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Title: | Structural variability and niche differentiation in the rhizosphere and endosphere bacterial microbiome of field-grown poplar trees | Authors: | BECKERS, Bram OP DE BEECK, Michiel WEYENS, Nele Wout Boerjan VANGRONSVELD, Jaco |
Issue Date: | 2017 | Source: | Microbiome, 5(25) | Abstract: | Background The plant microbiome represents one of the key determinants of plant health and productivity by providing a plethora of functional capacities such as access to low-abundance nutrients, suppression of phytopathogens, and resistance to biotic and/or abiotic stressors. However, a robust understanding of the structural composition of the bacterial microbiome present in different plant microenvironments and especially the relationship between below-ground and above-ground communities has remained elusive. In this work, we addressed hypotheses regarding microbiome niche differentiation and structural stability of the bacterial communities within different ecological plant niches. Methods We sampled the rhizosphere soil, root, stem, and leaf endosphere of field-grown poplar trees (Populus tremula × Populus alba) and applied 16S rRNA amplicon pyrosequencing to unravel the bacterial communities associated with the different plant habitats. Results We found that the structural variability of rhizosphere microbiomes in field-grown poplar trees (P. tremula × P. alba) is much lower than that of the endosphere microbiomes. Furthermore, our data not only confirm microbiome niche differentiation reports at the rhizosphere soil–root interface but also clearly show additional fine-tuning and adaptation of the endosphere microbiome in the stem and leaf compartment. Each plant compartment represents an unique ecological niche for the bacterial communities. Finally, we identified the core bacterial microbiome associated with the different ecological niches of Populus. Conclusions Understanding the complex host–microbe interactions of Populus could provide the basis for the exploitation of the eukaryote–prokaryote associations in phytoremediation applications, sustainable crop production (bio-energy efficiency), and/or the production of secondary metabolites. | Notes: | Beckers, B (reprint author), Hasselt Univ, Ctr Environm Sci, Agoralaan Bldg D, B-3590 Diepenbeek, Belgium. bram.beckers@uhasselt.be | Keywords: | populus tremula × Populus alba; bacterial microbiome; rhizosphere; endosphere; microbiome niche differentiation, 16S rRNA amplicon pyrosequencing | Document URI: | http://hdl.handle.net/1942/23296 | ISSN: | 2049-2618 | e-ISSN: | 2049-2618 | DOI: | 10.1186/s40168-017-0241-2 | ISI #: | 000397307700001 | Rights: | © The Author(s). 2017 Open Access. This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. | Category: | A1 | Type: | Journal Contribution | Validations: | ecoom 2018 |
Appears in Collections: | Research publications |
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Structural variability.pdf | Published version | 2.19 MB | Adobe PDF | View/Open |
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