Competition assays and physiological experiments of soil and phyllosphere yeasts identify Candida subhashii as a novel antagonist of filamentous fungi DOI Creative Commons

Maja Hilber-Bodmer,

Michael Schmid, Christian H. Ahrens

et al.

BMC Microbiology, Journal Year: 2017, Volume and Issue: 17(1)

Published: Jan. 5, 2017

While recent advances in next generation sequencing technologies have enabled researchers to readily identify countless microbial species soil, rhizosphere, and phyllosphere microbiomes, the biological functions of majority these are unknown. Functional studies therefore urgently needed order characterize plethora microorganisms that being identified point out may be used for biotechnology or plant protection. Here, we a dual culture assay growth analyses characterise yeasts (40 different isolates) their antagonistic effect on 16 filamentous fungi; comprising pathogens, antagonists, saprophytes. Overall, this competition screen 640 pairwise combinations revealed broad range outcomes, ranging from small stimulatory effects some up inhibition more than 80% by individual species. On average, isolated soil suppressed fungi strongly activity was species-/isolate-specific property not dependent fungus yeast interacting with. The isolates with strongest were Metschnikowia pulcherrima, Hanseniaspora sp., Cyberlindnera sargentensis, Aureobasidium pullulans, Candida subhashii, Pichia kluyveri. Among these, (C. A. C. subhashii) assimilated and/or oxidized di-, tri- tetrasaccharides organic acids phyllosphere. Only two subhashii M. pulcherrima able grow N-acetyl-glucosamine as carbon source. assays physiological experiments described here known antagonists been implicated control pathogenic past, but also little characterised such subhashii. metabolically versatile Noteworthy strong which had so far only clinical sample studied respect biocontrol. Based binary (e.g., sources, root exudates), competitive potential novel biocontrol agent against fungi.

Language: Английский

Plant Growth-Promoting Rhizobacteria: Context, Mechanisms of Action, and Roadmap to Commercialization of Biostimulants for Sustainable Agriculture DOI Creative Commons
Rachel Backer, J. Stefan Rokem,

Gayathri Ilangumaran

et al.

Frontiers in Plant Science, Journal Year: 2018, Volume and Issue: 9

Published: Oct. 23, 2018

Microbes of the phytomicrobiome are associated with every plant tissue and, in combination form holobiont. Plants regulate composition and activity their bacterial community carefully. These microbes provide a wide range services benefits to plant; return, provides microbial reduced carbon other metabolites. Soils generally moist environment, rich which supports extensive soil communities. The rhizomicrobiome is great importance agriculture owing diversity root exudates cell debris that attract diverse unique patterns colonization. play key roles nutrient acquisition assimilation, improved texture, secreting modulating extracellular molecules such as hormones, secondary metabolites, antibiotics various signal compounds, all leading enhancement growth. compounds they secrete constitute valuable biostimulants pivotal stress responses. Research has demonstrated inoculating plants plant-growth promoting rhizobacteria (PGPR) or treating microbe-to-plant can be an effective strategy stimulate crop Furthermore, these strategies improve tolerance for abiotic stresses (egs. drought, heat, salinity) likely become more frequent climate change conditions continue develop. This discovery resulted multifunctional PGPR-based formulations commercial agriculture, minimize use synthetic fertilizers agrochemicals. review update about role PGPR from collection commercialization low-cost agricultural inputs. First, we introduce concept context underlying food security 21st century. Next, mechanisms growth promotion by discussed, including exchange between roots how relationships modulate responses via induced systemic resistance. On application side, discussed rhizosphere colonization inoculants. final sections paper describe applications century roadmap technology.

Language: Английский

Citations

1535

Drought Stress and Root-Associated Bacterial Communities DOI Creative Commons
Dan Naylor, Devin Coleman‐Derr

Frontiers in Plant Science, Journal Year: 2018, Volume and Issue: 8

Published: Jan. 9, 2018

Root-associated bacterial communities play a vital role in maintaining health of the plant host. These exist complex relationships, where composition and abundance community members is dependent on number factors such as local soil chemistry, genotype phenotype, perturbations surrounding abiotic environment. One common perturbation, drought, has been shown to have drastic effects communities, yet little understood about underlying causes behind observed shifts microbial abundance. As drought may affect root both directly by modulating moisture availability, well indirectly altering chemistry phenotypes, we provide synthesis trends recent studies discuss possible directions for future research that hope will more knowledgeable predictions responses events.

