From the Lab to the Farm: An Industrial Perspective of Plant Beneficial Microorganisms

Frontiers in Plant Science, Год журнала: 2016, Номер 7

Опубликована: Авг. 4, 2016

Any successful strategy aimed at enhancing crop productivity with microbial products ultimately relies on the ability to scale regional global levels. Microorganisms that show promise in lab may lack key characteristics for widespread adoption sustainable and productive agricultural systems. This paper provides an overview of critical considerations involved taking a strain from discovery farmer's field. will review some most effective market today, explore reasons their success outline major challenges industrial production commercialization beneficial strains application. General processes associated commercializing viable are discussed two broad categories, biofertility inoculants biocontrol products. Specifically, we address what farmers desire potential products, how mode action informs decisions product applications, variation laboratory field study data, scaling mass production, importance consistent efficacy, stability quality. In order make significant impact agriculture, implementation plant microorganisms require more seamless transition between farm Early attention presented here improve likelihood developing yields, decrease disease severity, help feed increasingly hungry planet.

Язык: Английский

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Field study reveals core plant microbiota and relative importance of their drivers

Environmental Microbiology, Год журнала: 2017, Номер 20(1), С. 124 - 140

Опубликована: Дек. 21, 2017

Harnessing plant microbiota can assist in sustainably increasing primary productivity to meet growing global demands for food and biofuel. However, development of rational microbiome-based approaches improving crop yield is currently hindered by a lack understanding the major biotic abiotic factors shaping microbiome under relevant field conditions. We examined bacterial fungal communities associated with both aerial (leaves, stalks) belowground (roots, soil) compartments four commercial sugarcane varieties (Saccharum spp.) grown several regions Australia. identified drivers conditions evaluated whether plants shared core microbiome. Sugarcane-associated microbial assemblages were primarily determined compartment, followed region, age, variety Yellow Canopy Syndrome (YCS). detected set members that influenced YCS incidence. Our study revealed key hub microorganisms networks leaves, stalks, roots rhizosphere soil despite location time-associated shifts community assemblages. Elucidating their functional roles identification keystone sustain health could provide technological breakthrough sustainable increase productivity.

Язык: Английский

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Microbiome Networks: A Systems Framework for Identifying Candidate Microbial Assemblages for Disease Management

Phytopathology, Год журнала: 2016, Номер 106(10), С. 1083 - 1096

Опубликована: Авг. 2, 2016

Network models of soil and plant microbiomes provide new opportunities for enhancing disease management, but also challenges interpretation. We present a framework interpreting microbiome networks, illustrating how observed network structures can be used to generate testable hypotheses about candidate microbes affecting health. The includes four types analyses. “General analysis” identifies taxa maintaining an existing microbial community. “Host-focused node representing response such as yield, identifying with direct or indirect associations that node. “Pathogen-focused known priori pathogens. “Disease-focused associated disease. Positive desirable outcomes, negative undesirable indicate taxa. analysis provides characterization not only important outcomes suppression, biofertilization, expression host resistance, via their association other key illustrate the interpretation structure analyses in oak phyllosphere, wheat rhizosphere bulk presence absence infection by Rhizoctonia solani.

Язык: Английский

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Evidence for the plant recruitment of beneficial microbes to suppress soil‐borne pathogens

New Phytologist, Год журнала: 2020, Номер 229(5), С. 2873 - 2885

Опубликована: Ноя. 1, 2020

Summary An emerging experimental framework suggests that plants under biotic stress may actively seek help from soil microbes, but empirical evidence underlying such a ‘cry for help’ strategy is limited. We used integrated microbial community profiling, pathogen and plant transcriptive gene quantification culture‐based methods to systematically investigate three‐way interaction between the wheat plant, wheat‐associated microbiomes Fusarium pseudograminearum ( Fp ). A clear enrichment of dominant bacterium, Stenotrophomonas rhizophila (SR80), was observed in both rhizosphere root endosphere Fp‐ infected wheat. SR80 reached 3.7 × 10 7 cells g −1 accounted up 11.4% microbes endosphere. Its abundance had positive linear correlation with load at base stems expression multiple defence genes top leaves. Upon re‐introduction soils, enhanced growth, below‐ground above‐ground, induced strong disease resistance by boosting above‐ground parts, only when present. Together, bacterium seems have acted as an early warning system defence. This work provides novel potential protection against pathogens enriched beneficial microbe via modulation immune system.

Язык: Английский

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Competitive interaction with keystone taxa induced negative priming under biochar amendments

Microbiome, Год журнала: 2019, Номер 7(1)

Опубликована: Май 20, 2019

Biochar amendments have been widely proposed as a conventional and efficient strategy to promote soil organic carbon (SOC) sequestration via negative priming. Unfortunately, the extent biological mechanisms responsible for biochar-induced priming are still not fully understood. Despite traditional explanations focused on environmental filtering of biochar microbial biomass community composition underlying effect SOC dynamics, whether how competitive interaction with keystone taxa determines mineralization in natural ecosystems has minimally explored.Here, we paid particular attention relationships between diversity network structure bacterial fungal communities mineralization. A 3-year field experiment was conducted comprising five treatments: no fertilization, fertilization three rates amendments. considerably increased moisture capacity pH subsequently shaped co-occurrence networks communities. Importantly, analysis revealed that triggered putative networks. Structural equation modeling suggested promoted consequently reduced carbohydrate catabolism metabolic quotient. Stable isotope probing incubations further provided consistent evidence competition by increases under amendments.We found stimulated decreased The comprehensive understanding unexplored may provide crucial implications enabling sequestration.

