Rewilding plant microbiomes

Raaijmakers, J.M.; Kiers, E. Toby

doi:10.1126/science.abn6350

Cited by 70 publications

(51 citation statements)

References 15 publications

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“…Knowledge of the bacterial metabolitemediated alteration of plants in response to environmental stress will open new avenues for utilising Streptomyces to rewild plant microbiomes and improve plant abiotic stress resistance and health. 51…”

Section: Discussionmentioning

confidence: 99%

Streptomyces alleviate abiotic stress in plant by producing pteridic acids

Yang

Strøbech

Qiao

et al. 2022

Preprint

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Soil microbiota can confer fitness advantages to plants and increase crop resilience to drought and other abiotic stressors. However, there is little evidence on the mechanisms correlating a microbial trait with plant abiotic stress tolerance. Here, we report that a class of Streptomyces effectively alleviates the drought and salinity stress by producing new spiroketal polyketide pteridic acid H (1) and its isomer F (2). The bifunctional pteridic acid (pta) biosynthetic gene cluster (BGC), which is also responsible for the biosynthesis of the known antimicrobial elaiophylin, was confirmed by bioinformatic analysis and in vivo CRISPR base editing. Pteridic acids H and F exhibited profound effects in promoting root growth in Arabidopsis at a concentration of 0.5 ng mL-1 (1.3 nM) under abiotic stress, indicating they are a new class of plant stress regulators. Phylogenetic and geographical distribution analysis revealed that the pta BGC was mainly disseminated by vertical transmission and occasional horizontal gene transfer and is widely distributed in numerous Streptomyces in different environments. This discovery reveals a new perspective for understanding plant-Streptomyces interactions and provides a novel, promising approach for utilising beneficial Streptomyces and their secondary metabolites in agriculture to mitigate the detrimental effects of climate change.

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Section: Discussionmentioning

confidence: 99%

Streptomyces alleviate abiotic stress in plant by producing pteridic acids

Yang

Strøbech

Qiao

et al. 2022

Preprint

View full text Add to dashboard Cite

show abstract

“…Knowledge of the bacterial metabolite-mediated alteration of plants in response to environmental stress will open new avenues for utilising Streptomyces to rewild plant microbiomes and improve plant abiotic stress resistance and health. 51…”

Section: Discussionmentioning

confidence: 99%

Streptomycesalleviate abiotic stress in plant by producing pteridic acids

Yang

Strøbech

Qiao

et al. 2022

Preprint

View full text Add to dashboard Cite

Soil microbiota confer fitness advantages to plants and increase crop resilience to drought and other abiotic stressors. However, there is little evidence on the mechanisms correlating a microbial trait with plant abiotic stress tolerance. Here, we report that a class of Streptomyces effectively alleviates the drought and salinity stress by producing new spiroketal polyketide pteridic acid H (1) and its isomer F (2). The bifunctional pteridic acid (pta) biosynthetic gene cluster (BGC), which is also responsible for the biosynthesis of the known antimicrobial elaiophylin, was confirmed by bioinformatic analysis and in vivo CRISPR base editing. Pteridic acids H and F exhibited profound effects in promoting root growth in Arabidopsis at a concentration of 0.5 ng mL-1 (1.3 nM) under abiotic stress, indicating they are a new class of plant stress regulators. Phylogenetic and geographical distribution analysis revealed that the pta BGC was mainly disseminated by vertical transmission and occasional horizontal gene transfer and is widely distributed in numerous Streptomyces in different environments. This discovery provides a new perspective for understanding plant-Streptomyces interactions and provides a novel, promising approach for utilising beneficial Streptomyces and their secondary metabolites in agriculture to mitigate the detrimental effects of climate change.

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“…The development of studies focusing on the optimization of the isolation of specific members of the plant microbiome is rising, as there is a need to test hypotheses based on the manipulation of the plant microbiota and to establish synthetic communities for plant microbiome studies. This strategy can be applied to identify key microbial genera associated with particular plant phenotypes (e.g., resistant to vascular plant pathogens [ 5 ]) or by transplanting beneficial bacteria from microbiomes of wild plant genotypes to cropped cultivars [ 72 ]. Such cultured bacterial consortia can also be ideal targets for the design of effective biofertilizers, biostimulants or biocontrol agents for a wide range of crops [ 73 ].…”

Section: Methodological Approaches To Study the Xylem Microbiotamentioning

confidence: 99%

Insights into the Methodological, Biotic and Abiotic Factors Influencing the Characterization of Xylem-Inhabiting Microbial Communities of Olive Trees

Anguita-Maeso

Navas‐Cortés

Landa

2023

Plants

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Vascular pathogens are the causal agents of some of the most devastating plant diseases in the world, which can cause, under specific conditions, the destruction of entire crops. These plant pathogens activate a range of physiological and immune reactions in the host plant following infection, which may trigger the proliferation of a specific microbiome to combat them by, among others, inhibiting their growth and/or competing for space. Nowadays, it has been demonstrated that the plant microbiome can be modified by transplanting specific members of the microbiome, with exciting results for the control of plant diseases. However, its practical application in agriculture for the control of vascular plant pathogens is hampered by the limited knowledge of the plant endosphere, and, in particular, of the xylem niche. In this review, we present a comprehensive overview of how research on the plant microbiome has evolved during the last decades to unravel the factors and complex interactions that affect the associated microbial communities and their surrounding environment, focusing on the microbial communities inhabiting the xylem vessels of olive trees (Olea europaea subsp. europaea), the most ancient and important woody crop in the Mediterranean Basin. For that purpose, we have highlighted the role of xylem composition and its associated microorganisms in plants by describing the methodological approaches explored to study xylem microbiota, starting from the methods used to extract xylem microbial communities to their assessment by culture-dependent and next-generation sequencing approaches. Additionally, we have categorized some of the key biotic and abiotic factors, such as the host plant niche and genotype, the environment and the infection with vascular pathogens, that can be potential determinants to critically affect olive physiology and health status in a holobiont context (host and its associated organisms). Finally, we have outlined future directions and challenges for xylem microbiome studies based on the recent advances in molecular biology, focusing on metagenomics and culturomics, and bioinformatics network analysis. A better understanding of the xylem olive microbiome will contribute to facilitate the exploration and selection of specific keystone microorganisms that can live in close association with olives under a range of environmental/agronomic conditions. These microorganisms could be ideal targets for the design of microbial consortia that can be applied by endotherapy treatments to prevent or control diseases caused by vascular pathogens or modify the physiology and growth of olive trees.

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Rewilding plant microbiomes

Abstract: Microbiota of crop ancestors may offer a way to enhance sustainable food production

Cited by 70 publications

References 15 publications

Streptomyces alleviate abiotic stress in plant by producing pteridic acids

Streptomyces alleviate abiotic stress in plant by producing pteridic acids

Streptomycesalleviate abiotic stress in plant by producing pteridic acids

Insights into the Methodological, Biotic and Abiotic Factors Influencing the Characterization of Xylem-Inhabiting Microbial Communities of Olive Trees

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