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Updated: Feb 2, 2026

Exploring the Root Microbiome: Extracting Bacterial Community Data from the Soil, Rhizosphere, and Root Endosphere
Published on: May 2, 2018
Protists: Puppet Masters of the Rhizosphere Microbiome
Zhilei Gao1, Ida Karlsson2, Stefan Geisen3
1Institute of Environmental Biology, Ecology & Biodiversity, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands; These authors contributed equally.
Predators like protists are crucial for structuring the plant rhizosphere microbiome. Understanding these predator-prey interactions is key to managing plant growth and health.
Area of Science:
- Microbial Ecology
- Plant Science
- Eukaryotic Microbiology
Background:
- The rhizosphere microbiome significantly influences plant performance.
- Microbiome assembly research has primarily focused on resource-driven (bottom-up) processes.
- The role of predation in shaping microbiome structure has been largely overlooked.
Purpose of the Study:
- To review the critical role of protists as regulators of rhizosphere microbiome assembly.
- To highlight the overlooked importance of predation in microbiome dynamics.
- To emphasize the need to incorporate predator-prey interactions into microbiome management strategies.
Main Methods:
- Literature review synthesizing current research on protists in the rhizosphere.
- Analysis of protist functions, including nutrient cycling and pathogen control.
- Evaluation of predator-prey dynamics within the soil microbial community.
Main Results:
- Protists are key regulators of rhizosphere microbiome assembly.
- Protists enhance plant-beneficial functions within the microbiome.
- Protists contribute to nutrient cycling and pathogen removal.
Conclusions:
- Protists are an essential component of the rhizosphere microbiome.
- Accounting for predator-prey interactions is vital for predicting and managing microbiome function.
- Integrating protist dynamics will improve strategies for plant growth and health.
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