Harnessing chemical communication in plant–microbiome and intra-microbiome interactions

Hongfu LI; Yaxin HU; Siqi CHEN; Yusufjon GAFFOROV; Mengcen WANG; Xiaoyu LIU

doi:10.1631/jzus.B2500099

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Reviews | Updated：2025-11-04

Harnessing chemical communication in plant–microbiome and intra-microbiome interactions
Harnessing chemical communication in plant–microbiome and intra-microbiome interactions
植物-微生物组和微生物组内相互作用中化学通讯的应用
Journal of Zhejiang University-SCIENCE B Vol. 26, Issue 10, Pages: 923-934(2025)
Affiliations：

1.College of Agriculture and Biotechnology, Zhejiang University, Hangzhou 310058, China
2.State Key Laboratory of Rice Biology and Breeding, Ministry of Agriculture and Rural Affairs Key Laboratory of Molecular Biology of Crop Pathogens and Insect Pests, Zhejiang University, Hangzhou 310058, China
3.Zhejiang Key Laboratory of Biology and Ecological Regulation of Crop Pathogens and Insects, Zhejiang Engineering Research Center for Biological Control of Crop Pathogens and Insect Pests, Institute of Pesticide and Environmental Toxicology, Zhejiang University, Hangzhou 310058, China
4.Central Asian Center for Development Studies, New Uzbekistan University, Tashkent 100007, Uzbekistan
5.Global Education Program for AgriScience Frontiers, Graduate School of Agriculture, Hokkaido University, Sapporo 060-0808, Japan
6.Australian Research Council Centre of Excellence in Plant Energy Biology, The University of Western Australia, Perth, WA 6430, Australia
Funds：
DOI：10.1631/jzus.B2500099
CLC：
CSTR：
Received：02 March 2025，

Revised：2025-08-03，

Published：20 October 2025
Accepted：

李泓甫,胡雅馨,陈思齐等.植物-微生物组和微生物组内相互作用中化学通讯的应用[J].浙江大学学报（英文版）（B辑：生物医学和生物技术）,2025,26(10):923-934.

Hongfu LI, Yaxin HU, Siqi CHEN, et al. Harnessing chemical communication in plant–microbiome and intra-microbiome interactions[J]. Journal of zhejiang university-science b, 2025, 26(10): 923-934.
李泓甫,胡雅馨,陈思齐等.植物-微生物组和微生物组内相互作用中化学通讯的应用[J].浙江大学学报（英文版）（B辑：生物医学和生物技术）,2025,26(10):923-934. DOI： 10.1631/jzus.B2500099.

Hongfu LI, Yaxin HU, Siqi CHEN, et al. Harnessing chemical communication in plant–microbiome and intra-microbiome interactions[J]. Journal of zhejiang university-science b, 2025, 26(10): 923-934. DOI： 10.1631/jzus.B2500099.

摘要

植物-微生物群以及微生物群内的化学通讯编织出一个复杂的网络，对生态系统稳定性和农业生产力具有重要影响。这种非接触式的相互作用由小分子信号驱动，这些信号协调交互对话的动态并促进有益的互作关系。植物利用这些信号来区分病原体与有益微生物，动态调节免疫反应，并分泌根系外泌物以招募有益微生物群；而微生物则反过来影响植物的养分获取和抗逆能力。这种双向化学对话支撑着养分循环、共同进化、微生物群组装以及植物的抗性。然而，目前在验证参与植物-微生物互作的关键分子方面仍存在知识空白。解析化学通讯需要整合多组学预测关键信息，利用基因组编辑和点击化学来验证生物分子的功能，并借助人工智能（AI）模型来提升解析的分辨率和准确性。本综述旨在推动对化学通讯的理解，并为农业应对粮食安全与气候挑战提供理论支持。

Abstract

Chemical communication in plant–microbiome and intra-microbiome interactions weaves a complex network

critically shaping ecosystem stability and agricultural productivity. This non-contact interaction is driven by small-molecule signals that orchestrate crosstalk dynamics and beneficial association. Plants leverage these signals to distinguish between pathogens and beneficial microbes

dynamically modulate immune responses

and secrete exudates to recruit a beneficial microbiome

while microbes in turn influence plant nutrient acquisition and stress resilience. Such bidirectional chemical dialogues underpin nutrient cycling

co-evolution

microbiome assembly

and plant resistance. However

knowledge gaps persist regarding validating the key molecules involved in plant–microbe interactions. Interpreting chemical communication requires multi-omics integration to predict key information

genome editing and click chemistry to verify the function of biomolecules

and artificial intelligence (AI) models to improve resolution and accuracy. This review helps advance the understanding of chemical communication and provides theoretical support for agriculture to cope with food insecurity and climate challenges.

关键词

Keywords

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