The structure and function of the global citrus rhizosphere microbiome
Citrus is a globally important, perennial fruit crop whose rhizosphere microbiome is thought to play an important role in promoting citrus growth and health. Here, we report a comprehensive analysis of the structural and functional composition of the citrus rhizosphere microbiome. We use both amplicon and deep shotgun metagenomic sequencing of bulk soil and rhizosphere samples collected across distinct biogeographical regions from six continents. Predominant taxa include Proteobacteria, Actinobacteria, Acidobacteria and Bacteroidetes. The core citrus rhizosphere microbiome comprises Pseudomonas, Agrobacterium, Cupriavidus, Bradyrhizobium, Rhizobium, Mesorhizobium, Burkholderia, Cellvibrio, Sphingomonas, Variovorax and Paraburkholderia, some of which are potential plant beneficial microbes. We also identify over-represented microbial functional traits mediating plant-microbe and microbe-microbe interactions, nutrition acquisition and plant growth promotion in citrus rhizosphere. The results provide valuable information to guide microbial isolation and culturing and, potentially, to harness the power of the microbiome to improve plant production and health.
Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Subjects: | F61 - Physiologie végétale - Nutrition, F62 - Physiologie végétale - Croissance et développement, Citrus, rhizosphère, génomique, http://aims.fao.org/aos/agrovoc/c_1637, http://aims.fao.org/aos/agrovoc/c_6569, http://aims.fao.org/aos/agrovoc/c_92382, |
Online Access: | http://agritrop.cirad.fr/590608/ http://agritrop.cirad.fr/590608/1/Xu%202018%2C%20Nature%20Com-The%20citrus%20rhizosphere%20microbiome.pdf |
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dig-cirad-fr-5906082024-01-29T01:32:08Z http://agritrop.cirad.fr/590608/ http://agritrop.cirad.fr/590608/ The structure and function of the global citrus rhizosphere microbiome. Xu Jin, Zhang Yunzeng, Zhang Pengfan, Trivedi Pankaj, Riera Nadia, Wang Yayu, Liu Xin, Fan Guangyi, Tang Jiliang, Coletta-Filho Helvécio D, Cubero Jaime, Deng Xiaoling, Ancona Veronica, Lu Zhanjun, Zhong Balian, Roper Caroline, Capote Nieves, Catara Vittoria, Pietersen Gerhard, Vernière Christian, Al-Sadi Abdullah M., Li Lei, Yang Fan, Xu Xun, Wang Jian, Yang Huanming, Jin Tao, Wang Nian. 2018. Nature Communications, 9:4894, 10 p.https://doi.org/10.1038/s41467-018-07343-2 <https://doi.org/10.1038/s41467-018-07343-2> The structure and function of the global citrus rhizosphere microbiome Xu, Jin Zhang, Yunzeng Zhang, Pengfan Trivedi, Pankaj Riera, Nadia Wang, Yayu Liu, Xin Fan, Guangyi Tang, Jiliang Coletta-Filho, Helvécio D Cubero, Jaime Deng, Xiaoling Ancona, Veronica Lu, Zhanjun Zhong, Balian Roper, Caroline Capote, Nieves Catara, Vittoria Pietersen, Gerhard Vernière, Christian Al-Sadi, Abdullah M. Li, Lei Yang, Fan Xu, Xun Wang, Jian Yang, Huanming Jin, Tao Wang, Nian eng 2018 Nature Communications F61 - Physiologie végétale - Nutrition F62 - Physiologie végétale - Croissance et développement Citrus rhizosphère génomique http://aims.fao.org/aos/agrovoc/c_1637 http://aims.fao.org/aos/agrovoc/c_6569 http://aims.fao.org/aos/agrovoc/c_92382 Citrus is a globally important, perennial fruit crop whose rhizosphere microbiome is thought to play an important role in promoting citrus growth and health. Here, we report a comprehensive analysis of the structural and functional composition of the citrus rhizosphere microbiome. We use both amplicon and deep shotgun metagenomic sequencing of bulk soil and rhizosphere samples collected across distinct biogeographical regions from six continents. Predominant taxa include Proteobacteria, Actinobacteria, Acidobacteria and Bacteroidetes. The core citrus rhizosphere microbiome comprises Pseudomonas, Agrobacterium, Cupriavidus, Bradyrhizobium, Rhizobium, Mesorhizobium, Burkholderia, Cellvibrio, Sphingomonas, Variovorax and Paraburkholderia, some of which are potential plant beneficial microbes. We also identify over-represented microbial functional traits mediating plant-microbe and microbe-microbe interactions, nutrition acquisition and plant growth promotion in citrus rhizosphere. The results provide valuable information to guide microbial isolation and culturing and, potentially, to harness the power of the microbiome to improve plant production and health. article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion http://agritrop.cirad.fr/590608/1/Xu%202018%2C%20Nature%20Com-The%20citrus%20rhizosphere%20microbiome.pdf text Cirad license info:eu-repo/semantics/openAccess https://agritrop.cirad.fr/mention_legale.html https://doi.org/10.1038/s41467-018-07343-2 10.1038/s41467-018-07343-2 info:eu-repo/semantics/altIdentifier/doi/10.1038/s41467-018-07343-2 info:eu-repo/semantics/altIdentifier/purl/https://doi.org/10.1038/s41467-018-07343-2 |
