ReviewFEMS microbiology reviews2014
Interactions in the microbiome: communities of organisms and communities of genes.
Review in FEMS microbiology reviews, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 89 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
89 citing papers in PubMed.
- Data-driven enterosignatures link gut microbiome reorganization to heat stress responses in lactating sows.Frontiers in microbiology · 2026Article
- Ecological assembly of mucosal and fecal microbiomes in ulcerative colitis across genes, functions, and species.Frontiers in microbiology · 2026Article
- Effect of PGPB-enriched organic fertilizer ORGAONEnvironmental microbiome · 2025Article
- Characterization of Gut Microbiota of Honey Bees in Korea.Polish journal of microbiology · 2025Article
- Modeling the emergent metabolic potential of soil microbiomes in Atacama landscapes.Environmental microbiome · 2025Article
- Use of Two PGPB Strains for the Valorization of Wastewater Sludge and Formulation of a Biofertilizer for the Recovery ofLife (Basel, Switzerland) · 2025Article
- Exploring the Bacterial Microbiota of Seeds.Microbial biotechnology · 2025Review
- Microbiome metabolic capacity is buffered against phylotype losses by functional redundancy.Applied and environmental microbiology · 2025Article
- Analysis of metagenomic data.Nature reviews. Methods primers · 2025Article
- Soil properties predict below-ground community structure, but not nematode microbiome patterns in semi-arid habitats.Molecular ecology · 2024Article
- Quantitative principles of microbial metabolism shared across scales.Nature microbiology · 2024Review
- Inferring diet, disease and antibiotic resistance from ancient human oral microbiomes.Microbial genomics · 2024Review
- A generic approach to infer community-level fitness of microbial genes.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Towards a unified medical microbiome ecology of the OMU for metagenomes and the OTU for microbes.BMC bioinformatics · 2024Article
- - Invited Review - Understanding the functionality of the rumen microbiota: searching for better opportunities for rumen microbial manipulation.Animal bioscience · 2024Article
- Probing interspecies metabolic interactions within a synthetic binary microbiome using genome-scale modeling.Microbiome research reports · 2024Article
- Identification of closely related species inFrontiers in microbiology · 2024Article
- ReducingAnalytical chemistry · 2023Article
- Cross-study analyses of microbial abundance using generalized common factor methods.BMC bioinformatics · 2023Article
- Trade-off in genome turnover events leading to adaptive evolution of Microcystis aeruginosa species complex.BMC genomics · 2023Article
29 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
Abstract
A central challenge in microbial community ecology is the delineation of appropriate units of biodiversity, which can be taxonomic, phylogenetic, or functional in nature. The term 'community' is applied ambiguously; in some cases, the term refers simply to a set of observed entities, while in other cases, it requires that these entities interact with one another. Microorganisms can rapidly gain and lose genes, potentially decoupling community roles from taxonomic and phylogenetic groupings. Trait-based approaches offer a useful alternative, but many traits can be defined based on gene functions, metabolic modules, and genomic properties, and the optimal set of traits to choose is often not obvious. An analysis that considers taxon assignment and traits in concert may be ideal, with the strengths of each approach offsetting the weaknesses of the other. Individual genes also merit consideration as entities in an ecological analysis, with characteristics such as diversity, turnover, and interactions modeled using genes rather than organisms as entities. We identify some promising avenues of research that are likely to yield a deeper understanding of microbial communities that shift from observation-based questions of 'Who is there?' and 'What are they doing?' to the mechanistically driven question of 'How will they respond?'
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What OpenQuestion holds
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.