-F: CTTCTAAAGGCAAACAAGC Csp.ygfK-R: TAACCTTTCCATTTCCGAT |
Integrated DNA technologies | N/A |
| ssnA (CLOSPO_02129) sequencing Csp.ssnA-F: AAGGAAAACTTATAATGCCAG Csp.ssnA-R: CATTTCAGGAATTTCGGTC |
Integrated DNA technologies | N/A |
| ygeY (CLOSPO_02130) sequencing Csp.ygeY-F: TTTTAAAAGAAGGTGCTCT Csp.ygeY-R: TTCATACACATTTATTACCCC |
Integrated DNA technologies | N/A |
| xdhAC (CLOSPO_02131) sequencing Csp.xdhAC-F: ATTATTACAGCACAAGATGTCC Csp.xdhAC-R: CGCATGATGTTGTACACTCA |
Integrated DNA technologies | N/A |
| ygeW (b2870) λ-red recombination knockout F: TTTGCCTGTCATTCCACTACCGGGACTTTATGATGG TGTAGGCTGGAGCTGCTTC R: ATCGGCCCGAGGGGTTATTTCACGCGTTCTTGCGC CCATATGAATATCCTCCTTAGT |
Integrated DNA technologies | N/A |
| ygeX (b2871) λ-red recombination knockout F: CCCTCTATTTCCAGAGGCCAAAAGGATAGGATATGG TGTAGGCTGGAGCTGCTTC R: TTCCAATAGGGTGATTAAGGTGCTACAGCGTGTTTC CATATGAATATCCTCCTTAGT |
Integrated DNA technologies | N/A |
| ygeY (b2872) λ-red recombination knockout F: AAAACGGGGAGTAAAAAATCTGGAGAAAAATAATGG TGTAGGCTGGAGCTGCTTC R: GCCCATGATAGATACGCCGTTAGTTGAGAAGGTCC CCATATGAATATCCTCCTTAGT |
Integrated DNA technologies | N/A |
| hyuA (b2873) λ-red recombination knockout F: TCCGGTTCGCCGGAGGGTTTTTGGAGTTTGCTATG GTGTAGGCTGGAGCTGCTTC R: ATCCCTGGCAGTGGTTAGAGCACGGGAGGGACAAA CCATATGAATATCCTCCTTAGT |
Integrated DNA technologies | N/A |
| ygfK (b2878) λ-red recombination knockout F: CAATGATATCTGTATAAGCTAAGGAGAGGGTTATGG TGTAGGCTGGAGCTGCTTC R: CGCCAGGCTGAAGACGGTGATTTTGTCTTTGTACGC CATATGAATATCCTCCTTAGT |
Integrated DNA technologies | N/A |
| ssnA (b2879) λ-red recombination knockout F: CATTATCTGCTGGGCCGCGTGGAGGTGTAATCATG GTGTAGGCTGGAGCTGCTTC R: AGGGCATCTGTCATTTATGCCAGCGCATCCATCCGC CATATGAATATCCTCCTTAGT |
Integrated DNA technologies | N/A |
| ygeW (b2870) sequencing Ec.ygeW-CHF: GAATTTGCATCAATACTGACTG Ec.ygeW-CHR: TAACCTTCCCATGCCGTGTC |
Integrated DNA technologies | N/A |
| ygeX (b2871) sequencing Ec.ygeX-CHF: GAGCGTACTGAATTGCTGCG Ec.ygeX-CHR: CGTACGGATCGAAGTCCCAG |
Integrated DNA technologies | N/A |
| ygeY (b2872) sequencing Ec.ygeY-CHF: TGAAGCACTACCGCGAAGTT Ec.ygeY-CHR: TCGTAACTGCGTTCGTCCAA |
Integrated DNA technologies | N/A |
| hyuA (b2873) sequencing Ec.hyuA-CHF: CTGAAGCGCATGCACCTAAC Ec.hyuA-CHR: TCAGTTTTTGCGGCAGCTTC |
Integrated DNA technologies | N/A |
| ygfK (b2878) sequencing Ec.ygfK-CHF: AGGCAATCCAACGACCCAAT Ec.ygfK-CHR: ATCGCGCTGATTGAGTAGGG |
Integrated DNA technologies | N/A |
| ssnA (b2879) sequencing Ec.ssnA-CHF: TCCAGAACCGTTTCCAGACG Ec.ssnA-CHR: AGGCCAGGTAGTCCTCGATT |
Integrated DNA technologies | N/A |
| aegA (b2468) RT-qPCR (Amplification factor 2.07) Ec.aegA-F: AGGTCACTGCACTACGTTGCT Ec.aegA-R: ATGATGAGCAACATGTCCTGAGCC |
Integrated DNA technologies | N/A |
| ygfK (b2878) RT-qPCR (Amplification factor 2.03) Ec.ygfK-F: TTGACGCGCATATTTGATGAATACC Ec.ygfK-R: AGGTTTCACCGAAGACGCTAACA |
Integrated DNA technologies | N/A |
