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 B6Cross-feeding in the gut microbiome: Ecology and mechanisms
Culp E, Goodman A. Cross-feeding in the gut microbiome: Ecology and mechanisms. Cell Host & Microbe 2023, 31: 485-499. PMID: 37054671, PMCID: PMC10125260, DOI: 10.1016/j.chom.2023.03.016.Peer-Reviewed Original ResearchConceptsHost healthHost-microbe interactionsSpecies fitnessMicrobe-microbeEvolutionary implicationsMicrobial inhabitantsGut communitiesTrophic networksMicrobial communitiesTrophic levelsMammalian gutPrimary fermentersMetabolic outputDifferent microbesAmino acidsGut commensalsCooperative interactionsGut microbiomeNegative interactionsFitnessMutualismEcologyMicrobesEmergent roleCofactor
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 stimulus
2016
Lupus T and B cell cross-reactivity between the human Ro60 autoantigen and Ro60 orthologs from the human microbiota
Greiling T, Dehner C, Renfroe S, Chen X, Vieira S, Ruff W, Goodman A, Wolin S, Kriegel M. Lupus T and B cell cross-reactivity between the human Ro60 autoantigen and Ro60 orthologs from the human microbiota. The Journal Of Immunology 2016, 196: 124.16-124.16. DOI: 10.4049/jimmunol.196.supp.124.16.Peer-Reviewed Original ResearchLupus patientsAnti-Ro60 antibodiesB cellsP. propionicumGerm-free miceGut commensalsHuman lupus patientsHuman microbiotaT cell clonesNovel therapeutic approachesSubset of skinAutoimmune TEarliest autoantibodiesLupus TRo60 antibodiesIgA antibodiesChronic autoimmunityMemory TSystemic autoimmunityHealthy controlsT cellsTherapeutic approachesPatientsSusceptible individualsAutoimmunityHuman symbionts inject and neutralize antibacterial toxins to persist in the gut
Wexler AG, Bao Y, Whitney JC, Bobay LM, Xavier JB, Schofield WB, Barry NA, Russell AB, Tran BQ, Goo YA, Goodlett DR, Ochman H, Mougous JD, Goodman AL. Human symbionts inject and neutralize antibacterial toxins to persist in the gut. Proceedings Of The National Academy Of Sciences Of The United States Of America 2016, 113: 3639-3644. PMID: 26957597, PMCID: PMC4822603, DOI: 10.1073/pnas.1525637113.Peer-Reviewed Original ResearchConceptsHuman gut symbiontGut symbiontsMicrobial communitiesProminent Human Gut SymbiontHundreds of speciesHuman gut commensalGut microbial communityContact-dependent killingHuman gut microbiomeAntibacterial toxinsInterbacterial interactionsInteraction assaysCommunity compositionInterbacterial antagonismEffector lociImmunity genesMajor phylaSecretome studiesHuman symbiontsSymbiontsMicrobiome manipulationGut microbesGut commensalsMultiple mouse modelsGut microbiome
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 potentialCross‐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