2023
Bacteria require phase separation for fitness in the mammalian gut
Krypotou E, Townsend G, Gao X, Tachiyama S, Liu J, Pokorzynski N, Goodman A, Groisman E. Bacteria require phase separation for fitness in the mammalian gut. Science 2023, 379: 1149-1156. PMID: 36927025, PMCID: PMC10148683, DOI: 10.1126/science.abn7229.Peer-Reviewed Original ResearchConceptsMammalian gutTranscription termination factor RhoTermination factor RhoGene regulationTranscription terminationMechanisms bacteriaBacteria interactionsHuman commensalValuable targetBacteriaRhoGut microbiotaFitnessNovel clinical applicationsTherapeutic manipulationGutHuman healthCommensalRegulation
2019
Separating host and microbiome contributions to drug pharmacokinetics and toxicity
Zimmermann M, Zimmermann-Kogadeeva M, Wegmann R, Goodman AL. Separating host and microbiome contributions to drug pharmacokinetics and toxicity. Science 2019, 363 PMID: 30733391, PMCID: PMC6533120, DOI: 10.1126/science.aat9931.Peer-Reviewed Original ResearchConceptsMicrobiome contributionDrug metabolismFunction of bioavailabilityDrug-metabolizing activitySame metabolic transformationsMetabolism of drugsSystemic drugsMetabolite exposureMetabolite absorptionGut microbiotaDrug pharmacokineticsDrug efficacyPharmacokinetic modelDrugsMedical drugsTransit kineticsMetabolismInterpersonal variationMetabolic transformationToxicityMetabolic routesPharmacokineticsMice
2017
Autoantibody cross-reactivity with a microbial protein from a prevalent human gut commensal in antiphospholipid syndrome
ruff W, Roth A, Dehner C, Vieira S, Goodman A, Kriegel M. Autoantibody cross-reactivity with a microbial protein from a prevalent human gut commensal in antiphospholipid syndrome. The Journal Of Immunology 2017, 198: 58.4-58.4. DOI: 10.4049/jimmunol.198.supp.58.4.Peer-Reviewed Original ResearchAntiphospholipid syndromeAPS patientsGut commensalsBALB/cJ miceMajor B-cell epitopeGut commensal bacteriaAnti-B2GPI antibodiesB-cell epitopesInfectious triggerAutoantibody productionIgG autoantibodiesAntigenic sourceUnknown etiologyAutoantibody reactivityControl antibodyCell epitopesGut microbiotaCommensal bacteriaMajor autoantigenLow titersAutoantibodiesHuman stoolMonoclonal antibodiesVivo studiesPersistent stimulusAn insider's perspective: Bacteroides as a window into the microbiome
Wexler AG, Goodman AL. An insider's perspective: Bacteroides as a window into the microbiome. Nature Microbiology 2017, 2: 17026. PMID: 28440278, PMCID: PMC5679392, DOI: 10.1038/nmicrobiol.2017.26.Peer-Reviewed Original ResearchConceptsGut bacteriumHuman gut BacteroidesModel organismsMicrobial communitiesMetagenome sequencesGut BacteroidesClose relativesGut microorganismsEscherichia coliCommensal microorganismsCentury of studyBacteriumMicroorganismsGut microbiotaImportant insightsBacteroidesSheer diversityHuman healthGenomicsEcologyOrganismsEcosystemsDiversityMicrobiomeColiEngineered Regulatory Systems Modulate Gene Expression of Human Commensals in the Gut
Lim B, Zimmermann M, Barry NA, Goodman AL. Engineered Regulatory Systems Modulate Gene Expression of Human Commensals in the Gut. Cell 2017, 169: 547-558.e15. PMID: 28431252, PMCID: PMC5532740, DOI: 10.1016/j.cell.2017.03.045.Peer-Reviewed Original ResearchConceptsGene expressionModulate gene expressionAbsence of inducerCommunity assemblyAddition of inducerGenetic toolsInducible promoterGene productsExpression platformHost physiologyPromoter activityHuman commensalGenus BacteroidesSynthetic inducersGut anaerobesInducerSialidase activityExpressionNumerous aspectsGut microbiotaSialic acidGutPromoterValuable toolCommensal
