ArticleISME communications2024
A flexible high-throughput cultivation protocol to assess the response of individuals' gut microbiota to diet-, drug-, and host-related factors.
Article in ISME communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Drug-microbiome-host interactions: antimicrobial effects of non-antibiotic compounds.Nature reviews. Gastroenterology & hepatology · 2026Review
- From diet to function: using synthetic microbial communities to map gut microbial interactions.NPJ biofilms and microbiomes · 2026Review
- Microbiota-Driven Metabolic Alterations Induced by BPA, TDCPP and PFOA in an Ex Vivo Human Fecal Fermentation Model.Chemical research in toxicology · 2026Article
- Article
- Novel cross-feeding human gut microbes metabolizing tryptophan to indole-3-propionate.Gut microbes · 2025Article
- Enabling next-generation anaerobic cultivation through biotechnology to advance functional microbiome research.Nature biotechnology · 2025Review
- Deciphering oxidative stress responses in human gut microbes and fecal microbiota: a cultivation-based approach.FEMS microbiology ecology · 2025Article
- Evaluating long-term stool preservation methods for maximizing the recovery of viable human fecal microbiota.Gut microbes reports · 2025Article
- Microbially-produced folate forms support the growth of Roseburia intestinalis but not its competitive fitness in fecal batch fermentations.BMC microbiology · 2024Article
- Cultivating efficiency: high-throughput growth analysis of anaerobic bacteria in compact microplate readers.Microbiology spectrum · 2024Article
- Vitamin B12 analogues from gut microbes and diet differentially impact commensal propionate producers of the human gut.Frontiers in nutrition · 2024Article
- Intestinal bacteria-derived tryptamine and its impact on human gut microbiota.Frontiers in microbiomes · 2024Article
- Cultivating efficiency: High-throughput growth analysis of anaerobic bacteria in compact microplate readers.bioRxiv : the preprint server for biology · 2023Article
Corrections and comments
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Authors and funding
9 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The anaerobic cultivation of fecal microbiota is a promising approach to investigating how gut microbial communities respond to specific intestinal conditions and perturbations. Here, we describe a flexible protocol using 96-deepwell plates to cultivate stool-derived gut microbiota. Our protocol aims to address gaps in high-throughput culturing in an anaerobic chamber. We characterized the influence of the gas phase on the medium chemistry and microbial physiology and introduced a modular medium preparation process to enable the testing of several conditions simultaneously. Furthermore, we identified a medium formulation that maximized the compositional similarity of
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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 OpenQuestion graph.