{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Ng KM"],"funding":["Howard Hughes Medical Institute","NIDDK NIH HHS","Fundação para a Ciência e Tecnologia of Portugal","NIH HHS"],"pagination":["650-665.e4"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC8276089"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["26(5)"],"pubmed_abstract":["Antibiotics alter microbiota composition and increase infection susceptibility. However, the generalizable effects of antibiotics on and the contribution of environmental variables to gut commensals remain unclear. To address this, we tracked microbiota dynamics with high temporal and taxonomic resolution during antibiotic treatment in a controlled murine system by isolating variables such as diet, treatment history, and housing co-inhabitants. Human microbiotas were remarkably resilient and recovered during antibiotic treatment, with transient dominance of resistant Bacteroides and taxa-asymmetric diversity reduction. In certain cases, in vitro sensitivities were not predictive of in vivo responses, underscoring the significance of host and community context. A fiber-deficient diet exacerbated microbiota collapse and delayed recovery. Species replacement through cross housing after ciprofloxacin treatment established resilience to a second treatment. Single housing drastically disrupted recovery, highlighting the importance of environmental reservoirs. Our findings highlight deterministic microbiota adaptations to perturbations and the translational potential for modulating diet, sanitation, and microbiota composition during antibiotics."],"journal":["Cell host & microbe"],"pubmed_title":["Recovery of the Gut Microbiota after Antibiotics Depends on Host Diet, Community Context, and Environmental Reservoirs."],"pmcid":["PMC8276089"],"funding_grant_id":["R01 DK085025","R01 DK101674","DP2 OD006466","IF/00831/2015","PD/BD/106000/2014"],"pubmed_authors":["Tropini C","Fischbach MA","Sonnenburg JL","Merrill BD","Higginbottom SK","Frankel MR","Xavier KB","Aranda-Diaz A","Neff NF","O'Loughlin CT","Oliveira RA","Ng KM","Van Treuren W","Huang KC","Yu FB","Pruss KM"],"additional_accession":[]},"is_claimable":false,"name":"Recovery of the Gut Microbiota after Antibiotics Depends on Host Diet, Community Context, and Environmental Reservoirs.","description":"Antibiotics alter microbiota composition and increase infection susceptibility. However, the generalizable effects of antibiotics on and the contribution of environmental variables to gut commensals remain unclear. To address this, we tracked microbiota dynamics with high temporal and taxonomic resolution during antibiotic treatment in a controlled murine system by isolating variables such as diet, treatment history, and housing co-inhabitants. Human microbiotas were remarkably resilient and recovered during antibiotic treatment, with transient dominance of resistant Bacteroides and taxa-asymmetric diversity reduction. In certain cases, in vitro sensitivities were not predictive of in vivo responses, underscoring the significance of host and community context. A fiber-deficient diet exacerbated microbiota collapse and delayed recovery. Species replacement through cross housing after ciprofloxacin treatment established resilience to a second treatment. Single housing drastically disrupted recovery, highlighting the importance of environmental reservoirs. Our findings highlight deterministic microbiota adaptations to perturbations and the translational potential for modulating diet, sanitation, and microbiota composition during antibiotics.","dates":{"release":"2019-01-01T00:00:00Z","publication":"2019 Nov","modification":"2024-11-12T14:25:42.457Z","creation":"2022-02-10T20:20:41.629Z"},"accession":"S-EPMC8276089","cross_references":{"pubmed":["31726029"],"doi":["10.1016/j.chom.2019.10.011"]}}