2015
A common gut commensal as a cross-reactive candidate in antiphospholipid syndrome (HUM3P.250)
Dehner C, Ruff W, VIEIRA S, Goodman A, Kriegel M. A common gut commensal as a cross-reactive candidate in antiphospholipid syndrome (HUM3P.250). The Journal Of Immunology 2015, 194: 121.10-121.10. DOI: 10.4049/jimmunol.194.supp.121.10.Peer-Reviewed Original ResearchAntiphospholipid syndromeGut commensalsCD4 memory T cellsB-cell immunodominant epitopesWestern blottingIL-17 secretionMemory T cellsB cell responsesAdaptive immune responsesCommon gut commensalPatient plasma samplesAPS patientsIL-10IL-2IL-4T cellsImmune responseImmunodominant epitopesGut microbiotaTh1 clonesMajor autoantigenMolecular mimicryCell responsesPlasma samplesAntigenic potentialGut commensal dependence of autoreactivity and Th17 cells in systemic autoimmunity (MUC9P.740)
Manfredo Vieira S, Ruff W, Hiltensperger M, Yu A, Goodman A, Kriegel M. Gut commensal dependence of autoreactivity and Th17 cells in systemic autoimmunity (MUC9P.740). The Journal Of Immunology 2015, 194: 205.4-205.4. DOI: 10.4049/jimmunol.194.supp.205.4.Peer-Reviewed Original ResearchAntiphospholipid syndromeSegmented filamentous bacteriaSystemic autoimmunityGut microbiotaAntiphospholipid antibody productionRegulatory IL-10Gut microbiota compositionAntigen-specific effectsBroad-spectrum antibioticsAnaerobic gut microbiotaTh17 cellsIL-17Infectious triggerPathogenic autoantibodiesPulmonary emboliIL-10IL-21Myocardial infarctionIL-1BSplenocyte proliferationAntibody productionMicrobiota compositionImmune systemAutoimmunityMicrobiotaCross‐reactivity of Gut Commensals and Autoantigen in Antiphospholipid Syndrome
Dehner C, Ruff W, Vieira S, Goodman A, Kriegel M. Cross‐reactivity of Gut Commensals and Autoantigen in Antiphospholipid Syndrome. The FASEB Journal 2015, 29 DOI: 10.1096/fasebj.29.1_supplement.142.4.Peer-Reviewed Original ResearchAntiphospholipid syndromeMemory T cellsAutoimmune disease modelsGut commensalsAdaptive immune responsesB cell reactivityB-cell epitopesPatient plasma samplesAPS pathogenesisAPS patientsPatient PBMCsUnknown etiologyCell reactivityControl subjectsT cellsImmune responseCell epitopesT cell librariesB cellsGut microbiotaWestern blot experimentsWestern blottingHuman autoantigensDisease modelsPlasma samples
2009
Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat
Goodman AL, McNulty NP, Zhao Y, Leip D, Mitra RD, Lozupone CA, Knight R, Gordon JI. Identifying Genetic Determinants Needed to Establish a Human Gut Symbiont in Its Habitat. Cell Host & Microbe 2009, 6: 279-289. PMID: 19748469, PMCID: PMC2895552, DOI: 10.1016/j.chom.2009.08.003.Peer-Reviewed Original ResearchConceptsHuman gut symbiontHuman gut bacteriumHuman gut commensalAdjacent chromosomal DNAGut symbiontsHuman gut microbiotaGenomic locationMicrobial genesCommunity compositionTransposon mutantsMicrobial adaptationChromosomal DNAHuman symbiontsParallel sequencingGut bacteriumBacteroides thetaiotaomicronRelative abundanceGenetic determinantsGut commensalsSymbiontsVivo selectionMetabolic organCellular compositionGnotobiotic miceGut microbiota