2020
Sulfamethoxazole drug stress upregulates antioxidant immunomodulatory metabolites in Escherichia coli
Park HB, Wei Z, Oh J, Xu H, Kim CS, Wang R, Wyche TP, Piizzi G, Flavell RA, Crawford JM. Sulfamethoxazole drug stress upregulates antioxidant immunomodulatory metabolites in Escherichia coli. Nature Microbiology 2020, 5: 1319-1329. PMID: 32719505, PMCID: PMC7581551, DOI: 10.1038/s41564-020-0763-4.Peer-Reviewed Original ResearchConceptsAnti-inflammatory interleukin-10Colitis mouse modelInflammatory bowel diseaseColitis symptomsBowel diseaseInterleukin-10Immunological markersPathogenic roleImmunomodulatory metabolitesImmunomodulatory phenotypeGastrointestinal tractMouse modelImmunological activityPrimary human tissuesDrug stressSubinhibitory levelsHuman tissuesEnvironmental isolatesCertain strainsMetabolic pathwaysMetabolitesPatientsEscherichia coliSymptomsIBD
2016
Linking Biosynthetic Gene Clusters to their Metabolites via Pathway-Targeted Molecular Networking
Trautman EP, Crawford JM. Linking Biosynthetic Gene Clusters to their Metabolites via Pathway-Targeted Molecular Networking. Current Topics In Medicinal Chemistry 2016, 16: 1705-1716. PMID: 26456470, PMCID: PMC5055756, DOI: 10.2174/1568026616666151012111046.Peer-Reviewed Original ResearchMeSH KeywordsBiological ProductsBiosynthetic PathwaysComputational BiologyHumansMetabolic Networks and PathwaysMicrobiotaMultigene FamilyConceptsBiosynthetic gene clusterGene clusterMicrobial biosynthetic gene clustersMetabolic pathwaysGenome sequence informationSecondary metabolic pathwaysMolecular networkingHuman-microbe interactionsNew metabolic pathwaysComplex metabolomeSmall moleculesBiosynthetic logicActive small moleculesFunctional characterizationBioinformatics predictionSequence informationSmall molecule metabolitesHuman microbiomeExperimental structural characterizationGut bacteriaPathwayNatural productsMetabolitesPharmacological potentialAvailable databasesSecondary Metabolic Pathway-Targeted Metabolomics
Vizcaino MI, Crawford JM. Secondary Metabolic Pathway-Targeted Metabolomics. Methods In Molecular Biology 2016, 1401: 175-195. PMID: 26831709, PMCID: PMC5049693, DOI: 10.1007/978-1-4939-3375-4_12.Peer-Reviewed Original ResearchMeSH KeywordsAmino AcidsBacteriaCell Culture TechniquesChromatography, LiquidIsotope LabelingMetabolic Networks and PathwaysMetabolomicsSoftwareTandem Mass SpectrometryConceptsHigh-resolution mass spectrometryNovel natural product discoveryIsotopic labelingNatural product discovery effortsMicrobial natural product biosynthesisOrphan biosynthetic pathwaysComplex organic mixturesGlobal Natural Products Social Molecular Networking (GNPS) platformNatural product discoveryMS/MS acquisitionNatural product biosynthesisAnalytes of interestMS data acquisitionMS/MS data acquisitionNatural product extractionOrganic mixturesMolecular networkingNatural productsChemometric platformProduct discoveryMass spectrometryProduct biosynthesisMS acquisitionLiquid chromatographyMethod development
2014
Comparative Metabolomics and Structural Characterizations Illuminate Colibactin Pathway-Dependent Small Molecules
Vizcaino MI, Engel P, Trautman E, Crawford JM. Comparative Metabolomics and Structural Characterizations Illuminate Colibactin Pathway-Dependent Small Molecules. Journal Of The American Chemical Society 2014, 136: 9244-9247. PMID: 24932672, PMCID: PMC4091280, DOI: 10.1021/ja503450q.Peer-Reviewed Original ResearchConceptsReceptor antagonist activityE. coli Nissle 1917Coli Nissle 1917Ulcerative colitisInflammatory conditionsProbiotic E. coli Nissle 1917Human bowelPathogenic Escherichia coliAntagonist activityNissle 1917Growth inhibitoryCarcinogenic activityProbiotic activitySmall moleculesPathwayStructural network analysisColitisBowelComparative metabolomicsPersistence phenotypeMetabolomics