The Soil-Borne Identity and Microbiome-Assisted Agriculture: Looking Back to the Future

Bakker, Peter A. H. M.; Berendsen, Roeland L.; Pelt, J.A. van; Vismans, Gilles; Yu, Ke; Li, Erqin; Bentum, Sietske van; Poppeliers, Sanne WM; Gil, Juan J. Sanchez; Zhang, Hao; Goossens, Pim; Stringlis, Ioannis A.; Song, Yang; Jonge, Ronnie de; Pieterse, Corné M. J.

doi:10.1016/j.molp.2020.09.017

Cited by 110 publications

(79 citation statements)

References 93 publications

(114 reference statements)

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“…Plants are associated with complex microbial communities assembled into a functional microbiome that safeguards optimal plant performance under harsh environmental conditions (1). The rhizosphere is a particularly interesting hotspot of plant-microbe interactions.…”

Section: Introductionmentioning

confidence: 99%

Experimental evolution-driven identification of Arabidopsis rhizosphere competence genes inPseudomonas protegens

Jiang

Pieterse

et al. 2020

Preprint

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Beneficial plant root-associated microorganisms carry out a range of functions that are essential for plant performance. Establishment of a bacterium on plant roots, however, requires overcoming several challenges, including the ability to outcompete neighboring microorganisms and suppression of plant immunity. Forward and reverse genetics approaches have led to the identification of diverse mechanisms that are used by beneficial microorganisms to overcome these challenges such as the production of iron-chelating compounds, biofilm formation, or downregulation of plant immunity. However, how such mechanisms have developed from an evolutionary perspective is much less understood. In an attempt to study bacterial adaptation in the rhizosphere, we employed an experimental evolution approach to track the physiological and genetic dynamics of root-dwelling Pseudomonas protegens CHA0 in the Arabidopsis thaliana rhizosphere under axenic conditions. This simplified binary one plant, and one bacterium system allows for the amplification of key adaptive mechanisms for bacterial rhizosphere colonization. We found that mutations in global regulators, as well as in genes for siderophore production, cell surface decoration, attachment, and motility accumulated in parallel in our evolutionary experiment, underlining several different strategies of bacterial adaptation to the rhizosphere. In total we identified 35 mutations, including single-nucleotide polymorphisms, smaller indels and larger deletions, distributed over 28 genes in total. Altogether these results underscore the strength of experimental evolution to identify key genes and pathways for bacterial rhizosphere colonization, as well as highlighting a methodology for the development of elite beneficial microorganisms with enhanced root-colonizing capacities that can support sustainable agriculture in the future.

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Section: Introductionmentioning

confidence: 99%

Experimental evolution-driven identification of Arabidopsis rhizosphere competence genes inPseudomonas protegens

Jiang

Pieterse

et al. 2020

Preprint

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“…This PGPRs-induced plant growth was also reported in similar studies, with plants treated with these strains growing taller and more vigorously (Suslow and Schroth, 1982;Nandakumar et al, 2001). Bakker et al (2020) have reviewed in depth the root-associated microbiota and their functions in plant health and especially on how modern microbiomics technologies can help to decipher complex processes that govern the assembly and functioning of the root microbiome.…”

Section: Discussionmentioning

confidence: 99%

“…Several research studies have noted the importance of soil microbiome on plant health, in particular in sugar beet crops (Berendsen et al, 2012;Bakker et al, 2013Bakker et al, , 2020Weijuan et al, 2020;Wolfgang et al, 2020). In fact because the genome and breeding history is known, sugar beet is an interesting model crop for microbiome studies (Zachow et al, 2008;Mendes et al, 2011;Würschum et al, 2013;Dohm et al, 2014;Kusstatscher et al, 2019a,b).…”

Section: Introductionmentioning

confidence: 99%

Microbial Inoculation for Productivity Improvements and Potential Biological Control in Sugar Beet Crops

Sacristán-Pérez-Minayo

López-Robles

Rad

et al. 2020

Front. Plant Sci.

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Used mainly for sucrose production, sugar beet is one of the most important crops in Castilla y León (Spain). Several studies have demonstrated the benefits of microorganisms in different crop management programs, among which Plant Growth Promoting Rhizobacteria (PGPR). This research aims to assess the beneficial effects of two PGPRs strains (Pseudomonas fluorescens Pf0-1 and Pseudomonas chlororaphis CECT 462) on sugar beet (Beta vulgaris) production. Three treatments: a PGPRs co-inoculation assay of untreated seeds without any chemical treatment (TB), a conventional treatment with commercial seeds and fungicide application (TT); and a control with seeds without protective coating, bacterial inoculation and chemical treatment (ST). The efficacy of PGPRs inoculation on sugar beet production was determined measuring periodically the photosynthetic status of plants, and the final yield and quality of tubers. Aerial and root plant biomass, maximum beet perimeter, polarization, and sugar values of the sugar beet plants inoculated with PGPRs showed higher values and significant differences to sugar beet subjected to other treatments. We could see that PGPRs inoculation (TB treatment) produced significant differences in the quantum yield of PSII (ΦPSII). TB showed the highest value for ΦPSII and the NPQ (non-photochemical quenching), the lowest value, even though the PSII (maximum quantum yield of photosystem II) was very similar in all treatments. The two assayed PGPR strains triggered a significant increase in sugar beet production yield and quality. PGPRs inoculation techniques could be used in different crops and they could be applied as biofertilizers, improving the agricultural production.

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“…Simultaneously evaluating diverse sorghum genotypes for genetic chilling tolerance and microbe-enhanced chilling tolerance would leverage a novel synergistic approach to early season chilling tolerance. Plant genotype-environment-microbe interactions in field conditions are highly complex (Bakker et al 2020, Hohmann et al 2020, Oyserman et al 2019)). Developing broadly effective microbial enhancements for plant abiotic stress will require incorporating plant genotype – microbe – environment interactions in controlled experiments.…”

Section: Introductionmentioning

confidence: 99%

Evidence for microbiome-dependent chilling tolerance in sorghum

Erlandson

Bheemanahalli

et al. 2021

Preprint

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Early season chilling stress is a major constraint on sorghum production in temperate climates. Chilling-tolerant sorghum is an active area of development, but the potential for early season microbial-enhanced chilling tolerance in sorghum has not yet been explored. In this study, we characterized traits of field-grown sorghum accessions in response to chilling and non-chilling temperatures, then we characterized the effects of chilling temperatures and microbial inoculation on sorghum accession traits in a growth chamber experiment. By comparing sorghum trait responses under chilling stress with and without soil microbial inoculation, we were able to detect a potential microbe-dependent sorghum response to chilling stress. Four sorghum genotypes show a negative response to chilling stress with vs. without microbial inoculation, while five sorghum accessions show increased shoot biomass or/ and leaf area under chilling stress when inoculated with a soil microbiome.

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The Soil-Borne Identity and Microbiome-Assisted Agriculture: Looking Back to the Future

Cited by 110 publications

References 93 publications

Experimental evolution-driven identification of Arabidopsis rhizosphere competence genes inPseudomonas protegens

Experimental evolution-driven identification of Arabidopsis rhizosphere competence genes inPseudomonas protegens

Microbial Inoculation for Productivity Improvements and Potential Biological Control in Sugar Beet Crops

Evidence for microbiome-dependent chilling tolerance in sorghum

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