Peat substrate amended with chitin modulates the N-cycle, siderophore and chitinase responses in the lettuce rhizobiome

Tender, Caroline De; Mesuere, Bart; Jeugt, Felix Van der; Haegeman, Annelies; Ruttink, Tom; Vandecasteele, Bart; Dawyndt, Peter; Debode, Jane; Kuramae, Eiko E.

doi:10.1038/s41598-019-46106-x

Cited by 41 publications

(45 citation statements)

References 64 publications

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“…Interestingly, although Streptomyces was highly abundant in MSC-1 on plates and occupied an important position in an MSC-1 network derived from incubation in soil with chitin, this genus itself was not highly abundant in the native soil when it was amended with chitin. This is in line with other studies that have amended soil with chitin but found no increase in Streptomyces abundance or activity ( De Tender et al, 2019 ), despite the known ability of this bacteria to degrade chitin. This may be due to other, more bioavailable, nutrients in soil or that fact that Streptomyces may be using resources more slowly.…”

Section: Discussionsupporting

confidence: 92%

Development and Analysis of a Stable, Reduced Complexity Model Soil Microbiome

et al. 2020

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The soil microbiome is central to the cycling of carbon and other nutrients and to the promotion of plant growth. Despite its importance, analysis of the soil microbiome is difficult due to its sheer complexity, with thousands of interacting species. Here, we reduced this complexity by developing model soil microbial consortia that are simpler and more amenable to experimental analysis but still represent important microbial functions of the native soil ecosystem. Samples were collected from an arid grassland soil and microbial communities (consisting mainly of bacterial species) were enriched on agar plates containing chitin as the main carbon source. Chitin was chosen because it is an abundant carbon and nitrogen polymer in soil that often requires the coordinated action of several microorganisms for complete metabolic degradation. Several soil consortia were derived that had tractable richness (30-50 OTUs) with diverse phyla representative of the native soil, including Actinobacteria, Bacteroidetes, Firmicutes, Proteobacteria, and Verrucomicrobia. The resulting consortia could be stored as glycerol or lyophilized stocks at −80 • C and revived while retaining community composition, greatly increasing their use as tools for the research community at large. One of the consortia that was particularly stable was chosen as a model soil consortium (MSC-1) for further analysis. MSC-1 species interactions were studied using both pairwise co-cultivation in liquid media and during growth in soil under several perturbations. Co-abundance analyses highlighted interspecies interactions and helped to define keystone species, including Mycobacterium, Rhodococcus, and Rhizobiales taxa. These experiments demonstrate the success of an approach based on naturally enriching a community of interacting species that can be stored, revived, and shared. The knowledge gained from querying these communities and their interactions will enable better understanding of the soil microbiome and the roles these interactions play in this environment.

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Section: Discussionsupporting

confidence: 92%

Development and Analysis of a Stable, Reduced Complexity Model Soil Microbiome

et al. 2020

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“…Mortierella hygrophila can induce vine plant defense responses to powdery mildew disease by the production of polyunsaturated fatty acids [ 46 ]. Mortierella has also been found in the rhizosphere soil of lettuce cultivated in soil amended with chitin [ 47 ] and in forest ecosystems [ 48 ]. These results suggest that the potentially beneficial fungi Mortierella may form cooperative associations with other taxa to stimulate plant host growth.…”

Section: Discussionmentioning

confidence: 99%

Bacterial Tomato Pathogen Ralstonia solanacearum Invasion Modulates Rhizosphere Compounds and Facilitates the Cascade Effect of Fungal Pathogen Fusarium solani

Zhang

Nie

et al. 2020

Microorganisms

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Soil-borne pathogen invasions can significantly change the microbial communities of the host rhizosphere. However, whether bacterial Ralstonia solanacearum pathogen invasion influences the abundance of fungal pathogens remains unclear. In this study, we combined high-throughput sequencing, qPCR, liquid chromatography and soil culture experiments to analyze the rhizosphere fungal composition, co-occurrence of fungal communities, copy numbers of functional genes, contents of phenolic acids and their associations in healthy and bacterial wilt-diseased tomato plants. We found that R. solanacearum invasion increased the abundance of the soil-borne pathogen Fusarium solani. The concentrations of three phenolic acids in the rhizosphere soil of bacterial wilt-diseased tomato plants were significantly higher than those in the rhizosphere soil of healthy tomato plants. In addition, the increased concentrations of phenolic acids significantly stimulated F. solani growth in the soil. Furthermore, a simple fungal network with fewer links, nodes and hubs (highly connected nodes) was found in the diseased tomato plant rhizosphere. These results indicate that once the symptom of bacterial wilt disease is observed in tomato, the roots of the wilt-diseased tomato plants need to be removed in a timely manner to prevent the enrichment of other fungal soil-borne pathogens. These findings provide some ecological clues for the mixed co-occurrence of bacterial wilt disease and other fungal soil-borne diseases.

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“…does not possess a NodC homolog (Silakowski et al, 1996). Chitin deacetylation has also been associated with accumulation of N-glucosamines and a stimulated increase in plant systemic resistance (De Tender et al, 2019).…”

Section: Discussionmentioning

confidence: 99%

Myxobacterial Response to Methyljasmonate Exposure Indicates Contribution to Plant Recruitment of Micropredators

et al. 2020

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Chemical exchanges between plants and microbes within rhizobiomes are critical to the development of community structure. Volatile root exudates such as the phytohormone methyljasmonate (MeJA) contribute to various plant stress responses and have been implicated to play a role in the maintenance of microbial communities. Myxobacteria are competent predators of plant pathogens and are generally considered beneficial to rhizobiomes. While plant recruitment of myxobacteria to stave off pathogens has been suggested, no involved chemical signaling processes are known. Herein we expose predatory myxobacteria to MeJA and employ untargeted mass spectrometry, motility assays, and RNA sequencing to monitor changes in features associated with predation such as specialized metabolism, swarm expansion, and production of lytic enzymes. From a panel of four myxobacteria, we observe the most robust metabolic response from plant-associated Archangium sp. strain Cb G35 with 10 µM MeJA impacting the production of at least 300 metabolites and inducing a ≥ fourfold change in transcription for 56 genes. We also observe that MeJA induces A. sp. motility supporting plant recruitment of a subset of the investigated micropredators. Provided the varying responses to MeJA exposure, our observations indicate that MeJA contributes to the recruitment of select predatory myxobacteria suggesting further efforts are required to explore the microbial impact of plant exudates associated with biotic stress.

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Peat substrate amended with chitin modulates the N-cycle, siderophore and chitinase responses in the lettuce rhizobiome

Cited by 41 publications

References 64 publications

Development and Analysis of a Stable, Reduced Complexity Model Soil Microbiome

Development and Analysis of a Stable, Reduced Complexity Model Soil Microbiome

Bacterial Tomato Pathogen Ralstonia solanacearum Invasion Modulates Rhizosphere Compounds and Facilitates the Cascade Effect of Fungal Pathogen Fusarium solani

Myxobacterial Response to Methyljasmonate Exposure Indicates Contribution to Plant Recruitment of Micropredators

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