ReviewNature microbiology2018
Understanding how microbiomes influence the systems they inhabit.
Review in Nature microbiology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 71 papers.
What it found
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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.
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Who cites it
71 citing papers in PubMed.
- Microbial ecology of shallow groundwater ecosystems.Nature reviews. Microbiology · 2026Review
- A Microcapsule-Integrated smRandom-seq Platform Enables Fixation-Free Single Microbe RNA Sequencing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- The Elbe Estuary Microbiome Shifts With Salinity and Discharge and Depends on Fresh Organic Matter and Nutrient Availability.Environmental microbiology reports · 2026Article
- The aging gut-glia-immune axis in alzheimer's disease: microbiome-derived mediators of neuroinflammation and therapeutic innovation.GeroScience · 2026Review
- Beyond Resistance: Phenotypic Plasticity in Bacterial Responses to Antibiotics, Oxidative Stress and Antimicrobial Photodynamic Inactivation.Molecules (Basel, Switzerland) · 2026Review
- Soil Nutrient Enrichment Induces Trade-Offs in Bacterial Life-History Strategies Promoting Plant Productivity.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Soil pH modulates microbial nitrogen allocation in soil via compositional and metabolic shifts across forests in Japan.iMetaOmics · 2025Article
- Relative abundances of bacterial phyla are strong indicators of community-scale microbial growth rates in soil.Environmental microbiome · 2025Article
- Environmental matrix and moisture influence soil microbial phenotypes in a simplified porous media incubation.mSystems · 2025Article
- Comparing field and lab quantitative stable isotope probing for nitrogen assimilation in soil microbes.Applied and environmental microbiology · 2025Article
- Marine phytoplankton impose strong selective pressures onISME communications · 2025Article
- Effects of different fermentation temperatures on microbiomes of cigar tobacco leaves.Frontiers in bioengineering and biotechnology · 2025Article
- Soil properties drive nitrous oxide accumulation patterns by shaping denitrifying bacteriomes.Environmental microbiome · 2024Article
- Perturbations to common gardens of anaerobic co-digesters reveal relationships between functional resilience and microbial community composition.Applied and environmental microbiology · 2024Article
- Limiting Resources Define the Global Pattern of Soil Microbial Carbon Use Efficiency.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Global patterns in the growth potential of soil bacterial communities.Nature communications · 2024Article
- Genomic fingerprints of the world's soil ecosystems.mSystems · 2024Article
- Towards establishing a fungal economics spectrum in soil saprobic fungi.Nature communications · 2024Article
- Decoding populations in the ocean microbiome.Microbiome · 2024Article
- Predictions of rhizosphere microbiome dynamics with a genome-informed and trait-based energy budget model.Nature microbiology · 2024Article
11 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
18 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Translating the ever-increasing wealth of information on microbiomes (environment, host or built environment) to advance our understanding of system-level processes is proving to be an exceptional research challenge. One reason for this challenge is that relationships between characteristics of microbiomes and the system-level processes that they influence are often evaluated in the absence of a robust conceptual framework and reported without elucidating the underlying causal mechanisms. The reliance on correlative approaches limits the potential to expand the inference of a single relationship to additional systems and advance the field. We propose that research focused on how microbiomes influence the systems they inhabit should work within a common framework and target known microbial processes that contribute to the system-level processes of interest. Here, we identify three distinct categories of microbiome characteristics (microbial processes, microbial community properties and microbial membership) and propose a framework to empirically link each of these categories to each other and the broader system-level processes that they affect. We posit that it is particularly important to distinguish microbial community properties that can be predicted using constituent taxa (community-aggregated traits) from those properties that cannot currently be predicted using constituent taxa (emergent properties). Existing methods in microbial ecology can be applied to more explicitly elucidate properties within each of these three categories of microbial characteristics and connect them with each other. We view this proposed framework, gleaned from a breadth of research on environmental microbiomes and ecosystem processes, as a promising pathway with the potential to advance discovery and understanding across a broad range of microbiome science.
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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.