Genomic features of bacterial adaptation to plants

Nature Genetics, Journal Year: 2017, Volume and Issue: 50(1), P. 138 - 150

Published: Dec. 15, 2017

Language: Английский

---

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

Proceedings of the National Academy of Sciences, Journal Year: 2018, Volume and Issue: 115(18)

Published: April 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.

Language: Английский

---

Ecology and Evolution of Plant Microbiomes

Annual Review of Microbiology, Journal Year: 2019, Volume and Issue: 73(1), P. 69 - 88

Published: May 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.

Language: Английский

---

Interplay Between Innate Immunity and the Plant Microbiota

Annual Review of Phytopathology, Journal Year: 2017, Volume and Issue: 55(1), P. 565 - 589

Published: June 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.

Language: Английский

---

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

Microbiome, Journal Year: 2017, Volume and Issue: 5(1)

Published: Feb. 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.

Language: Английский

---

Biostimulant Action of Protein Hydrolysates: Unraveling Their Effects on Plant Physiology and Microbiome

Frontiers in Plant Science, Journal Year: 2017, Volume and Issue: 8

Published: Dec. 22, 2017

Plant-derived protein hydrolysates (PHs) have gained prominence as plant biostimulants because of their potential to increase the germination, productivity and quality a wide range horticultural agronomic crops. Application PHs can also alleviate negative effects abiotic stress due salinity, drought heavy metals. Recent studies aimed at uncovering mechanisms regulating these beneficial indicate that could be directly affecting plants by stimulating carbon nitrogen metabolism, interfering with hormonal activity. Indirect play role enhance nutrient availability in growth substrates, uptake nutrient-use efficiency plants. Moreover, stimulation microbiomes. Plants are colonized an abundant diverse assortment microbial taxa help acquire nutrients water withstand biotic stress. The substrates provided PHs, such amino acids, provide ideal food source for plant-associated microbes. Indeed, recent evidence microbiomes modified application supporting hypothesis might acting, least part, via changes composition activity communities. has great meet twin challenges feeding growing population while minimizing agriculture's impact on human health environment. However, fully realize further required shed light conferring products, well identify product formulations methods optimize benefits under agro-ecological conditions.

Language: Английский

---

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

mBio, Journal Year: 2017, Volume and Issue: 8(4)

Published: July 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.

Language: Английский

---

Let the Core Microbiota Be Functional

Trends in Plant Science, Journal Year: 2017, Volume and Issue: 22(7), P. 583 - 595

Published: May 23, 2017

Language: Английский

---

The Populus holobiont: dissecting the effects of plant niches and genotype on the microbiome

Microbiome, Journal Year: 2018, Volume and Issue: 6(1)

Published: Feb. 12, 2018

Microorganisms serve important functions within numerous eukaryotic host organisms. An understanding of the variation in plant niche-level microbiome, from rhizosphere soils to canopies, is imperative gain a better how both structural and functional processes microbiomes impact health overall holobiome. Using Populus trees as model ecosystem, we characterized archaeal/bacterial fungal microbiome across 30 different tissue-level niches replicated deltoides hybrid trichocarpa × individuals using 16S ITS2 rRNA gene analyses. Our analyses indicate that varied primarily broader habitat classes (leaves, stems, roots, soils) regardless genotype, except for communities leaf niches, which were greatly impacted by genotype. Differences between tree genotypes are evident elevated presence two potential pathogens, Marssonina brunnea Septoria sp., on P. may turn be contributing divergence composition. Archaeal/bacterial diversity increased leaves, stem, root, soil habitats, whereas was greatest stems soils. This study provides holistic structure bioenergy relevant host, one most complete any plant. As such, it constitutes detailed atlas or map further hypothesis testing significance individual microbial taxa specific habitats baseline comparisons other species.

Language: Английский

---

Microbially Mediated Plant Salt Tolerance and Microbiome-based Solutions for Saline Agriculture

Biotechnology Advances, Journal Year: 2016, Volume and Issue: 34(7), P. 1245 - 1259

Published: Sept. 9, 2016

Language: Английский

---