ArticleMicrobiome2019
Understanding microbial community dynamics to improve optimal microbiome selection.
Article in Microbiome, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 papers.
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Who cites it
37 citing papers in PubMed.
- The plastisphere: not a unique biofilm but a unifying concept for the interdisciplinary plastic biofilm research community.FEMS microbiology ecology · 2026Article
- Microbial biotechnology meets ecological theory: a unified framework to design industrial microbial consortia.International microbiology : the official journal of the Spanish Society for Microbiology · 2026Review
- Novel artificial selection method improves function of simulated microbial communities.PLoS computational biology · 2026Article
- An artificial selection procedure enriches for known and suspected chitin degraders from the prokaryotic rare biosphere of multiple marine biotopes.BMC microbiology · 2025Article
- The success of artificial selection for collective composition hinges on initial and target values.eLife · 2025Article
- Quantifying synthetic bacterial community composition with flow cytometry: efficacy in mock communities and challenges in co-cultures.mSystems · 2025Article
- Directed Evolution of Microbial Communities in Fermented Foods: Strategies, Mechanisms, and Challenges.Foods (Basel, Switzerland) · 2025Review
- Deterministic succession patterns in the rumen and fecal microbiome associate with host metabolic shifts in peripartum dairy cattle.GigaScience · 2025Article
- Microbes from ambient-pressure analogues offer insights into possible life in Europa's high-pressure subsurface ocean.Frontiers in microbiology · 2025Article
- Artificial selection improves pollutant degradation by bacterial communities.Nature communications · 2024Article
- Characterizing the Contribution of Functional Microbiota Cultures in Pit Mud to the Metabolite Profiles of Fermented Grains.Foods (Basel, Switzerland) · 2024Article
- An exploration of mechanisms underlyingmSphere · 2024Article
- Multi-Generation Ecosystem Selection of Rhizosphere Microbial Communities Associated with Plant Genotype and Biomass inMicroorganisms · 2023Article
- The effectiveness of artificial microbial community selection: a conceptual framework and a meta-analysis.Frontiers in microbiology · 2023Article
- Guided by the principles of microbiome engineering: Accomplishments and perspectives for environmental use.mLife · 2022Review
- Sugarcane cultivation practices modulate rhizosphere microbial community composition and structure.Scientific reports · 2022Article
- Microbial community shifts induced by plastic and zinc as substitutes of tire abrasion.Scientific reports · 2022Article
- The ability of Phaeobacter inhibens to produce tropodithietic acid influences the community dynamics of a microalgal microbiome.ISME communications · 2022Article
- Individual competence predominates over host nutritional status in Arabidopsis root exudate-mediated bacterial enrichment in a combination of four Burkholderiaceae species.BMC microbiology · 2022Article
- Plastisphere community assemblage of aquatic environment: plastic-microbe interaction, role in degradation and characterization technologies.Environmental microbiome · 2022Review
Corrections and comments
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundArtificial selection of microbial communities that perform better at a desired process has seduced scientists for over a decade, but the method has not been systematically optimised nor the mechanisms behind its success, or failure, determined. Microbial communities are highly dynamic and, hence, go through distinct and rapid stages of community succession, but the consequent effect this may have on artificially selected communities is unknown.
resultsUsing chitin as a case study, we successfully selected for microbial communities with enhanced chitinase activities but found that continuous optimisation of incubation times between selective transfers was of utmost importance. The analysis of the community composition over the entire selection process revealed fundamental aspects in microbial ecology: when incubation times between transfers were optimal, the system was dominated by Gammaproteobacteria (i.e. main bearers of chitinase enzymes and drivers of chitin degradation), before being succeeded by cheating, cross-feeding and grazing organisms.
conclusionsThe selection of microbiomes to enhance a desired process is widely used, though the success of artificially selecting microbial communities appears to require optimal incubation times in order to avoid the loss of the desired trait as a consequence of an inevitable community succession. A comprehensive understanding of microbial community dynamics will improve the success of future community selection studies.
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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.