2024
Integrating the gut microbiome and pharmacology
Verdegaal A, Goodman A. Integrating the gut microbiome and pharmacology. Science Translational Medicine 2024, 16: eadg8357. PMID: 38295186, DOI: 10.1126/scitranslmed.adg8357.Peer-Reviewed Original Research
2023
Infection leaves a genetic and functional mark on the gut population of a commensal bacterium
Tawk C, Lim B, Bencivenga-Barry N, Lees H, Ramos R, Cross J, Goodman A. Infection leaves a genetic and functional mark on the gut population of a commensal bacterium. Cell Host & Microbe 2023, 31: 811-826.e6. PMID: 37119822, PMCID: PMC10197903, DOI: 10.1016/j.chom.2023.04.005.Peer-Reviewed Original ResearchConceptsRapid genetic adaptationSingle nucleotide variantsMultiple phylaGenetic adaptationFunctional marksStable marksEnteric infectionsGene expressionPopulation dynamicsGut commensalsCommensal populationsMicrobiome compositionAbsence of infectionRapid selectionCitrobacter rodentiumFitnessGut populationsCommensal bacteriumInfected miceGastrointestinal infectionsGnotobiotic miceCommensalGut lumenDirect administrationVitamin B6
2019
Mapping human microbiome drug metabolism by gut bacteria and their genes
Zimmermann M, Zimmermann-Kogadeeva M, Wegmann R, Goodman AL. Mapping human microbiome drug metabolism by gut bacteria and their genes. Nature 2019, 570: 462-467. PMID: 31158845, PMCID: PMC6597290, DOI: 10.1038/s41586-019-1291-3.Peer-Reviewed Original ResearchConceptsHuman gut bacteriaGut bacteriaHigh-throughput genetic analysisMicrobial gene productsDiverse cladeGene contentGenomic contentGene productsGenetic analysisMolecular mechanismsDrug metabolismBacteriaMultiple disease indicationsMetabolic activityDrug-metabolizing activityGut microbiomeMicrobiomeMetabolismDrug developmentMedical therapyTreatment delayMass spectrometryCladeDisease indicationsAdverse effects
2013
Experimental Approaches for Defining Functional Roles of Microbes in the Human Gut
Dantas G, Sommer MO, Degnan PH, Goodman AL. Experimental Approaches for Defining Functional Roles of Microbes in the Human Gut. Annual Review Of Microbiology 2013, 67: 459-475. PMID: 24024637, PMCID: PMC4718711, DOI: 10.1146/annurev-micro-092412-155642.Peer-Reviewed Original ResearchConceptsMicrobial communitiesFree-living microbial communitiesHigh-throughput DNA sequencingCulture-independent surveysGenome sequence projectHuman gutHost-microbe interactionsGut microbial communityMicrobial genomesGene contentMicrobial genesModel organismsHost-microbiota relationshipFunctional roleDNA sequencingFunction strategyModel systemExperimental approachUnderlying mechanismGenomeGutGenesMicrobesOrganismsSpecies
2011
Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice
Goodman AL, Kallstrom G, Faith JJ, Reyes A, Moore A, Dantas G, Gordon JI. Extensive personal human gut microbiota culture collections characterized and manipulated in gnotobiotic mice. Proceedings Of The National Academy Of Sciences Of The United States Of America 2011, 108: 6252-6257. PMID: 21436049, PMCID: PMC3076821, DOI: 10.1073/pnas.1102938108.Peer-Reviewed Original Research