| ygfT (b2887) RT-qPCR (Amplification factor 2.04) Ec.ygfT-F: TCGCATCATCCCGTAAGTCCC Ec.ygfT-R: ATCTTAACTGTGAAATTGGCCGCG |
Integrated DNA technologies | N/A |
| rpoH (b3461) RT-qPCR (Amplification factor 1.98) Ec.rpoH-F: CACTGCTTTCATCAGGCCGA Ec.rpoH-R: AAACGCTGATCCTGTCTCACC |
Integrated DNA technologies | N/A |
| K127_2399939 ygeX RT-qPCR (Amplification factor 1.97) YgeX-F: TATTTAGGGCTTGGTGAGGTTTACA YgeX-R: TTTGCTATGTAACGTGCCATGG |
Integrated DNA technologies | N/A |
| K127_2399939 ygeY RT-qPCR (Amplification factor 1.96) YgeY-F: TCTGCCGAGTGTTAAGAAATATGGG YgeY-R: TAGCACTCGATAGGATATACCAGGT |
Integrated DNA technologies | N/A |
| K127_2399939 ssnA RT-qPCR (Amplification factor 1.94) SsnA-F: TTATGTACTACGCAGGTATCGGT SsnA-R: GGATATTCTGGGACCAAAGACGA |
Integrated DNA technologies | N/A |
| K127_1837117 ygeX RT-qPCR (Amplification factor 2.00) YgeX-F: TCTGTTGAGAACATGAGCACA YgeX-R: TCCTTTCCGCCATTATGGAG |
Integrated DNA technologies | N/A |
| K127_1837117 ygeY RT-qPCR (Amplification factor 1.95) YgeY-F: AGTGGGTTCAGTGGAGATGAC YgeY-R: ACTGCGACGGTATGTGCTG |
Integrated DNA technologies | N/A |
| K127_1837117 ssnA RT-qPCR (Amplification factor 1.91) SsnA-F: CCGTTGATAATAGTAGTGCGGCA SsnA-R: TGATTGTCATGGATTACAAGCCCT |
Integrated DNA technologies | N/A |
| K127_2793018 ygeX RT-qPCR (Amplification factor 2.00) YgeX-F: AGAAGTCGGTTGTACATATGCCG YgeX-R: CGCCATACGGACACATTCATCA |
Integrated DNA technologies | N/A |
| K127_2793018 ygeY RT-qPCR (Amplification factor 1.97) YgeY-F: GTTCGGTGCAGGAGGAAGAC YgeY-R: CGGTCGGTTCGGTCGAAATA |
Integrated DNA technologies | N/A |
| K127_2793018 ssnA RT-qPCR (Amplification factor 1.87) SsnA-F: TTCGGCATGATGGGCAAGAA SsnA-R: TGACTGCTCCATCGTCCATG |
Integrated DNA technologies | N/A |
| UOx genotyping oIMR1621: CGAGACCTTTGCAATGAACA oIMR1622: CTCATCTGCTCCACCTCACA oIMR6218: CCTTCTATCGCCTTCTTGACG |
The Jackson Laboratory | Protocol 31298 |
| Recombinant DNA | ||
| Plasmid pMTL007C-E2-ygeX (CLOSPO_02124); 1026a | This paper | N/A |
| Plasmid pMTL007C-E2-pbuX (CLOSPO_02125); 952s | This paper | N/A |
| Plasmid pMTL007C-E2-hyuA (CLOSPO_02126); 524a | This paper | N/A |
| Plasmid pMTL007C-E2-ygeW (CLOSPO_02127); 1034a | This paper | N/A |
| Plasmid pMTL007C-E2-ygfK (CLOSPO_02128); 1440a | This paper | N/A |
| Plasmid pMTL007C-E2-ssnA (CLOSPO_02129); 784s | This paper | N/A |
| Plasmid pMTL007C-E2-ygeY (CLOSPO_02130); 358s | This paper | N/A |
| Plasmid pMTL007C-E2-xdhAC (CLOSPO_02131); 1084s | This paper | N/A |
| Software and algorithms | ||
| MassHunter Workstation LC/MS Data Acquisition | Agilent Technologies | v.10.1 |
| MassHunter Workstation Quantitative Analysis | Agilent Technologies | v.10.0 |
| CLC Genomics Workbench | QIAGEN | v.21.0.4 |
| GraphPad Prism | GraphPad Software, LLC | v.9.3.1 |
| QuantStudio 5 qPCR Data Analysis Software | ThermoFisher Scientific | v.1.5.1 |