The Plant Microbiome: From Ecology to Reductionism and Beyond

Annual Review of Microbiology, Год журнала: 2020, Номер 74(1), С. 81 - 100

Опубликована: Июнь 12, 2020

Methodological advances over the past two decades have propelled plant microbiome research, allowing field to comprehensively test ideas proposed a century ago and generate many new hypotheses. Studying distribution of microbial taxa genes across habitats has revealed importance various ecological evolutionary forces shaping microbiota. In particular, selection imposed by strongly shapes diversity composition microbiota leads adaptation associated with navigating immune system utilizing plant-derived resources. Reductionist approaches demonstrated that interaction between immunity is, in fact, bidirectional plants, microbiota, environment shape complex chemical dialogue collectively orchestrates plantmicrobiome. The next stage research will require integration reductionist establish general understanding assembly function both natural managed environments.

Язык: Английский

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Hormones as go‐betweens in plant microbiome assembly

The Plant Journal, Год журнала: 2020, Номер 105(2), С. 518 - 541

Опубликована: Дек. 18, 2020

Summary The interaction of plants with complex microbial communities is the result co‐evolution over millions years and contributed to plant transition adaptation land. ability be an essential part highly dynamic ecosystems dependent on their diverse communities. Plant microbiota can support, even enable, functions are crucial in sustaining fitness under often rapidly changing environments. composition diversity differs between soil compartments. It indicates that these compartments not static but adjusted by environment as well inter‐microbial plant–microbe communication. Hormones take a role contributing assembly microbiomes, microbes employ same hormones completely different intentions. Here, function go‐betweens influence shape discussed. versatility microbe‐derived essentially contributes creation habitats origin and, thus, multifunctionality plants, ultimately ecosystems.

Язык: Английский

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How plants recruit their microbiome? New insights into beneficial interactions

Journal of Advanced Research, Год журнала: 2021, Номер 40, С. 45 - 58

Опубликована: Дек. 4, 2021

Research on beneficial mechanisms by plant-associated microbiomes, such as plant growth stimulation and protection from pathogens, has gained considerable attention over the past decades; however, used plants to recruit their microbiome is largely unknown.Here, we review latest studies that have begun reveal strategies in selectively recruiting how they manage exclude potential pathogens. Key Scientific concepts of Review: We examine attract microbiota main areas interaction, rhizosphere, endosphere, phyllosphere, demonstrate process occurs producing root exudates, recognizing molecules produced or distinguishing pathogens using specific receptors, triggering signals support plant-microbiome homeostasis. Second, analyzed environmental biotic factors modulate structure successional dynamics microbial communities. Finally, associated capable engaging with other synergistic microbes, hence providing an additional element selection. Collectively, this study reveals importance understanding complex network interactions, which will improve bioinoculant application agriculture, based a interacts efficiently organs under different conditions.

Язык: Английский

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From Microbiome to Traits: Designing Synthetic Microbial Communities for Improved Crop Resiliency

Frontiers in Plant Science, Год журнала: 2020, Номер 11

Опубликована: Авг. 27, 2020

Plants teem with microorganisms, whose tremendous diversity and role in plant-microbe interactions are being increasingly explored. Microbial communities create a functional bond their hosts express beneficial traits capable of enhancing plant performance. Therefore, significant task microbiome research has been identifying novel microbial that can contribute to crop productivity, particularly under adverse environmental conditions. However, although knowledge exponentially accumulated recent years, few methods regarding the process designing inoculants for agriculture have presented. A recently introduced approach is use synthetic (SynComs), which involves applying concepts from both ecology genetics design inoculants. Here, we discuss how translate this rationale delivering stable effective by tailoring SynComs microorganisms possessing robust colonization, prevalence throughout development specific functions plants. Computational methods, including machine learning artificial intelligence, will leverage approaches screening microbes while improving determining best combination desired phenotype. We focus on advances deepen our critically prospect using resiliency against stressful

Язык: Английский

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Soil origin and plant genotype structure distinct microbiome compartments in the model legume Medicago truncatula

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

Опубликована: Сен. 28, 2020

Abstract Background Understanding the genetic and environmental factors that structure plant microbiomes is necessary for leveraging these interactions to address critical needs in agriculture, conservation, sustainability. Legumes, which form root nodule symbioses with nitrogen-fixing rhizobia, have served as model plants understanding genetics evolution of beneficial plant-microbe decades, thus added value models plant-microbiome interactions. Here we use a common garden experiment 16S rRNA gene amplicon shotgun metagenomic sequencing study drivers microbiome diversity composition three genotypes legume Medicago truncatula grown two native soil communities. Results Bacterial decreased between external (rhizosphere) internal compartments (root endosphere, leaf endosphere). Community was shaped by strong compartment × origin genotype interactions, driven significant effects rhizosphere endosphere. Nevertheless, all were dominated Ensifer , genus rhizobia forms symbiosis M. additional suggests nodulating not genetically distinguishable from those elsewhere plant. We also identify handful OTUs are tissues, likely colonized Conclusions Our results demonstrate host filtering effects, rhizospheres genetics, several key nodule-inhabiting taxa coexist range. set stage future functional experiments aimed at expanding our pairwise legume-rhizobium toward more mechanistic microbiomes.

