Plant–microbiome interactions: from community assembly to plant health

Nature Reviews Microbiology, Год журнала: 2020, Номер 18(11), С. 607 - 621

Опубликована: Авг. 12, 2020

Язык: Английский

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Microbiome definition re-visited: old concepts and new challenges

Microbiome, Год журнала: 2020, Номер 8(1)

Опубликована: Июнь 30, 2020

The field of microbiome research has evolved rapidly over the past few decades and become a topic great scientific public interest. As result this rapid growth in interest covering different fields, we are lacking clear commonly agreed definition term "microbiome." Moreover, consensus on best practices is missing. Recently, panel international experts discussed current gaps frame European-funded MicrobiomeSupport project. meeting brought together about 40 leaders from diverse areas, while more than hundred all world took part an online survey accompanying workshop. This article excerpts outcomes workshop corresponding embedded short historical introduction future outlook. We propose based compact, clear, comprehensive description provided by Whipps et al. 1988, amended with set novel recommendations considering latest technological developments findings. clearly separate terms microbiota provide discussion composition microbiota, heterogeneity dynamics microbiomes time space, stability resilience microbial networks, core microbiomes, functionally relevant keystone species as well co-evolutionary principles microbe-host inter-species interactions within microbiome. These broad definitions suggested unifying concepts will help to improve standardization studies future, could be starting point for integrated assessment data resulting transfer knowledge basic science into practice. Furthermore, standards important solving new challenges associated anthropogenic-driven changes planetary health, which understanding might play key role. Video Abstract.

Язык: Английский

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Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

The ISME Journal, Год журнала: 2019, Номер 13(7), С. 1722 - 1736

Опубликована: Март 8, 2019

Root-associated microbes play a key role in plant performance and productivity, making them important players agroecosystems. So far, very few studies have assessed the impact of different farming systems on root microbiota it is still unclear whether agricultural intensification influences structure complexity microbial communities. We investigated conventional, no-till, organic wheat fungal communities using PacBio SMRT sequencing samples collected from 60 farmlands Switzerland. Organic harbored much more complex network with significantly higher connectivity than conventional no-till systems. The abundance keystone taxa was highest under where lowest. also found strong negative association (R2 = 0.366; P < 0.0001) between connectivity. occurrence best explained by soil phosphorus levels, bulk density, pH, mycorrhizal colonization. majority are known to form arbuscular associations plants belong orders Glomerales, Paraglomerales, Diversisporales. Supporting this, fungi roots soils farming. To our knowledge, this first study report for agroecosystems, we demonstrate that reduces microbiome.

Язык: Английский

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Environmental stress destabilizes microbial networks

The ISME Journal, Год журнала: 2021, Номер 15(6), С. 1722 - 1734

Опубликована: Янв. 15, 2021

Язык: Английский

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Pathogen-induced activation of disease-suppressive functions in the endophytic root microbiome

Science, Год журнала: 2019, Номер 366(6465), С. 606 - 612

Опубликована: Окт. 31, 2019

Protecting plants from the inside out Some soils show a remarkable ability to suppress disease caused by plant pathogens, an that is attributed plant-associated microbiota. Carrión et al. investigated role of endophytes, intimate microbial community found within roots, in fungal suppression (see Perspective Tringe). The wilt fungus Rhizoctonia solani infects sugar beets, whereupon transcriptional analysis shows several bacterial endophyte species activate biosynthetic gene clusters cause suppression. These organisms produce antifungal effectors, including enzymes can digest cell walls, and secondary metabolites, phenazines, polyketides, siderophores, which may contribute phenotype. Science , this issue p. 606 ; see also 568

Язык: Английский

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Microbiome-Mediated Stress Resistance in Plants

Trends in Plant Science, Год журнала: 2020, Номер 25(8), С. 733 - 743

Опубликована: Апрель 25, 2020

Язык: Английский

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Ecology and Evolution of Plant Microbiomes

