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Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact

Tree roots attract their associated microbial partners from the local soil community. Accordingly, tree root-associated microbial communities are shaped by both the host tree and local environmental variables. To rationally compare the magnitude of environmental conditions and host tree impact, the...

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Autores principales: Habiyaremye, Jean de Dieu, Goldmann, Kezia, Reitz, Thomas, Herrmann, Sylvie, Buscot, François
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7190799/
https://www.ncbi.nlm.nih.gov/pubmed/32390986
http://dx.doi.org/10.3389/fmicb.2020.00749
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author Habiyaremye, Jean de Dieu
Goldmann, Kezia
Reitz, Thomas
Herrmann, Sylvie
Buscot, François
author_facet Habiyaremye, Jean de Dieu
Goldmann, Kezia
Reitz, Thomas
Herrmann, Sylvie
Buscot, François
author_sort Habiyaremye, Jean de Dieu
collection PubMed
description Tree roots attract their associated microbial partners from the local soil community. Accordingly, tree root-associated microbial communities are shaped by both the host tree and local environmental variables. To rationally compare the magnitude of environmental conditions and host tree impact, the “PhytOakmeter” project planted clonal oak saplings (Quercus robur L., clone DF159) as phytometers into different field sites that are within a close geographic space across the Central German lowland region. The PhytOakmeters were produced via micro-propagation to maintain their genetic identity. The current study analyzed the microbial communities in the PhytOakmeter root zone vs. the tree root-free zone of soil two years after out-planting the trees. Soil DNA was extracted, 16S and ITS2 genes were respectively amplified for bacteria and fungi, and sequenced using Illumina MiSeq technology. The obtained microbial communities were analyzed in relation to soil chemistry and weather data as environmental conditions, and the host tree growth. Although microbial diversity in soils of the tree root zone was similar among the field sites, the community structure was site-specific. Likewise, within respective sites, the microbial diversity between PhytOakmeter root and root-free zones was comparable. The number of microbial species exclusive to either zone, however, was higher in the host tree root zone than in the tree root-free zone. PhytOakmeter “core” and “site-specific” microbiomes were identified and attributed to the host tree selection effect and/or to the ambient conditions of the sites, respectively. The identified PhytOakmeter root zone-associated microbiome predominantly included ectomycorrhizal fungi, yeasts and saprotrophs. Soil pH, soil organic matter, and soil temperature were significantly correlated with the microbial diversity and/or community structure. Although the host tree contributed to shape the soil microbial communities, its effect was surpassed by the impact of environmental factors. The current study helps to understand site-specific microbe recruitment processes by young host trees.
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spelling pubmed-71907992020-05-08 Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact Habiyaremye, Jean de Dieu Goldmann, Kezia Reitz, Thomas Herrmann, Sylvie Buscot, François Front Microbiol Microbiology Tree roots attract their associated microbial partners from the local soil community. Accordingly, tree root-associated microbial communities are shaped by both the host tree and local environmental variables. To rationally compare the magnitude of environmental conditions and host tree impact, the “PhytOakmeter” project planted clonal oak saplings (Quercus robur L., clone DF159) as phytometers into different field sites that are within a close geographic space across the Central German lowland region. The PhytOakmeters were produced via micro-propagation to maintain their genetic identity. The current study analyzed the microbial communities in the PhytOakmeter root zone vs. the tree root-free zone of soil two years after out-planting the trees. Soil DNA was extracted, 16S and ITS2 genes were respectively amplified for bacteria and fungi, and sequenced using Illumina MiSeq technology. The obtained microbial communities were analyzed in relation to soil chemistry and weather data as environmental conditions, and the host tree growth. Although microbial diversity in soils of the tree root zone was similar among the field sites, the community structure was site-specific. Likewise, within respective sites, the microbial diversity between PhytOakmeter root and root-free zones was comparable. The number of microbial species exclusive to either zone, however, was higher in the host tree root zone than in the tree root-free zone. PhytOakmeter “core” and “site-specific” microbiomes were identified and attributed to the host tree selection effect and/or to the ambient conditions of the sites, respectively. The identified PhytOakmeter root zone-associated microbiome predominantly included ectomycorrhizal fungi, yeasts and saprotrophs. Soil pH, soil organic matter, and soil temperature were significantly correlated with the microbial diversity and/or community structure. Although the host tree contributed to shape the soil microbial communities, its effect was surpassed by the impact of environmental factors. The current study helps to understand site-specific microbe recruitment processes by young host trees. Frontiers Media S.A. 2020-04-23 /pmc/articles/PMC7190799/ /pubmed/32390986 http://dx.doi.org/10.3389/fmicb.2020.00749 Text en Copyright © 2020 Habiyaremye, Goldmann, Reitz, Herrmann and Buscot. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Habiyaremye, Jean de Dieu
Goldmann, Kezia
Reitz, Thomas
Herrmann, Sylvie
Buscot, François
Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
title Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
title_full Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
title_fullStr Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
title_full_unstemmed Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
title_short Tree Root Zone Microbiome: Exploring the Magnitude of Environmental Conditions and Host Tree Impact
title_sort tree root zone microbiome: exploring the magnitude of environmental conditions and host tree impact
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7190799/
https://www.ncbi.nlm.nih.gov/pubmed/32390986
http://dx.doi.org/10.3389/fmicb.2020.00749
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