ArticleThe ISME journal2022
Ecological memory of prior nutrient exposure in the human gut microbiome.
Article in The ISME journal, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
20 citing papers in PubMed.
- Weight, habitual fibre intake, and microbiome composition predict tolerance to fructan supplementation.International journal of food sciences and nutrition · 2024Trial
- Multiomics insights into the effects of prebiotics on physical function and metabolism in adults with obesity and knee osteoarthritis.Gut microbes · 2026Article
- Omics-based decoding of molecular and metabolic crosstalk in the skin barrier ecosystem.Cell death and differentiation · 2026Review
- Engineering Basal Cognition: Minimal Genetic Circuits for Habituation, Sensitization, and Massed-Spaced Learning.ACS synthetic biology · 2026Article
- Exploring the concept of bacterial memory.Nature microbiology · 2025Review
- Fasting builds a favorable environment for effective gut microbiota modulation by microbiota-accessible carbohydrates.BMC microbiology · 2025Article
- Article
- Environment-mediated interactions cause an externalized and collective memory in bacteria.The ISME journal · 2025Article
- Article
- Interplay between particle size and microbial ecology in the gut microbiome.bioRxiv : the preprint server for biology · 2024Article
- Interplay between particle size and microbial ecology in the gut microbiome.The ISME journal · 2024Article
- Exploring the memory of the gut microbiome: a multifaceted perspective.Frontiers in microbiomes · 2024Article
- Parity modulates impact of BMI and gestational weight gain on gut microbiota in human pregnancy.Gut microbes · 2023Article
- A heritable iron memory enables decision-making inProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Association between microbiome and the development of adverse posttraumatic neuropsychiatric sequelae after traumatic stress exposure.Translational psychiatry · 2023Article
- Receptor-Independent Therapies for Forensic Detainees with Schizophrenia-Dementia Comorbidity.International journal of molecular sciences · 2023Article
- Article
- Diversity of plant DNA in stool is linked to dietary quality, age, and household income.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Steamed broccoli sprouts alleviate DSS-induced inflammation and retain gut microbial biogeography in mice.bioRxiv : the preprint server for biology · 2023Article
- Gut dysbiosis in nonalcoholic fatty liver disease: pathogenesis, diagnosis, and therapeutic implications.Frontiers in cellular and infection microbiology · 2022Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors.
Funding
Abstract
Many ecosystems have been shown to retain a memory of past conditions, which in turn affects how they respond to future stimuli. In microbial ecosystems, community disturbance has been associated with lasting impacts on microbiome structure. However, whether microbial communities alter their response to repeated stimulus remains incompletely understood. Using the human gut microbiome as a model, we show that bacterial communities retain an "ecological memory" of past carbohydrate exposures. Memory of the prebiotic inulin was encoded within a day of supplementation among a cohort of human study participants. Using in vitro gut microbial models, we demonstrated that the strength of ecological memory scales with nutrient dose and persists for days. We found evidence that memory is seeded by transcriptional changes among primary degraders of inulin within hours of nutrient exposure, and that subsequent changes in the activity and abundance of these taxa are sufficient to enhance overall community nutrient metabolism. We also observed that ecological memory of one carbohydrate species impacts microbiome response to other carbohydrates, and that an individual's habitual exposure to dietary fiber was associated with their gut microbiome's efficiency at digesting inulin. Together, these findings suggest that the human gut microbiome's metabolic potential reflects dietary exposures over preceding days and changes within hours of exposure to a novel nutrient. The dynamics of this ecological memory also highlight the potential for intra-individual microbiome variation to affect the design and interpretation of interventions involving the gut microbiome.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.