Язык: Английский

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Vertical Farming: The Only Way Is Up?

Agronomy, Год журнала: 2021, Номер 12(1), С. 2 - 2

Опубликована: Дек. 21, 2021

Vertical farming is on its way to becoming an addition conventional agricultural practices, improving sustainable food production for the growing world population under increasing climate stress. While early development of vertical systems mainly focused technological advancement through design innovation, automation hydroponic cultivation, and advanced LED lighting systems, more recent studies focus resilience circularity farming. These sustainability objectives are addressed by investigating water quality microbial life in a cultivation context. Plant growth-promoting rhizobacteria (PGPR) have been shown improve plant performance biotic abiotic stresses. The application PGPRs plant-growing media increases functional diversity, creating opportunities reducing our dependency chemical fertilizers crop protection products. Here, we give brief historical overview farming, review challenges economic, environmental, social, political context, discuss advances exploiting rhizosphere microbiome systems.

Язык: Английский

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Recent Developments in the Study of Plant Microbiomes

Microorganisms, Год журнала: 2021, Номер 9(7), С. 1533 - 1533

Опубликована: Июль 19, 2021

To date, an understanding of how plant growth-promoting bacteria facilitate growth has been primarily based on studies individual interacting with plants under different conditions. More recently, it become clear that specific soil microorganisms interact one another in consortia the collective being responsible for positive effects growth. Different attract cross-sections and fungi soil, initially composition unique root exudates from each plant. Thus, mostly those are beneficial to exclude potentially pathogenic. Beneficial bacterial not only help promote growth, these also protect a wide range direct indirect environmental stresses. Moreover, is currently possible engineer seeds contain desired strains thereby benefit next generation plants. In this way, may no longer be necessary deliver microbiota growing As we develop better microbiomes, synthetic microbiomes where compatible work together natural

Язык: Английский

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Host-mediated gene engineering and microbiome-based technology optimization for sustainable agriculture and environment

Functional & Integrative Genomics, Год журнала: 2023, Номер 23(1)

Опубликована: Фев. 8, 2023

Язык: Английский

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Communication between plant roots and the soil microbiome; involvement in plant growth and development

Symbiosis, Год журнала: 2023, Номер 90(3), С. 231 - 239

Опубликована: Июль 1, 2023

Abstract Root-associated microbial communities have strong influences on the health and development of plants. Through secretion root exudates, soil microbiome is impacted by plants, thereby steering plant-soil reactions. Considering importance exudates in establishment symbiotic associations rhizosphere, it quite clear that understanding interaction between plant roots may prove beneficial. Here, we review soil. The influence these bioactive molecules structure function microbes also considered. We additionally, deliberate how plants determine they extract nutrients from endophytes for augmentation their growth development. A good perspective communication could lead to increased crop production, limiting need synthetic fertilizers.

Язык: Английский

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Seed-Transmitted Bacteria and Fungi Dominate Juvenile Plant Microbiomes

Frontiers in Microbiology, Год журнала: 2021, Номер 12

Опубликована: Окт. 22, 2021

Plant microbiomes play an important role in agricultural productivity, but there is still much to learn about their provenance, diversity, and organization. In order study the of vertical transmission establishing bacterial fungal populations juvenile plants, we used high-throughput sequencing survey seeds, spermospheres, rhizospheres, roots, shoots monocot crops maize (B73), rice (Nipponbare), switchgrass (Alamo), Brachiaria decumbens, wheat, sugarcane, barley, sorghum; dicot tomato (Heinz 1706), coffee (Geisha), common bean (G19833), cassava, soybean, pea, sunflower; model plants Arabidopsis thaliana (Columbia-0) Brachypodium distachyon (Bd21). Unsterilized seeds were planted either sterile sand or farm soil inside hermetically sealed jars, after as 60 days growth, DNA was extracted allow for amplicon sequence-based profiling that developed. Seeds most dominated by Proteobacteria Ascomycetes, with all containing operational taxonomic units (OTUs) belonging Pantoea Enterobacter. All spermospheres also contained Pseudomonas, Bacillus, Fusarium. Despite having only a source inoculum, grown on jars nevertheless developed endospheres, phyllospheres shared diverse fungi. Compared sand-grown seedlings, growth added new microbial diversity plant, especially rhizospheres; however, 63 seed-transmitted OTUs present, abundant bacteria (Pantoea, Enterobacter, Klebsiella, Massilia) same dominant microbes observed plants. While plant mycobiome come from soil, judging read abundance, fungi (Fusarium Alternaria) vertically transmitted. Seed-transmitted appear make up majority crop based occupancy, seems be pan-angiosperm core microbiome. Further these will understand health, well fate during life cycle may lead innovations inoculant development.

Язык: Английский

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