Rhizospheric Plant–Microbe Interactions: miRNAs as a Key Mediator

Middleton, Harriet; Yergeau, Étienne; Monard, Cécile; Combier, Jean-Philippe; Amrani, Abdelhak El

doi:10.1016/j.tplants.2020.09.005

Cited by 56 publications

(38 citation statements)

References 73 publications

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“…1B). Lastly, blocking the expression of phytopathogens virulence factors using RNA has been proven efficient for plants (Middleton et al ., 2020). Plants can use small (interference) RNA molecules to block the translation of virulence factors using EVs (Middleton et al ., 2020).…”

Section: Green Agriculture Strategies Based On T6ss and Membrane Vesiclesmentioning

confidence: 99%

“…Lastly, blocking the expression of phytopathogens virulence factors using RNA has been proven efficient for plants (Middleton et al ., 2020). Plants can use small (interference) RNA molecules to block the translation of virulence factors using EVs (Middleton et al ., 2020). This EV‐based strategy could be adopted by biotechnologically improved BCAs to efficiently deliver silencing miRNAs into phytopathogen (Fig.…”

Section: Green Agriculture Strategies Based On T6ss and Membrane Vesiclesmentioning

confidence: 99%

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Plant holobiont interactions mediated by the type VI secretion system and the membrane vesicles: promising tools for a greener agriculture

Acuña

Bernal

2021

Environmental Microbiology

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A deeper understanding of the complex relationship between plants and their microbiota is allowing researchers to appreciate a plethora of possibilities to improve crops using chemical-free alternatives based on beneficial microorganisms. An increase in crop yield from the promotion of plant growth or even simultaneous protection of the plants from the attack of phytopathogens can be achieved in the presence of different plant-associated microorganisms known as plant-growthpromoting rhizobacteria (PGPR) and biocontrol agents (BCAs), respectively. Thus, the study of the great diversity of plant-microbe and microbe-microbe interactions is an attention-grabbing topic covering studies of interactions since the plant seed and through all developmental stages, from root to shoot. The intricate communication systems that plant holobionts co-evolved has resulted in many different strategies and interplays between these organisms shaping the bacterial communities and the plant fitness simultaneously. Herein, we emphasize two understudied delivery systems existing in plant-associated bacteria: the type VI secretion system (T6SS) and the membrane vesicles with a huge potential to boost a highly demanded and necessary green agriculture.

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Section: Green Agriculture Strategies Based On T6ss and Membrane Vesiclesmentioning

confidence: 99%

Section: Green Agriculture Strategies Based On T6ss and Membrane Vesiclesmentioning

confidence: 99%

Plant holobiont interactions mediated by the type VI secretion system and the membrane vesicles: promising tools for a greener agriculture

Acuña

Bernal

2021

Environmental Microbiology

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“…In plants with shallow roots, the rhizosphere communities are specific to individual species or even cultivars (Berendsen, Pieterse and Bakker 2012; Bulgarelli et al 2013). This specificity might depend on differences in exudate compositions (Sasse, Martinoia and Northen 2018), although this has been argued to be too simple (Middleton et al 2021). Furthermore, vertical transmission from the seeds have been suggested to be involved in shaping the microbiome of seedlings, even though the main effect is expected at the phyllosphere (Shade, Jacques and Barret 2017).…”

Section: Introductionmentioning

confidence: 99%

Deep-rooted plant species recruit distinct bacterial communities in 3 m deep subsoil