Language: Английский

Citations

576

Soil microbiota as game-changers in restoration of degraded lands DOI
Oksana Coban, Gerlinde B. De Deyn, Martine van der Ploeg

et al.

Science, Journal Year: 2022, Volume and Issue: 375(6584)

Published: March 3, 2022

Land degradation reduces soil functioning and, consequently, the services that provides. Soil hydrological functions are critical to combat and promote restoration. microorganisms affect hydrology, but role of microbiota in forming sustaining is not well explored. Case studies indicate potential as game-changers restoring functions. We review state art microorganism use land restoration technology, groups with greatest for restoration, knowledge effect on physical properties, proposed strategies long-term degraded lands. also emphasize need advance emerging research field biophysical landscape interactions support soil-plant ecosystem practices.

Language: Английский

Citations

444

Microbially Mediated Plant Salt Tolerance and Microbiome-based Solutions for Saline Agriculture DOI
Yuan Qin, Irina S. Druzhinina, Xueyu Pan

et al.

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

Published: Sept. 9, 2016

Language: Английский

Citations

349

Rhizosphere Engineering With Plant Growth-Promoting Microorganisms for Agriculture and Ecological Sustainability DOI Creative Commons

Sughra Hakim,

Tahir Naqqash, Muhammad Shoib Nawaz

et al.

Frontiers in Sustainable Food Systems, Journal Year: 2021, Volume and Issue: 5

Published: Feb. 15, 2021

The rhizosphere is undoubtedly the most complex microhabitat, comprised of an integrated network plant roots, soil, and a diverse consortium bacteria, fungi, eukaryotes, archaea. conditions have direct impact on crop growth yield. Nutrient-rich environments stimulate yield vice versa. Extensive cultivation exhaust soils which need to be nurtured before or during next crop. Chemical fertilizers are major source nutrients but their uncontrolled widespread usage has posed serious threat sustainability agriculture stability ecosystem. These chemicals accumulated in drained water, emitted air where they persist for decades causing overall Plant growth-promoting rhizobacteria (PGPR) present convert many plant-unavailable essential e.g., nitrogen, phosphorous, zinc, etc. into available forms. PGPR produces certain hormones (such as auxin, cytokinin, gibberellin), cell lytic enzymes (chitinase, protease, hydrolases, etc.), secondary metabolites, antibiotics, stress alleviating compounds (e.g., 1-Aminocyclopropane-1- carboxylate deaminase), chelating agents (siderophores), some signaling N-Acyl homoserine lactones) interact with beneficial pathogenic counterparts rhizosphere. multifarious activities improve soil structure, health, fertility, functioning directly indirectly support under normal stressed environments. Rhizosphere engineering these wide-ranging application not only fertilization developing eco-friendly sustainable agriculture. Due severe climate change effects plants biology, there growing interest stress-resilient PGPM subsequent induce (drought, salinity, heat) tolerance mechanism plants. This review describes three components explicit focus broader perspective that could facilitate selected hosts serve efficient component

Language: Английский

Citations

318

Plant growth promoting bacteria in agriculture: Two sides of a coin DOI
Wusirika Ramakrishna, Radheshyam Yadav, Kefeng Li

et al.

Applied Soil Ecology, Journal Year: 2019, Volume and Issue: 138, P. 10 - 18

Published: March 2, 2019

Language: Английский

Citations

267

Rhizosphere microbiome: Engineering bacterial competitiveness for enhancing crop production DOI Creative Commons
Ashwani Kumar, Anamika Dubey

Journal of Advanced Research, Journal Year: 2020, Volume and Issue: 24, P. 337 - 352

Published: April 30, 2020

Plants in nature are constantly exposed to a variety of abiotic and biotic stresses which limits their growth production. Enhancing crop yield production feed exponentially growing global population sustainable manner by reduced chemical fertilization agrochemicals will be big challenge. Recently, the targeted application beneficial plant microbiome cocktails counteract stress is gaining momentum becomes an exciting frontier research. Advances next generation sequencing (NGS) platform, gene editing technologies, metagenomics bioinformatics approaches allows us unravel entangled webs interactions holobionts core microbiomes for efficiently deploying increase crops nutrient acquisition resistance stress. In this review, we focused on shaping rhizosphere susceptible host from resistant comprises specific type microbial community with multiple potential benefits CRISPR/Cas9 based strategies manipulation susceptibility genes plants improving health. This review significant providing first-hand information improve fundamental understanding process helps microbiome.

