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Related Experiment Video

Updated: Jun 6, 2026

Exploring the Root Microbiome: Extracting Bacterial Community Data from the Soil, Rhizosphere, and Root Endosphere

Exploring the Root Microbiome: Extracting Bacterial Community Data from the Soil, Rhizosphere, and Root Endosphere

Published on: May 2, 2018

Toward predictive plant microbiomes: From assembly rules to deployment.

Jitendra Mishra¹, Naveen Kumar Arora²

¹Amity School of Biological Sciences, Amity University Punjab, Mohali, Punjab 140306, India.

Microbiological Research

|June 4, 2026

Summary

This summary is machine-generated.

Plant microbiomes are crucial for ecosystem health and agriculture. Engineering these plant-microbe interactions offers solutions for sustainable crop production and climate resilience.

Keywords:

Biofortification Climate resilience Holobiont Plant microbiome SynCom

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Area of Science:

Plant Science
Microbiology
Ecology

Background:

Plants function as holobionts, with their health and ecosystem roles intrinsically linked to their associated microbiomes.
Advances in multi-omics and systems ecology illuminate plant-microbe interactions in nutrient cycling, immunity, and stress tolerance.
Current knowledge is largely descriptive, hindering practical applications for global challenges.

Purpose of the Study:

Advocate for a paradigm shift from microbiome cataloguing to predictive and application-oriented plant microbiome engineering.
Synthesize fundamental principles of microbiome assembly and connect them to translational strategies.
Explore harnessing plant microbiomes for enhanced agriculture, ecosystem restoration, climate resilience, and bioenergy production.

Main Methods:

Review and synthesis of fundamental principles of microbiome assembly (e.g., rhizodeposition, host control, network dynamics).
Integration of mechanistic insights with ecological realism for application-oriented strategies.
Examination of frameworks like synthetic microbial communities, microbiome-aware breeding, and trait-based selection.

Main Results:

Plant microbiomes can be engineered to improve crop biofortification and bioprotection.
Microbiome engineering can aid in restoring degraded ecosystems and modulating carbon and nitrogen cycling.
Sustainable bioenergy production on marginal lands can be supported through microbiome applications.

Conclusions:

Plant microbiome engineering holds significant potential for sustainable agriculture, climate action, and the bio-based economy.
Key frameworks include synthetic microbial communities, microbiome-aware breeding, and trait-based microbial selection for establishing causality.
Challenges to field deployment include ecological instability, host specificity, greenhouse gas feedbacks, and regulatory uncertainty.