Lyhne-Kjærbye

Tardif

et al. 2021

Preprint

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Deep-rooted plants can obtain water and nutrients from the subsurface, making them more resilient to climatic changes such as drought. In addition, the deeper root network also allow the plants to recruit bacteria from a larger reservoir in the soil. These bacteria might contribute to nutrient acquisition and provide other plant beneficial traits to the plant. However, the deep rhizosphere communities' compositions and their assembly dynamics are unknown. Here, we show, using three perennial crops, Kernza, lucerne and rosinweed, grown in 4 m RootTowers, that deep rhizosphere bacterial communities are plant specific, but clearly distinct from the shallow communities. We found that the diversity decreased with depth in the rhizosphere, whereas abundance of 16S rRNA gene copies did not change with depth in lucerne and rosinweed. Furthermore, we identified a subgroup (4-8%) of ASVs in the rhizosphere communities that could not be retrieved in the corresponding bulk soil communities. The abundances of genes determined by qPCR involved in N-cycling: amoA, nifH, nirK, nirS and nosZ differed significantly between plant species, suggesting differences in N content in the root exudates of the plant species. Our results suggest that colonization of the rhizosphere by bulk soil bacteria is not limited by carbon supply, but rather by dispersal. Furthermore, the abundance of N cycling genes indicate that deep rhizosphere bacteria have the potential to provide N through nitrogen fixation.

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“…The composition of root exudates provided to the microbiome in the rhizosphere is determined by plant species (Badri and Vivanco, 2009 ; Eisenhauer et al, 2016 ) and can differ among genotypes of the same plant species (Micallef et al, 2009 ). The plant and its closely associated microbiota communicate through different channels and together modulate the structure of the microbiome in the rhizosphere (Venturi and Keel, 2016 ; Sasse et al, 2018 ; Middleton et al, 2021 ).…”

Section: Introductionmentioning

confidence: 99%

Responsiveness of Elite Cultivars vs. Ancestral Genotypes of Barley to Beneficial Rhizosphere Microbiome, Supporting Plant Defense Against Root-Lesion Nematodes

et al. 2021

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Harnessing plant-microbe interactions to advance crop resistance to pathogens could be a keystone in sustainable agriculture. The breeding of crops to maximize yield in intensive agriculture might have led to the loss of traits that are necessary for beneficial plant-soil feedback. In this study, we tested whether the soil microbiome can induce a stronger plant defense against root-lesion nematodes in ancestral genotypes of barley than in elite cultivars. Plants were grown in a sterile substrate with or without the inoculation of rhizosphere microbiomes, and Pratylenchus neglectus was inoculated to the roots. Unexpectedly, elite cultivars profited significantly more from the microbiome than ancestral genotypes, by the reduction of nematodes in roots and the increased shoot weight relative to control plants. The elite cultivars had higher microbial densities in the rhizosphere, which were correlated with root weight. The structure of the bacterial and fungal community of elite and ancestral genotypes differed, as compared by 16S rDNA or internal transcribed spacer amplicon profiles in denaturing gradient gel electrophoresis. The elite cultivars differed in responsiveness to the microbiome. For the most responsive cultivars Beysehir and Jolgeh, the strong microbe-induced suppression of nematodes coincided with the strongest microbe-dependent increase in transcripts of salicylic acid-regulated defense genes after nematode invasion, while the jasmonate-regulated genes LOX2 and AOS were downregulated in roots with the inoculated microbiome. The microbe-triggered modulation of defense gene expression differed significantly between elite and ancestral genotypes of barley. Soil microbiomes conditioned by maize roots suppressed the nematodes in elite cultivars, while the corresponding bulk soil microbiome did not. In conclusion, cultivars Beysehir and Jolgeh harbor the genetic background for a positive plant-microbiome feedback. Exploiting these traits in breeding for responsiveness to beneficial soil microbiomes, accompanied by soil biome management for compatible plant-microbe interactions, will support low-input agriculture and sustainability.

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Rhizospheric Plant–Microbe Interactions: miRNAs as a Key Mediator

Cited by 56 publications

References 73 publications

Plant holobiont interactions mediated by the type VI secretion system and the membrane vesicles: promising tools for a greener agriculture

Plant holobiont interactions mediated by the type VI secretion system and the membrane vesicles: promising tools for a greener agriculture

Deep-rooted plant species recruit distinct bacterial communities in 3 m deep subsoil

Responsiveness of Elite Cultivars vs. Ancestral Genotypes of Barley to Beneficial Rhizosphere Microbiome, Supporting Plant Defense Against Root-Lesion Nematodes

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