Breeding for Beneficial Microbial Communities Using Epigenomics

Corbin, Kendall R.; Bolt, Bridget; López, Carlos M. Rodríguez

doi:10.3389/fmicb.2020.00937

Cited by 16 publications

(12 citation statements)

References 52 publications

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“…The development of next-generation DNA sequencing platforms, and the integration of data from diverse omics approaches, have facilitated the exploration of the complexity of the plant-associated microbial communities in a wide range of environments. Corbin et al [ 95 ] proposed a framework to identify genes involved in plant-microbe interactions via stochastic perturbation of DNA methylation patterns. Exogenously induced DNA demethylation can randomly generate new epialleles in a plant population, that can subsequently alter gene expression of genes and thus the plant phenotype (including the associated microbiomes).…”

Section: Customized Genotype- and Environmental-specific Syncoms To B...mentioning

confidence: 99%

Microbe-assisted crop improvement: a sustainable weapon to restore holobiont functionality and resilience

Sandrini

Moffa

Riccardo

et al. 2022

Horticulture Research

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In the past years, breeding programs have been mainly addressed on pushing the commercial features, forgetting important traits, such as those related to environmental stress resilience, that are instead present in wild relatives. Among the traits neglected by breeding processes, the ability to recruit beneficial microorganisms that recently is receiving a growing attention due to its potentiality. In this context, this review will provide a spotlight on critical issues of the anthropocentric point of view that, until now, has characterized the selection of elite plant genotypes. Its effects on the plant-microbiome interactions, and the possibility to develop novel strategies mediated by the exploitation of beneficial root-microbe interactions, will be discussed. More sustainable microbial-assisted strategies might in fact foster the green revolution and the achievement of a more sustainable agriculture in a climatic change scenario.

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Section: Customized Genotype- and Environmental-specific Syncoms To B...mentioning

confidence: 99%

Microbe-assisted crop improvement: a sustainable weapon to restore holobiont functionality and resilience

Sandrini

Moffa

Riccardo

et al. 2022

Horticulture Research

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“…• Select cultivars receptive to microbial interactions According to Corbin et al (2020), it is important to understand what makes a cultivated plant more or less receptive in order to benefit from the advantages of associations with beneficial microorganisms to improve varieties. To this end, it is necessary to take into account plant genes allowing the plant microbiota assembly regulation in future varietal breeding programs.…”

Section: Two Levers Of Action: the Genomes Of Plants And Their Microbiotamentioning

confidence: 99%

“…They particularly mention the holonbiont potential to contribute to better resistance of cultivated plants to environmental constraints and to boost agricultural productivity. Corbin et al (2020) also see the potential to use the holonbiont as a breeding target for plants. Indeed, they underline the strategic error made until then in varietal selection programs that did not consider plants as a unit of selection and not as holonbionts.…”

Section: • Select Effective Microorganismsmentioning

confidence: 99%

Combining the Seed Endophytic Bacteria and the Back to the Future Approaches for Plant Holonbiont Breeding

L'Hoir

Duponnois

2021

Front. Agron.

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Given the limits of intensive agriculture (pollution, degradation of biodiversity, or soil desertification), it is necessary to develop sustainable alternatives to respond to future agricultural demand. Among these sustainable alternatives is the use of microbial biostimulants. Despite convincing scientific studies on them, their agricultural use remains minor. This can be explained by the lack of efficiency and reliability of their use. This review proposes to develop efficient microbial biostimulants based on the combination of two approaches, namely that of endophytic bacteria from seeds and the Back to the Future approach. Seed endophytic bacteria have a major agroindustrial potential insofar as they stand out from other microbial agents by their resistance, competitiveness, efficiency, and vertical transmission. Contrary to modern cultivars, non-domesticated plants harbor microbiomes which have not been impacted by the processes of domestication and agriculture intensification. The Back to the Future suggests therefore to use interesting microorganisms isolated from non-domesticated plants and to integrate them into modern cultivars. This could result in the rehabilitation of modern microbiomes and lead to make crop cultures more resistant and resilient. The idea consisting in the combination of both approaches aims at obtaining optimized microbiomes. Particular emphasis is placed on integrating these innovative microbiomes into variety breeding programs. Indeed, given the importance of plant-microorganism interactions, particularly from an agronomic point of view, taking the hologenome into account as a unit of selection in breeding programs is essential. This integrative and unprecedented approach to designing breeding programs is promising with a view to reconciling productivity and preservation of agroecosystems.

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“…According to Corbin et al [28], understanding what makes a plant a suitable host for its microbiota is essential to take advantage of the plant-microorganism complex in improving crops. Identifying the genes that allow plants to regulate the assembly of microbiota in their roots is essential for future breeding programs aimed at sustainably improving productivity and product quality.…”

Section: The Microbiome: a Second Genome For Plantsmentioning

confidence: 99%

Plant Breeding and Microbiome

Contreras-Liza¹

2021

Plant Breeding - Current and Future Views

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In this review, references to the use of microorganisms in the process of plant domestication, genetic improvement, and production of traditional and improved varieties have been identified. The domestication process may have had an adverse impact on the composition and functions of the associated microbiota and the microbiota associated with plants influences multiple regulatory processes of plants that together define their phenotype. According to scientific evidence, to increase agricultural production and the sustainability of production systems, future research should develop breeding methods that optimize the symbiosis between plants and microorganisms, to produce new plant phenotypes that result in the production of enough food to meet the needs of the human population.

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Breeding for Beneficial Microbial Communities Using Epigenomics

Cited by 16 publications

References 52 publications

Microbe-assisted crop improvement: a sustainable weapon to restore holobiont functionality and resilience

Microbe-assisted crop improvement: a sustainable weapon to restore holobiont functionality and resilience

Combining the Seed Endophytic Bacteria and the Back to the Future Approaches for Plant Holonbiont Breeding

Plant Breeding and Microbiome

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