The Role of the Phyllosphere Microbiome in Plant Health and Function

Stone, Bram WG; Weingarten, Eric A.; Jackson, Colin R.

doi:10.1002/9781119312994.apr0614

Cited by 147 publications

(132 citation statements)

References 166 publications

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“…Biocontrol engineering practices based on artificial inoculation with such endophytic species are not yet largely used with exogenous fungal or bacterial strains during a cropping season, probably because of the complexity of the microbial interactions involved and their alteration by variations in agroenvironmental conditions in field conditions (De Silva et al, 2019). Nevertheless, it is established that endophytic species naturally present in cultivated plants can limit the development of pathogens during the cropping season (Stone et al, 2018). It is therefore likely that their action would continue on the residues during the intercropping season.…”

Section: Microbial Communities Of Residues Are Inherited From the Plantmentioning

confidence: 99%

Microbiomes and Pathogen Survival in Crop Residues, an Ecotone Between Plant and Soil

Kerdraon

Laval

Suffert

2019

Phytobiomes Journal

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The negative contribution of crop residues as a source of inoculum for plant diseases is well established. However, microbial ecologists have long reported positive effects of residues on the stability of agrosystems and conservation tillage practices have become increasingly widespread. Most studies have suggested that large microbial communities should be taken into account in plant disease management, but we know little about their ecological interaction with pathogens in the crop residue compartment. This review focuses on microbiomes associated with residues within the context of other microbial habitats in cereal-producing agroecosystems such as phyllosphere or rhizosphere. We connect residue microbiome with the survival of residue-borne fungal plant pathogens, thus combining knowledge in microbial ecology and epidemiology, two disciplines still not sufficiently connected. We provide an overview of the impact of residues on cereal disease epidemics and how dynamic interactions between microbial communities of non-buried residues during their degradation, along with soil and multitude of abiotic factors, can contribute to innovative disease management strategies, including next-generation microbiome-based biocontrol strategies. Starting from the classical but still relevant view of crop residues as a source of pathogen inoculum, we first consider possibilities for limiting the amount of residues on the soil surface to reduce the pathogen pressure. We then describe residues as a transient half-plant/half-soil compartment constituting a key fully fledged microbial ecosystem: in other words, an ecotone which deserves special attention. We focus on microbial communities, the changes in these communities over time and the factors influencing them. Finally, we discuss how the interactions between the microbial communities and the pathogens present on residues could be used: identification of keystone taxa and beneficial assemblages, then preservation of these taxa by adapted agronomic practices or development of synthetic communities, rather than the introduction of a single exogenous biocontrol species designed as a "treatment product".

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Section: Microbial Communities Of Residues Are Inherited From the Plantmentioning

confidence: 99%

Microbiomes and Pathogen Survival in Crop Residues, an Ecotone Between Plant and Soil

Kerdraon

Laval

Suffert

2019

Phytobiomes Journal

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“…Large swaths of eukaryotic lineages possess associated microbiomes that play central roles in maintaining host survival and ecological success (1). Several biotic and abiotic factors have been shown to drive microbiome assembly and modulation in special compartments and organelles of multicellular eukaryotes such as squid light organs (2), coral skeletons (3), mammalian guts (4), and roots and leaves of terrestrial plants (5). Contrarily, unicellular eukaryotes such as diatoms lack developmental features that can harbor microbes, yet rely heavily on essential bacterial growth factors (6–8) to proliferate and thrive in their environment.…”

Section: Introductionmentioning

confidence: 99%

Diatom Modulation of Microbial Consortia Through Use of Two Unique Secondary Metabolites

