Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria

Proceedings of the National Academy of Sciences, Год журнала: 2018, Номер 115(18)

Опубликована: Апрель 16, 2018

Significance Drought remains a critical obstacle to meeting the food demands of coming century. Understanding interplay between drought stress, plant development, and microbiome is central this challenge. Here, we demonstrate that causes enrichment distinct set microbes in roots, composed almost entirely monoderms, which lack outer membranes have thick cell walls. We under drought, roots increase production many metabolites, monoderms inhabiting drought-treated rhizosphere exhibit increased activity transporters connected with some these same compounds. The discovery drought-induced associated shifts metabolite exchange microbe reveal potential blueprint for manipulating microbiomes improved crop fitness.

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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Large-scale replicated field study of maize rhizosphere identifies heritable microbes

Proceedings of the National Academy of Sciences, Год журнала: 2018, Номер 115(28), С. 7368 - 7373

Опубликована: Июнь 25, 2018

Significance In this very large-scale longitudinal field study of the maize rhizosphere microbiome, we identify heritable taxa. These taxa display variance in their relative abundances that can be partially explained by genetic differences between lines, above and beyond strong influences field, plant age, weather on diversity microbiome. If these are associated with beneficial traits, they may serve as phenotypes future breeding endeavors.

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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Mechanisms to Mitigate the Trade-Off between Growth and Defense

The Plant Cell, Год журнала: 2017, Номер 29(4), С. 666 - 680

Опубликована: Март 20, 2017

Plants have evolved an array of defenses against pathogens. However, mounting a defense response frequently comes with the cost reduction in growth and reproduction, carrying critical implications for natural agricultural populations. This review focuses on how costs are generated whether they can be mitigated. Most well-characterized growth-defense trade-offs stem from antagonistic crosstalk among hormones rather than identified metabolic expenditure. A primary way plants mitigate such is through restricted expression resistance; this achieved inducible genes or by concentration to particular times tissues. Defense pathways primed more effective induction, states transmitted offspring. We examine resistance (

Язык: Английский

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Interplay Between Innate Immunity and the Plant Microbiota

Annual Review of Phytopathology, Год журнала: 2017, Номер 55(1), С. 565 - 589

Опубликована: Июнь 24, 2017

The innate immune system of plants recognizes microbial pathogens and terminates their growth. However, recent findings suggest that at least one layer this is also engaged in cooperative plant-microbe interactions influences host colonization by beneficial communities. This involves sensing microbe-associated molecular patterns (MAMPs) pattern recognition receptors (PRRs) initiate quantitative responses to control host-microbial load, whereas diversification MAMPs PRRs emerges as a mechanism locally sculpts assemblages plant populations. suggests more complex management role the for controlled accommodation microbes pathogen elimination. finding similar strategies are deployed symbionts dampen consistent with hypothesis but implies different selective pressures on due contrasting outcomes fitness. reciprocal interplay between microbiota likely plays critical shaping plant-microbiota combinations maintaining homeostasis.

Язык: Английский

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Structural variability and niche differentiation in the rhizosphere and endosphere bacterial microbiome of field-grown poplar trees

Microbiome, Год журнала: 2017, Номер 5(1)

Опубликована: Фев. 23, 2017

The plant microbiome represents one of the key determinants health and productivity by providing a plethora functional capacities such as access to low-abundance nutrients, suppression phytopathogens, resistance biotic and/or abiotic stressors. However, robust understanding structural composition bacterial present in different microenvironments especially relationship between below-ground above-ground communities has remained elusive. In this work, we addressed hypotheses regarding niche differentiation stability within ecological niches. We sampled rhizosphere soil, root, stem, leaf endosphere field-grown poplar trees (Populus tremula × Populus alba) applied 16S rRNA amplicon pyrosequencing unravel associated with habitats. found that variability microbiomes (P. P. is much lower than microbiomes. Furthermore, our data not only confirm reports at soil–root interface but also clearly show additional fine-tuning adaptation stem compartment. Each compartment an unique for communities. Finally, identified core niches Populus. Understanding complex host–microbe interactions could provide basis exploitation eukaryote–prokaryote associations phytoremediation applications, sustainable crop production (bio-energy efficiency), secondary metabolites.

Язык: Английский

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A plant genetic network for preventing dysbiosis in the phyllosphere

Nature, Год журнала: 2020, Номер 580(7805), С. 653 - 657

Опубликована: Апрель 8, 2020

Язык: Английский

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Drought Stress Results in a Compartment-Specific Restructuring of the Rice Root-Associated Microbiomes

mBio, Год журнала: 2017, Номер 8(4)

Опубликована: Июль 19, 2017

ABSTRACT Plant roots support complex microbial communities that can influence plant growth, nutrition, and health. While extensive characterizations of the composition spatial compartmentalization these have been performed in different species, there is relatively little known about impact abiotic stresses on root microbiota. Here, we used rice as a model to explore responses microbiomes drought stress. Using four distinct genotypes, grown soils from three fields, tracked drought-induced changes rhizosphere (the soil immediately surrounding root), endosphere interior), unplanted soils. Drought significantly altered overall bacterial fungal compositions all communities, with compartments showing greatest divergence well-watered controls. The response microbiota stress was taxonomically consistent across cultivars primarily driven by an enrichment multiple Actinobacteria Chloroflexi , well depletion several Acidobacteria Deltaproteobacteria . some overlap observed drought-responsive taxa were compartment specific, pattern likely arising preexisting compositional differences, plant-mediated processes affecting individual compartments. These results reveal stress, addition its well-characterized effects physiology, also restructuring suggest possibility constituents might contribute survival under extreme environmental conditions. IMPORTANCE With likelihood global climate will adversely affect crop yields, potential role enhancing performance makes it important elucidate variation. By detailed characterization effect root-associated rice, show undergo major involve shifts relative abundances diverse set bacteria drought. microbes, particular those enriched water deficit conditions, could potentially benefit they tolerance other stresses, provide protection opportunistic infection pathogenic microbes. identification future isolation microbes promote be mitigate losses adverse climate.

Язык: Английский

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Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice

PLoS Biology, Год журнала: 2018, Номер 16(2), С. e2003862 - e2003862

Опубликована: Фев. 23, 2018

Bacterial communities associated with roots impact the health and nutrition of host plant. The dynamics these microbial assemblies over plant life cycle are, however, not well understood. Here, we use dense temporal sampling 1,510 samples from root spatial compartments to characterize bacterial archaeal components root-associated microbiota field grown rice (Oryza sativa) course 3 consecutive growing seasons, as 2 sites in diverse geographic regions. was found be highly dynamic during vegetative phase growth then stabilized compositionally for remainder cycle. taxa conserved between were defined predictive features age by modeling using a random forest approach. age-prediction models revealed that drought-stressed plants have developmentally immature compared unstressed plants. Further, genotypes varying developmental rates, show shifts microbiome are correlated rates transitions rather than alone, such different compositions reflect juvenile adult stages. These results suggest model successional

Язык: Английский

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