Annual Review of Microbiology, Год журнала: 2019, Номер 73(1), С. 69 - 88

Опубликована: Май 15, 2019

Microorganisms colonizing plant surfaces and internal tissues provide a number of life-support functions for their host. Despite increasing recognition the vast functional capabilities microbiome, our understanding ecology evolution taxonomically hyperdiverse microbial communities is limited. Here, we review current knowledge genotypic phenotypic traits as well allogenic autogenic factors that shape microbiome composition functions. We give specific emphasis to impact domestication on assembly how insights into microbiomes wild relatives native habitats can contribute reinstate or enrich microorganisms with beneficial effects growth, development, health. Finally, introduce new concepts perspectives in research, particular community theory mechanistic framework unravel interplay distinct ecological processes-i.e., selection, dispersal, drift, diversification-that structure microbiome.

Язык: Английский

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Host selection shapes crop microbiome assembly and network complexity

New Phytologist, Год журнала: 2020, Номер 229(2), С. 1091 - 1104

Опубликована: Авг. 27, 2020

Plant microbiomes are essential to host health and productivity but the ecological processes that govern crop microbiome assembly not fully known. Here we examined bacterial communities across 684 samples from soils (rhizosphere bulk soil) multiple compartment niches (rhizoplane, root endosphere, phylloplane, leaf endosphere) in maize (Zea mays)-wheat (Triticum aestivum)/barley (Hordeum vulgare) rotation system under different fertilization practices at two contrasting sites. Our results demonstrate along soil-plant continuum is shaped predominantly by niche species rather than site or practice. From epiphytes endophytes, selection pressure sequentially increased diversity network complexity consequently reduced, with strongest effect endosphere. Source tracking indicates mainly derived gradually enriched filtered plant niches. Moreover, were dominated a few dominant taxa (c. 0.5% of phylotypes), bacilli identified as important biomarker for wheat barley Methylobacteriaceae maize. work provides comprehensive empirical evidence on selection, potential sources enrichment assembly, has implications future management manipulation sustainable agriculture.

Язык: Английский

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Modulation of the Root Microbiome by Plant Molecules: The Basis for Targeted Disease Suppression and Plant Growth Promotion

Frontiers in Plant Science, Год журнала: 2020, Номер 10

Опубликована: Янв. 24, 2020

Plants host a mesmerizing diversity of microbes inside and around their roots, known as the microbiome. The microbiome is composed mostly fungi, bacteria, oomycetes, archaea that can be either pathogenic or beneficial for plant health fitness. To grow healthy, plants need to surveil soil niches roots detection microbes, in parallel maximize services nutrients uptake growth promotion. employ palette mechanisms modulate including structural modifications, exudation secondary metabolites coordinated action different defence responses. Here, we review current understanding on composition activity root how molecules shape structure root-associated microbial communities. Examples are given interactions occur rhizosphere between soilborne fungi. We also present some well-established examples harnessing highlight fitness by selecting Understanding manipulate aid design next-generation inoculants targeted disease suppression enhanced growth.

Язык: Английский

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Linking Plant Secondary Metabolites and Plant Microbiomes: A Review

Frontiers in Plant Science, Год журнала: 2021, Номер 12

Опубликована: Март 2, 2021

Plant secondary metabolites (PSMs) play many roles including defense against pathogens, pests, and herbivores; response to environmental stresses, mediating organismal interactions. Similarly, plant microbiomes participate in of the above-mentioned processes directly or indirectly by regulating metabolism. Studies have shown that plants can influence their microbiome secreting various and, turn, may also impact metabolome host plant. However, not much is known about communications between interacting partners phenotypic changes. In this article, we review patterns potential underlying mechanisms interactions PSMs microbiomes. We describe recent developments analytical approaches methods field. The applications these new increased our understanding relationships Though current studies primarily focused on model organisms, results obtained so far should help future agriculturally important facilitate development manipulate PSMs–microbiome with predictive outcomes for sustainable crop productions.

Язык: Английский

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