Язык: Английский

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Use of endophytes as biocontrol agents

Fungal Biology Reviews, Год журнала: 2019, Номер 33(2), С. 133 - 148

Опубликована: Янв. 19, 2019

Язык: Английский

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Plant developmental stage drives the differentiation in ecological role of the maize microbiome

Microbiome, Год журнала: 2021, Номер 9(1)

Опубликована: Авг. 13, 2021

Abstract Background Plants live with diverse microbial communities which profoundly affect multiple facets of host performance, but if and how development impacts the assembly, functions interactions crop microbiomes are poorly understood. Here we examined both bacterial fungal across soils, epiphytic endophytic niches leaf root, plastic fake plant (representing environment-originating microbes) at three developmental stages maize two contrasting sites, further explored potential function phylloplane based on metagenomics. Results Our results suggested that stage had a much stronger influence diversity, composition interkingdom networks in compartments than strongest effect phylloplane. Phylloplane were co-shaped by growth seasonal environmental factors, air (represented plants) as its important source. Further, found more strongly driven deterministic processes early similar pattern was for late stage. Moreover, taxa played role network yield prediction stage, while did so Metagenomic analyses indicated possessed higher functional diversity genes related to nutrient provision enriched N assimilation C degradation Coincidently, abundant beneficial like Actinobacteria, Burkholderiaceae Rhizobiaceae observed saprophytic fungi Conclusions suggest influences microbiome assembly functions, take differentiated ecological different development. This study provides empirical evidence exerting strong selection during These findings have implications future tools manipulate sustainable increase primary productivity.

Язык: Английский

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Grapevine rootstocks shape underground bacterial microbiome and networking but not potential functionality

Microbiome, Год журнала: 2018, Номер 6(1)

Опубликована: Янв. 3, 2018

The plant compartments of Vitis vinifera, including the rhizosphere, rhizoplane, root endosphere, phyllosphere and carposphere, provide unique niches that drive specific bacterial microbiome associations. majority endophytes originate from soil migrate up to aerial through endosphere. Thus, endosphere partially define in leaves berries, contributing terroir fruit. However, V. vinifera cultivars are invariably grafted onto rootstocks other species hybrids. It has been hypothesized determines and, as a consequence, In this work, we test first part hypothesis. We investigate whether different influence bacteria selected surrounding soil, affecting diversity potential functionality rhizosphere Bacterial microbiomes both tissues Barbera cultivars, ungrafted on four rootstocks, cultivated same vineyard, were characterized by 16S rRNA high-throughput sequencing. To assess genotype communities’ recruitment system, (i) phylogenetic coupled with predicted functional profiles (ii) co-occurrence networks determined. Cultivation-dependent approaches used reveal plant-growth promoting (PGP) associated systems. Richness, community networking significantly influenced rootstocks. Complementary shared microbiome, subsets bacteria, those endowed PGP traits, system interaction between rootstock exerted selective pressure enhanced niche differentiation, but rootstock-specific communities still recruited conserved traits. While influences taxonomy, structure network properties grapevine roots, homeostatic effect distribution traits was found.

Язык: Английский

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Microbial diversity and ecological networks as indicators of environmental quality

Environmental Chemistry Letters, Год журнала: 2017, Номер 15(2), С. 265 - 281

Опубликована: Март 10, 2017

Язык: Английский

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Crop yield gap and stability in organic and conventional farming systems

Agriculture Ecosystems & Environment, Год журнала: 2018, Номер 256, С. 123 - 130

Опубликована: Янв. 30, 2018

A key challenge for sustainable intensification of agriculture is to produce increasing amounts food and feed with minimal biodiversity loss, nutrient leaching, greenhouse gas emissions. Organic farming considered more sustainable, however, less productive than conventional farming. We analysed results from an experiment started under identical soil conditions comparing one organic two systems. Initially, yields in the system were lower, but approached those both systems after 10–13 years, while requiring lower nitrogen inputs. Unexpectedly, resulted coefficient variation, indicating enhanced spatial stability, pH, mineralization, availability, abundance biota. also improved structure higher matter concentrations aggregation, a profound reduction groundwater nitrate concentrations, fewer plant-parasitic nematodes. Temporal stability between three was similar, when excluding years Phytophthora outbreaks potato, temporal system. There are non-mutually exclusive mechanistic explanations these results. First, could result changes resource-based (i.e. bottom-up) processes, which coincides observed provisioning throughout season soils matter. Second, resource inputs may affect via increased predator-based top-down) control. According this explanation, predators stabilize population dynamics organisms, supported by web biomass system.We conclude that closure yield gap can be time greater biotic abiotic properties processes. This likely due required fundamentally alter properties.

Язык: Английский

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