Language: Английский

Citations

263

The Nodule Microbiome: N2-Fixing Rhizobia Do Not Live Alone DOI Creative Commons
Pilar Martínez‐Hidalgo, Ann M. Hirsch

Phytobiomes Journal, Journal Year: 2017, Volume and Issue: 1(2), P. 70 - 82

Published: Jan. 1, 2017

For decades, rhizobia were thought to be the only nitrogen-fixing inhabitants of legume nodules, and biases in culture techniques prolonged this belief. However, other bacteria, which are not typical rhizobia, often detected within nodules obtained from soil, thus revealing existence a phytomicrobiome where interaction among individuals is complex, but also likely affect behavior fitness host plant. Many these nonrhizobial bacteria nitrogen fixers, some induce on roots. Even more striking incredibly diverse population residing that elicit neither nodulation nor fixation. Yet, community exists nodule, albeit clearly out-numbered by rhizobia. Few studies function nodule-associated have been performed, date, it known whether their presence biologically important or not. Do they confer any benefits Rhizobium-legume symbiosis, parasites/saprophytes, contaminants, commensals? In review, we highlight lesser-known dwell discuss possible role enclosed as well plant rhizobial nodule. Although many nodule capable fixation, potential enhance survival especially under conditions environmental stress. This knowledge will useful defining strategies employ bioinoculants themselves combined with Such an approach performance persistence decrease usage chemical fertilizers pesticides.

Language: Английский

Citations

255

Towards an Enhanced Understanding of Plant–Microbiome Interactions to Improve Phytoremediation: Engineering the Metaorganism DOI Creative Commons
Sofie Thijs, Wouter Sillen, François Rineau

et al.

Frontiers in Microbiology, Journal Year: 2016, Volume and Issue: 7

Published: March 16, 2016

Phytoremediation is a promising technology to clean-up contaminated soils based on the synergistic actions of plants and microorganisms. However, become widely accepted, predictable remediation alternative, deeper understanding plant-microbe interactions needed. A number studies link success phytoremediation plant-associated microbiome functioning, though whether can exist in functional states for soil remediation, incompletely understood. Moreover, current approaches that target plant host, environment separately improve phytoremediation, potentially overlook microbial functions properties are part multiscale complexity plant-environment wherein biodegradation takes place. In contrast, situ research at metaorganism level (host together) lacking. Here, we discuss competition-driven model, recent evidence from metagenomics level, hypotheses generated by community ecology, explain establishment catabolic rhizosphere soil. There ground if host provides right mix resources (exudates) over which microbes compete, then competitive plant-growth promoting (PGP) be selected as long it superiority niche. The model indicates four strategies interfere with microbiome. Specifically, shifted using treatments alter resources, environment, take advantage prioritization inoculation. Our suggestions, considering its natural context, would allow gain further knowledge plant-microbial functions, facilitate translation more effective, phytotechnologies.

Language: Английский

Citations

243

Revisiting Plant–Microbe Interactions and Microbial Consortia Application for Enhancing Sustainable Agriculture: A Review DOI Creative Commons
Kanchan Vishwakarma, Nitin Kumar,

Chitrakshi Shandilya

et al.

Frontiers in Microbiology, Journal Year: 2020, Volume and Issue: 11

Published: Dec. 21, 2020

The present scenario of agricultural sector is dependent hugely on the use chemical-based fertilizers and pesticides that impact nutritional quality, health status, productivity crops. Moreover, continuous release these chemical inputs causes toxic compounds such as metals to accumulate in soil move plants with prolonged exposure, which ultimately human health. Hence, it becomes necessary bring out alternatives pesticides/fertilizers for improvement outputs. rhizosphere plant an important niche abundant microorganisms residing it. They possess properties growth promotion, disease suppression, removal compounds, assimilating nutrients plants. Utilizing beneficial microbes crop presents efficient way modulate yield by maintaining healthy status quality through bioformulations. To understand microbial formulation compositions, essential processes going well their concrete identification better utilization diversity growth–promoting bacteria arbuscular mycorrhizal fungi. this background, review article highlights microbiome aboveground belowground, importance inoculants various species, subsequent interactive mechanisms sustainable agriculture.

Language: Английский

Citations

214