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Updated: Jan 24, 2026

Exploring the Root Microbiome: Extracting Bacterial Community Data from the Soil, Rhizosphere, and Root Endosphere
Published on: May 2, 2018
Ecology and Evolution of Plant Microbiomes
Viviane Cordovez1, Francisco Dini-Andreote1, Víctor J Carrión1,2
1Department of Microbial Ecology, Netherlands Institute of Ecology, 6708 PB Wageningen, The Netherlands;
Understanding the plant microbiome is key to improving plant health and growth. This review explores factors shaping plant microbial communities and how domestication impacts them, offering insights for agricultural applications.
Area of Science:
- Microbiology
- Plant Science
- Ecology
Background:
- Microorganisms inhabiting plants offer essential functions, yet their complex ecology and evolution remain poorly understood.
- The plant microbiome's functional capabilities are vast, but knowledge of these diverse microbial communities is limited.
Purpose of the Study:
- To review factors influencing plant microbiome composition and function.
- To highlight the impact of plant domestication on microbiome assembly.
- To propose community ecology theory as a framework for understanding microbiome structure.
Main Methods:
- Literature review of plant genotypic/phenotypic traits and environmental factors.
- Analysis of domestication effects on microbiome assembly.
- Application of community ecology principles to microbiome research.
Main Results:
- Plant traits and environmental factors significantly shape microbiome composition.
- Plant domestication alters microbiome assembly, often reducing beneficial microbes.
- Wild relatives and native habitats offer insights for microbiome restoration.
Conclusions:
- A deeper understanding of plant microbiome ecology is crucial for sustainable agriculture.
- Harnessing microbial benefits requires considering plant traits, environment, and evolutionary history.
- Community ecology provides a robust framework for dissecting microbiome dynamics.
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