Exploring interactions of plant microbiomes

Andreote, Fernando Dini; Gumiere, Thiago; Durrer, Ademir

doi:10.1590/0103-9016-2014-0195

Cited by 141 publications

(74 citation statements)

References 85 publications

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“…In addition to tightly coevolved relationships between individual partners, recent studies have demonstrated that plant-associated microbial communities play critical roles in plant development. Under the right circumstances, the microbiome can bolster plant productivity by providing protection against pathogens, among other mechanisms (1)(2)(3)(4). Several studies have indicated that managing microbial taxonomic/functional diversity at the field scale can have positive effects on crop production (5)(6)(7)(8).…”

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confidence: 99%

Defining the Core Citrus Leaf- and Root-Associated Microbiota: Factors Associated with Community Structure and Implications for Managing Huanglongbing (Citrus Greening) Disease

Blaustein

Lorca

Meyer

et al. 2017

Appl Environ Microbiol

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Stable associations between plants and microbes are critical to promoting host health and productivity. The objective of this work was to test the hypothesis that restructuring of the core microbiota may be associated with the progression of huanglongbing (HLB), the devastating citrus disease caused by Liberibacter asiaticus, Liberibacter americanus, and Liberibacter africanus. The microbial communities of leaves (n ϭ 94) and roots (n ϭ 79) from citrus trees that varied by HLB symptom severity, cultivar, location, and season/time were characterized with Illumina sequencing of 16S rRNA genes. The taxonomically rich communities contained abundant core members (i.e., detected in at least 95% of the respective leaf or root samples), some overrepresented site-specific members, and a diverse community of lowabundance variable taxa. The composition and diversity of the leaf and root microbiota were strongly associated with HLB symptom severity and location; there was also an association with host cultivar. The relative abundance of Liberibacter spp. among leaf microbiota positively correlated with HLB symptom severity and negatively correlated with alpha diversity, suggesting that community diversity decreases as symptoms progress. Network analysis of the microbial community time series identified a mutually exclusive relationship between Liberibacter spp. and members of the Burkholderiaceae, Micromonosporaceae, and Xanthomonadaceae. This work confirmed several previously described plant disease-associated bacteria, as well as identified new potential implications for biological control. Our findings advance the understanding of (i) plant microbiota selection across multiple variables and (ii) changes in (core) community structure that may be a precondition to disease establishment and/or may be associated with symptom progression.IMPORTANCE This study provides a comprehensive overview of the core microbial community within the microbiomes of plant hosts that vary in extent of disease symptom progression. With 16S Illumina sequencing analyses, we not only confirmed previously described bacterial associations with plant health (e.g., potentially beneficial bacteria) but also identified new associations and potential interactions between certain bacteria and an economically important phytopathogen. The importance of core taxa within broader plant-associated microbial communities is discussed.KEYWORDS core microbiome, plant-associated microbiota, Liberibacter, pathogenmicrobe interactions

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confidence: 99%

Defining the Core Citrus Leaf- and Root-Associated Microbiota: Factors Associated with Community Structure and Implications for Managing Huanglongbing (Citrus Greening) Disease

Blaustein

Lorca

Meyer

et al. 2017

Appl Environ Microbiol

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“…The diazotrophic community can be altered, especially by soil characteristics, by exudation patterns of the plants [32], by type of vegetation, among plant genotypes, by phenological stage, and by niche of colonization [6,10,26,33], besides the action of animals on the vegetation, during grazing [34]. However, the association of these bacteria with forage grasses constitutes an important resource to be used in the recovery of areas with soil and grasses in various stages of degradation [7,30].…”

Section: Cultivated (Not Validated) Diazotrophic Bacterial Communitymentioning

confidence: 99%

“…As the fertility of the environment decreases, with the degradation of the pastures, for example, the diversity tends to decrease, because the region becomes selective, leaving only a small part of microorganisms more resistant to unfavorable conditions of the environment [6,26].…”

Section: Total Diazotrophic Bacterial Communitymentioning

confidence: 99%

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Diazotrophic Bacterial Community of Degraded Pastures

