Influence of plant development, cultivar and soil type on microbial colonization of maize roots

Chiarini, Luigi; Bevivino, Annamaria; Dalmastri, Claudia; Nacamulli, Carlo; Tabacchioni, Silvia

doi:10.1016/s0929-1393(97)00071-1

Cited by 99 publications

(37 citation statements)

References 18 publications

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“…Our analysis used a conservative 95% similarity cutoff for the D1 region of the LSU, which may have led to lower OTU numbers. Several authors have proposed that soil type is one of the major drivers of rhizosphere microbial communities (2,18), while other authors have suggested that the plant growth stage can shape the rhizosphere microbial communities (8,18). Our limited study of two contrasting soil types showed that both bacterial and fungal communities did not differ significantly in higher-order composition in either the rhizosphere or endosphere environment.…”

Section: Vol 77 2011 Bacterial and Fungal Communities Of Populus Decontrasting

confidence: 50%

Distinct Microbial Communities within the Endosphere and Rhizosphere of Populus deltoides Roots across Contrasting Soil Types

Gottel

Castro

Kerley

et al. 2011

Appl Environ Microbiol

453

340

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The root-rhizosphere interface of Populus is the nexus of a variety of associations between bacteria, fungi, and the host plant and an ideal model for studying interactions between plants and microorganisms. However, such studies have generally been confined to greenhouse and plantation systems. Here we analyze microbial communities from the root endophytic and rhizospheric habitats of Populus deltoides in mature natural trees from both upland and bottomland sites in central Tennessee. Community profiling utilized 454 pyrosequencing with separate primers targeting the V4 region for bacterial 16S rRNA and the D1/D2 region for fungal 28S rRNA genes. Rhizosphere bacteria were dominated by Acidobacteria (31%) and Alphaproteobacteria (30%), whereas most endophytes were from the Gammaproteobacteria (54%) as well as Alphaproteobacteria (23%). A single Pseudomonas-like operational taxonomic unit (OTU) accounted for 34% of endophytic bacterial sequences. Endophytic bacterial richness was also highly variable and 10-fold lower than in rhizosphere samples originating from the same roots. Fungal rhizosphere and endophyte samples had approximately equal amounts of the Pezizomycotina (40%), while the Agaricomycotina were more abundant in the rhizosphere (34%) than endosphere (17%). Both fungal and bacterial rhizosphere samples were highly clustered compared to the more variable endophyte samples in a UniFrac principal coordinates analysis, regardless of upland or bottomland site origin. Hierarchical clustering of OTU relative abundance patterns also showed that the most abundant bacterial and fungal OTUs tended to be dominant in either the endophyte or rhizosphere samples but not both.Together, these findings demonstrate that root endophytic communities are distinct assemblages rather than opportunistic subsets of the rhizosphere.Populus is considered the model organism for the study of woody perennials (46) and represents the first tree genome to be fully sequenced (47). Populus has also received attention in bioenergy research for the production of cellulose-derived biofuels (47). Populus can be grown on land not suitable for food production and increase carbon sequestration, thus minimizing the competition between food and fuel production and reducing the carbon debt incurred through land use changes (39). Populus may also provide an ideal model for understanding a variety of plant-microbe interactions (45). Populus and other members of the Salicaceae are capable of establishing associations with both arbuscular mycorrhizal (AM) and ectomycorrhizal (ECM) fungi (14) that may result in unique interactions between these fungi, as well as other endophytic and rhizospheric organisms and the host. Populus bacterial rhizosphere and endophytic constituents have received some attention due to their potential role in phytoremediation of industrial chemicals (33) and heavy metals (4), as well as plant growth-promoting bacteria (PGPB), which benefit plants by providing fixed nitrogen and/or aiding resistance to infection by pathogens ...

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Section: Vol 77 2011 Bacterial and Fungal Communities Of Populus Decontrasting

confidence: 50%

Distinct Microbial Communities within the Endosphere and Rhizosphere of Populus deltoides Roots across Contrasting Soil Types

Gottel

Castro

Kerley

et al. 2011

Appl Environ Microbiol

453

340

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“…Further, rhizosphere microbial communities can initially be dominated by r-strategists, such as Proteobacteria. As plants age, rhizosphere communities can be dominated by K-strategists, such as mutualistic bacteria and fungi, suggesting a succession of the rhizosphere communities [9,10,23,30,33,37,38]. Assessing rhizodeposition patterns and the specific bacterial populations within the rhizosphere were beyond the scope of this study, so it is unknown if Agrostis and Andropogon rhizospheres were responding to plant age-root exudation and/or undergoing succession, but these remain potential explanations for the observed patterns.…”

Section: Discussionmentioning

confidence: 95%

Temporal Dynamics in Rhizosphere Bacterial Communities of Three Perennial Grassland Species

2016

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Abstract:Rhizodeposition is considered a primary reason for the plant identity effect. However, the detection of distinct rhizosphere bacterial communities (RBC) with different plant species has been variable. The aim of this study was to examine the potential explanations for this variability using three perennial grassland species. In a Kansas field experiment, over two growing seasons, we sampled RBC during the active growth and flowering stages of Agrostis gigantea, Andropogon gerardii and Helianthus maximiliani to: (1) determine the extent of the plant identity effect among these species and if the effect was maintained over time; (2) assess if RBC showed seasonal patterns, corresponding to plant phenology; and (3) examine if soil properties were important for structuring these communities. We found that Helianthus RBC were distinct from those of Agrostis and Andropogon only when Helianthus was flowering. Further, Helianthus RBC exhibited seasonal shifts corresponding to plant phenology. In contrast, Agrostis and Andropogon RBC were similar over time and exhibited gradual non-seasonal changes in compositions. Similar results were observed when accounting for soil properties. Overall, the observance of a plant identity effect depended on the plant species and when RBC were sampled. The seasonality of RBC also depended on the plant species examined.

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“…Other studies assessing culturable soil microbial communities indicated that bacterial communities in rhizospheres were not affected by varieties of either nontransgenic (4) or Bacillus thuringiensis-protected (16) corn. Glufosinate-resistant corn was previously shown not to affect the bacterial community (17); similarly, we found that RR corn had no effect on rhizosphere bacterial communities, and this is the first such report to our knowledge.…”

mentioning

confidence: 99%

Bacterial Diversity in Rhizospheres of Nontransgenic and Transgenic Corn

Mao-Fa

Kremer

Motavalli

et al. 2005

Appl Environ Microbiol

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Influence of plant development, cultivar and soil type on microbial colonization of maize roots

Cited by 99 publications

References 18 publications

Distinct Microbial Communities within the Endosphere and Rhizosphere of Populus deltoides Roots across Contrasting Soil Types

Distinct Microbial Communities within the Endosphere and Rhizosphere of Populus deltoides Roots across Contrasting Soil Types

Temporal Dynamics in Rhizosphere Bacterial Communities of Three Perennial Grassland Species

Bacterial Diversity in Rhizospheres of Nontransgenic and Transgenic Corn

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