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Title: Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains

Abstract

Altitude significantly affects vegetation growth and distribution, including the developmental stages of a forest. We used shotgun Illumina sequencing to analyze microbial community composition and functional potential in melojo-oak ( Quercus pyrenaica Willd.) rhizospheric soil for three different development stages along an altitudinal gradient: (a) a low altitude, non-optimal site for forest maintenance; (b) an intermediate altitude, optimal site for a forest; and (c) a high altitude, expansion site with isolated trees but without a real forest canopy. We observed that, at each altitude, the same microbial taxa appear both in the taxonomic analysis of the whole metagenome and in the functional analysis of the methane, sulfur and nitrogen metabolisms. Although there were no major differences at the functional level, there were significant differences in the abundance of each taxon at the phylogenetic level between the rhizospheres of the forest (low and intermediate altitudes) and the expansion site. Proteobacteria and Actinobacteria were the most differentially abundant phyla in forest soils compared to the expansion site rhizosphere. Moreover, Verrucomicrobia, Bacteroidetes and Nitrospirae phyla were more highly represented in the non-forest rhizosphere. Our study suggests that rhizospheric microbial communities of the same tree species may be affected by development stage and forestmore » canopy cover via changes in soil pH and the C/N ratio.« less

Authors:
 [1];  [1];  [1];  [1];  [2];  [1]
  1. Consejo Superior de Investigaciones Cientificas, Granada (Spain)
  2. DOE Joint Genome Institute, Walnut Creek, CA (United States)
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1408477
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
Forests
Additional Journal Information:
Journal Volume: 8; Journal Issue: 10; Journal ID: ISSN 1999-4907
Publisher:
MDPI
Country of Publication:
United States
Language:
English
Subject:
metagenomics; Mediterranean forests; melojo-oak; microbial functional diversity; biogeochemical cycles; rhizosphere metabolism

Citation Formats

Cobo-Díaz, Jose F., Fernández-González, Antonio J., Villadas, Pablo J., Toro, Nicolás, Tringe, Susannah G., and Fernández-López, Manuel. Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains. United States: N. p., 2017. Web. doi:10.3390/f8100390.
Cobo-Díaz, Jose F., Fernández-González, Antonio J., Villadas, Pablo J., Toro, Nicolás, Tringe, Susannah G., & Fernández-López, Manuel. Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains. United States. doi:10.3390/f8100390.
Cobo-Díaz, Jose F., Fernández-González, Antonio J., Villadas, Pablo J., Toro, Nicolás, Tringe, Susannah G., and Fernández-López, Manuel. Thu . "Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains". United States. doi:10.3390/f8100390. https://www.osti.gov/servlets/purl/1408477.
@article{osti_1408477,
title = {Taxonomic and Functional Diversity of a Quercus pyrenaica Willd. Rhizospheric Microbiome in the Mediterranean Mountains},
author = {Cobo-Díaz, Jose F. and Fernández-González, Antonio J. and Villadas, Pablo J. and Toro, Nicolás and Tringe, Susannah G. and Fernández-López, Manuel},
abstractNote = {Altitude significantly affects vegetation growth and distribution, including the developmental stages of a forest. We used shotgun Illumina sequencing to analyze microbial community composition and functional potential in melojo-oak (Quercus pyrenaica Willd.) rhizospheric soil for three different development stages along an altitudinal gradient: (a) a low altitude, non-optimal site for forest maintenance; (b) an intermediate altitude, optimal site for a forest; and (c) a high altitude, expansion site with isolated trees but without a real forest canopy. We observed that, at each altitude, the same microbial taxa appear both in the taxonomic analysis of the whole metagenome and in the functional analysis of the methane, sulfur and nitrogen metabolisms. Although there were no major differences at the functional level, there were significant differences in the abundance of each taxon at the phylogenetic level between the rhizospheres of the forest (low and intermediate altitudes) and the expansion site. Proteobacteria and Actinobacteria were the most differentially abundant phyla in forest soils compared to the expansion site rhizosphere. Moreover, Verrucomicrobia, Bacteroidetes and Nitrospirae phyla were more highly represented in the non-forest rhizosphere. Our study suggests that rhizospheric microbial communities of the same tree species may be affected by development stage and forest canopy cover via changes in soil pH and the C/N ratio.},
doi = {10.3390/f8100390},
journal = {Forests},
number = 10,
volume = 8,
place = {United States},
year = {Thu Oct 12 00:00:00 EDT 2017},
month = {Thu Oct 12 00:00:00 EDT 2017}
}

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Cited by: 1 work
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