Impact of the fungal pathogen Fusarium oxysporum on the taxonomic and functional diversity of the common bean root microbiome

Environmental Microbiome

Research

Siu Mui Tsai¹  Lucas William Mendes²  Alisson Fernando Chiorato³  Ruth Gómez Expósito⁴  Mattias de Hollander⁴  Jos M Raaijmakers⁵  Victor J Carrión⁶  Edis Sepo⁷  Rodrigo Mendes⁸ 

[1] Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, 13416-000, Piracicaba, SP, Brazil;Cell and Molecular Biology Laboratory, Center for Nuclear Energy in Agriculture CENA, University of Sao Paulo USP, 13416-000, Piracicaba, SP, Brazil;Departament of Microbial Ecology, Netherlands Institute of Ecology NIOO-KNAW, 6708 PB, Wageningen, The Netherlands;Centro de Análises e Pesquisa Tecnológica do Agronegócio dos Grãos e Fibras, Instituto Agronômico IAC, 130001-970, Campinas, Brazil;Departament of Microbial Ecology, Netherlands Institute of Ecology NIOO-KNAW, 6708 PB, Wageningen, The Netherlands;Departament of Microbial Ecology, Netherlands Institute of Ecology NIOO-KNAW, 6708 PB, Wageningen, The Netherlands;Institute of Biology, Leiden University, Leiden, the Netherlands;Departament of Microbial Ecology, Netherlands Institute of Ecology NIOO-KNAW, 6708 PB, Wageningen, The Netherlands;Institute of Biology, Leiden University, Leiden, the Netherlands;Departamento de Microbiología, Instituto de Hortofruticultura Subtropical y Mediterránea ‘La Mayora’, Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Universidad de Málaga, Málaga, Spain;Institute of Biology, Leiden University, Leiden, the Netherlands;Laboratory of Environmental Microbiology, Embrapa Environment, 18020-000, Jaguariuna, Brazil;

关键词: rhizosphere;    endosphere;    Metagenome;    Metatranscriptome;    Plant-microbe interaction;   

DOI  :  10.1186/s40793-023-00524-7

 received in 2023-02-24, accepted in 2023-07-20,  发布年份 2023

来源: Springer

【 摘 要 】

BackgroundPlants rely on their root microbiome as the first line of defense against soil-borne fungal pathogens. The abundance and activities of beneficial root microbial taxa at the time prior to and during fungal infection are key to their protective success. If and how invading fungal root pathogens can disrupt microbiome assembly and gene expression is still largely unknown. Here, we investigated the impact of the fungal pathogen Fusarium oxysporum (fox) on the assembly of rhizosphere and endosphere microbiomes of a fox-susceptible and fox-resistant common bean cultivar.ResultsIntegration of 16S-amplicon, shotgun metagenome as well as metatranscriptome sequencing with community ecology analysis showed that fox infections significantly changed the composition and gene expression of the root microbiome in a cultivar-dependent manner. More specifically, fox infection led to increased microbial diversity, network complexity, and a higher proportion of the genera Flavobacterium, Bacillus, and Dyadobacter in the rhizosphere of the fox-resistant cultivar compared to the fox-susceptible cultivar. In the endosphere, root infection also led to changes in community assembly, with a higher abundance of the genera Sinorhizobium and Ensifer in the fox-resistant cultivar. Metagenome and metatranscriptome analyses further revealed the enrichment of terpene biosynthesis genes with a potential role in pathogen suppression in the fox-resistant cultivar upon fungal pathogen invasion.ConclusionCollectively, these results revealed a cultivar-dependent enrichment of specific bacterial genera and the activation of putative disease-suppressive functions in the rhizosphere and endosphere microbiome of common bean under siege.

【 授权许可】

CC BY   
© BioMed Central Ltd., part of Springer Nature 2023

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