Oliveira

Figueredo

Diniz

et al. 2017

Applied and Environmental Soil Science

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Pasture degradation can cause changes in diazotrophic bacterial communities. Thus, this study aimed to evaluate the culturable and total diazotrophic bacterial community, associated with regions of the rhizosphere and roots of Brachiaria decumbens Stapf. pastures in different stages of degradation. Samples of roots and rhizospheric soil were collected from slightly, partially, and highly degraded pastures. McCrady's table was used to obtain the Most Probable Number (MPN) of bacteria per gram of sample, in order to determine population density and calculate the Shannon-Weaver diversity index. The diversity of total diazotrophic bacterial community was determined by the technique of Denaturing Gradient Gel Electrophoresis (DGGE) of the nif H gene, while the diversity of the culturable diazotrophic bacteria was determined by the Polymerase Chain Reaction (BOX-PCR) technique. The increase in the degradation stage of the B. decumbens Stapf. pasture did not reduce the population density of the cultivated diazotrophic bacterial community, suggesting that the degradation at any degree of severity was highly harmful to the bacteria. The structure of the total diazotrophic bacterial community associated with B. decumbens Stapf. was altered by the pasture degradation stage, suggesting a high adaptive capacity of the bacteria to altered environments.

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“…The fine roots of Eucalyptus and the large amount of litter deposited on the surface may favor soil mesofauna richness in EU and integrated systems, since litter represents a direct food source for soil mesofauna [35]. The roots continuously secrete carbon compounds with low molecular weight that serve as food for microorganisms [36], and these could be actively predated by soil mesofauna. Moreover, the increase of organic matter contents and the improvement of soil physical quality by the introduction of the ICLF system with Eucalyptus trees in agricultural areas may provide higher availability of niches in ICLF that will favor a complex and well structured community of soil invertebrates [12,37].…”

Section: Soil Mesofauna In Wintermentioning

confidence: 99%

Soil Invertebrates in Different Land Use Systems: How Integrated Production Systems and Seasonality Affect Soil Mesofauna Communities

Zagatto¹,

Niva²,

Thomazini³

et al. 2017

JAST-B

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Abstract:The soil mesofauna plays a role in organic matter comminution and decomposition, and can be used as bioindicators, since they are sensitive to soil management, vegetation and climate changes. Hence, this study aimed to evaluate mesofauna density and diversity in different land use systems to identify faunal relationships with soil properties, management and seasonality. The study area included five land use systems in Ponta Grossa municipality, Paraná State: integrated crop-livestock (ICL), integrated crop-livestock-forestry (ICLF), grazed native pasture (NP), Eucalyptus dunnii plantation (EU) and no-tillage (NT) cropping systems. In each system, eight soil samples for mesofauna were collected with Berlese funnels of 8 cm diameter along a transect in three replicate plots of 50 m × 100 m. For physical and chemical analysis, soil was sampled at five points per plot in two seasons: winter 2012 and autumn 2013. Data were statistically analyzed using ANOVA and Duncan's test (P < 0.05), nonparametric statistics (when necessary) and redundancy analysis (RDA). Diversity was calculated based on the group richness and Simpson index. The main mesofauna groups found were: Acarina, Collembola and Hymenoptera. Diplopoda, Enchytraeidae, Isopoda, Collembola, Hemiptera, Hymenoptera and Coleoptera larvae were more abundant in autumn than winter. Soil moisture was the main factor responsible for higher mesofauna abundance in autumn. Integrated production systems, especially ICLF had similar invertebrate community abundance and composition with EU, while NT favored Oribatid mites, although the use of insecticides, herbicides and fungicides reduced total mesofauna density. Most correlations between mesofauna and physical-chemical attributes in the winter were not observed in the autumn and vice versa, revealing that there are more factors involved in regulating soil mesofauna distribution.

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Exploring interactions of plant microbiomes

Cited by 141 publications

References 85 publications

Defining the Core Citrus Leaf- and Root-Associated Microbiota: Factors Associated with Community Structure and Implications for Managing Huanglongbing (Citrus Greening) Disease

Defining the Core Citrus Leaf- and Root-Associated Microbiota: Factors Associated with Community Structure and Implications for Managing Huanglongbing (Citrus Greening) Disease

Diazotrophic Bacterial Community of Degraded Pastures

Soil Invertebrates in Different Land Use Systems: How Integrated Production Systems and Seasonality Affect Soil Mesofauna Communities

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