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F61 - Physiologie végétale - Nutrition F62 - Physiologie végétale - Croissance et développement Citrus rhizosphère génomique http://aims.fao.org/aos/agrovoc/c_1637 http://aims.fao.org/aos/agrovoc/c_6569 http://aims.fao.org/aos/agrovoc/c_92382 F61 - Physiologie végétale - Nutrition F62 - Physiologie végétale - Croissance et développement Citrus rhizosphère génomique http://aims.fao.org/aos/agrovoc/c_1637 http://aims.fao.org/aos/agrovoc/c_6569 http://aims.fao.org/aos/agrovoc/c_92382 |
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F61 - Physiologie végétale - Nutrition F62 - Physiologie végétale - Croissance et développement Citrus rhizosphère génomique http://aims.fao.org/aos/agrovoc/c_1637 http://aims.fao.org/aos/agrovoc/c_6569 http://aims.fao.org/aos/agrovoc/c_92382 F61 - Physiologie végétale - Nutrition F62 - Physiologie végétale - Croissance et développement Citrus rhizosphère génomique http://aims.fao.org/aos/agrovoc/c_1637 http://aims.fao.org/aos/agrovoc/c_6569 http://aims.fao.org/aos/agrovoc/c_92382 Xu, Jin Zhang, Yunzeng Zhang, Pengfan Trivedi, Pankaj Riera, Nadia Wang, Yayu Liu, Xin Fan, Guangyi Tang, Jiliang Coletta-Filho, Helvécio D Cubero, Jaime Deng, Xiaoling Ancona, Veronica Lu, Zhanjun Zhong, Balian Roper, Caroline Capote, Nieves Catara, Vittoria Pietersen, Gerhard Vernière, Christian Al-Sadi, Abdullah M. Li, Lei Yang, Fan Xu, Xun Wang, Jian Yang, Huanming Jin, Tao Wang, Nian The structure and function of the global citrus rhizosphere microbiome |
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Citrus is a globally important, perennial fruit crop whose rhizosphere microbiome is thought to play an important role in promoting citrus growth and health. Here, we report a comprehensive analysis of the structural and functional composition of the citrus rhizosphere microbiome. We use both amplicon and deep shotgun metagenomic sequencing of bulk soil and rhizosphere samples collected across distinct biogeographical regions from six continents. Predominant taxa include Proteobacteria, Actinobacteria, Acidobacteria and Bacteroidetes. The core citrus rhizosphere microbiome comprises Pseudomonas, Agrobacterium, Cupriavidus, Bradyrhizobium, Rhizobium, Mesorhizobium, Burkholderia, Cellvibrio, Sphingomonas, Variovorax and Paraburkholderia, some of which are potential plant beneficial microbes. We also identify over-represented microbial functional traits mediating plant-microbe and microbe-microbe interactions, nutrition acquisition and plant growth promotion in citrus rhizosphere. The results provide valuable information to guide microbial isolation and culturing and, potentially, to harness the power of the microbiome to improve plant production and health. |
format |
article |
topic_facet |
F61 - Physiologie végétale - Nutrition F62 - Physiologie végétale - Croissance et développement Citrus rhizosphère génomique http://aims.fao.org/aos/agrovoc/c_1637 http://aims.fao.org/aos/agrovoc/c_6569 http://aims.fao.org/aos/agrovoc/c_92382 |
author |
Xu, Jin Zhang, Yunzeng Zhang, Pengfan Trivedi, Pankaj Riera, Nadia Wang, Yayu Liu, Xin Fan, Guangyi Tang, Jiliang Coletta-Filho, Helvécio D Cubero, Jaime Deng, Xiaoling Ancona, Veronica Lu, Zhanjun Zhong, Balian Roper, Caroline Capote, Nieves Catara, Vittoria Pietersen, Gerhard Vernière, Christian Al-Sadi, Abdullah M. Li, Lei Yang, Fan Xu, Xun Wang, Jian Yang, Huanming Jin, Tao Wang, Nian |
author_facet |
Xu, Jin Zhang, Yunzeng Zhang, Pengfan Trivedi, Pankaj Riera, Nadia Wang, Yayu Liu, Xin Fan, Guangyi Tang, Jiliang Coletta-Filho, Helvécio D Cubero, Jaime Deng, Xiaoling Ancona, Veronica Lu, Zhanjun Zhong, Balian Roper, Caroline Capote, Nieves Catara, Vittoria Pietersen, Gerhard Vernière, Christian Al-Sadi, Abdullah M. Li, Lei Yang, Fan Xu, Xun Wang, Jian Yang, Huanming Jin, Tao Wang, Nian |
author_sort |
Xu, Jin |
title |
The structure and function of the global citrus rhizosphere microbiome |
title_short |
The structure and function of the global citrus rhizosphere microbiome |
title_full |
The structure and function of the global citrus rhizosphere microbiome |
title_fullStr |
The structure and function of the global citrus rhizosphere microbiome |
title_full_unstemmed |
The structure and function of the global citrus rhizosphere microbiome |
title_sort |
structure and function of the global citrus rhizosphere microbiome |
url |
http://agritrop.cirad.fr/590608/ http://agritrop.cirad.fr/590608/1/Xu%202018%2C%20Nature%20Com-The%20citrus%20rhizosphere%20microbiome.pdf |
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