Shibl

Isaac²,

Ochsenkühn

et al. 2020

Preprint

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22 23 † Current affiliation: Biology Department, Woods Hole Oceanographic Institution, Woods Hole, MA, 24 USA 25 26 27 Keywords 28 phycospheres | microbiomes | signaling | diatom | phytoplankton-bacteria interactions | 29 secondary metabolites 30 Abstract 31 32Unicellular eukaryotic phytoplankton, such as diatoms, rely on microbial communities for survival 33 despite lacking specialized compartments to house microbiomes (e.g., animal gut). Microbial 34 communities have been widely shown to benefit from diatom excretions that accumulate within the 35 microenvironment surrounding phytoplankton cells, known as the phycosphere. However, 36 mechanisms that enable diatoms and other unicellular eukaryotes to nurture specific microbiomes 37 by fostering beneficial bacteria and repelling harmful ones are mostly unknown. We hypothesized 38 that diatom exudates may attune microbial communities and employed an integrated multi-omics 39 approach using the ubiquitous diatom Asterionellopsis glacialis to reveal how it modulates its 40 naturally associated bacteria. We show that A. glacialis reprograms its transcriptional and metabolic 41 profiles in response to bacteria to secrete a suite of central metabolites and two unusual secondary 42 metabolites, rosmarinic acid and azelaic acid. While central metabolites are utilized by potential 43 bacterial symbionts and opportunists alike, rosmarinic acid promotes attachment of beneficial 44 bacteria to the diatom and simultaneously suppresses the attachment of opportunists. Similarly, 45 azelaic acid enhances growth of beneficial bacteria, while simultaneously inhibiting growth of 46 opportunistic ones. We further show that the bacterial response to azelaic acid is widespread in the 47 world's oceans and taxonomically restricted to a handful of bacterial genera. Our results 48 demonstrate the innate ability of an important unicellular eukaryotic group to modulate their 49 microbial consortia, similar to higher eukaryotes, using unique secondary metabolites that regulate 50 bacterial growth and behavior inversely in different bacterial populations. 52 53Large swaths of eukaryotic lineages possess associated microbiomes that play central roles in 54 maintaining host survival and ecological success (1). Several biotic and abiotic factors have been 55 shown to drive microbiome assembly and modulation in special compartments and organelles of 56 multicellular eukaryotes such as squid light organs (2), coral skeletons (3), mammalian guts (4), 57and roots and leaves of terrestrial plants (5). Contrarily, unicellular eukaryotes such as diatoms lack 58 developmental features that can harbor microbes, yet rely heavily on essential bacterial growth 59 factors (6-8) to proliferate and thrive in their environment. Diatoms are ubiquitous primary producers 60 in aquatic environments that excrete up to 50% of their fixed carbon (9-11) into a diffusive boundary 61 layer that surrounds individual cells. This physically sheltered microscale region, known as the 62 phycosphere, is highly enriched in dis...

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“…Previous studies have focused on the interactions between agricultural plants and microorganisms in the soil or rhizosphere. More and more studies have proved that phyllosphere microorganisms also play important roles in plant growth (Batool et al, 2016;Stone et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

“…A vast number of microorganisms colonize the leaf surface of terrestrial plants and occur in areas, such as stomatal opening, that foster closer interactions with the host plant (Lin et al, 2019). Some phyllosphere microorganisms can produce abscisic acid (ABA) and control stomatal movement (Stone et al, 2018). Stomata are the pores on the leaf surface formed by pairs of epidermal guard cells, which are important portals for controlling gas and water exchange in plants (Melotto et al, 2006;Franks et al, 2015;Franks and Farquhar, 2015).…”

Section: Introductionmentioning

confidence: 99%

Influences of Saccharomyces cerevisiae on gas exchange and water-use efficiency in Vicia faba L.

et al. 2020

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To examine the hypothesis that microbes can function as antitranspirants regulating stomatal behavior, we studied the effect of Saccharomyces cerevisiae strain BY4741 on gas exchange and water-use efficiency (WUE) in Vicia faba L. Stomatal aperture and photosynthetic parameters were analyzed every day for 7 days after treatment. In the present study, spraying yeast decreased the stomatal aperture. On the 4th, 5th, 6th, and 7th days after the foliar application of yeast, a decreased in net photosynthetic rate (Pn) was observed. This decrease was accompanied with decreases in stomatal conductance (gs), intercellular CO2 concentration (Ci), and transpiration (Tr). The carboxylation efficiency (CE) was reduced by yeast on the 1st day after treatment. On the 1st, 2nd, and 3rd days of treatment, the yeast dramatically decreased the maximum photochemical efficiency of photosystem (PS) II (Fv/Fm) and increased non-photochemical quenching (NPQ); however, these parameters eventually recovered to their normal levels. The marked decrease of qP was observed on the 1st and 2nd days after yeast treatment. At the beginning of the treatment, the yeast decreased electron the transport rate (ETR), but later increased it. Both concentrations of yeast (1×106 and 1×1010 CFU mL−1) increased the WUE on the 4th, 5th, 6th, and 7th days of treatments. At the concentrations of 1×106 CFU mL−1, yeast acted as a more effective antitranspirant, showing higher WUE, than at the concentration of 1 × 1010 CFU mL−1. Pn was positively correlated with Tr and gs on the 7th day of the treatment. Moreover, Tr was much more sensitive to yeast than was Pn. In general, the foliar application of yeast resulted in decreased Tr and increased WUE. The yeast-induced decrease in photosynthesis is mainly caused by stomatal closure, suggesting that yeast can be used as an antitranspirant or a priming agent for improving drought tolerance in plants.

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The Role of the Phyllosphere Microbiome in Plant Health and Function

Cited by 147 publications

References 166 publications

Microbiomes and Pathogen Survival in Crop Residues, an Ecotone Between Plant and Soil

Microbiomes and Pathogen Survival in Crop Residues, an Ecotone Between Plant and Soil

Diatom Modulation of Microbial Consortia Through Use of Two Unique Secondary Metabolites

Influences of Saccharomyces cerevisiae on gas exchange and water-use efficiency in Vicia faba L.

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