The structure and function of the global citrus rhizosphere microbiome

Jin Xu, Yunzeng Zhang, Pengfan Zhang, Pankaj Trivedi, Nadia Riera, Yayu Wang, Xin Liu, Guangyi Fan, Jiliang Tang, Helvécio D. Coletta-Filho, Jaime Cubero, Xiaoling Deng, Veronica Ancona, Zhanjun Lu, Balian Zhong, M. Caroline Roper, Nieves Capote, Vittoria Catara, Gerhard Pietersen, Christian Vernière, Abdullah M. Al-Sadi, Lei Li, Fan Yang, Xun Xu, Jian Wang, Huanming Yang, Tao Jin () and Nian Wang ()
Additional contact information
Jin Xu: University of Florida
Yunzeng Zhang: University of Florida
Pengfan Zhang: BGI-Shenzhen
Pankaj Trivedi: Colorado State University
Nadia Riera: University of Florida
Yayu Wang: BGI-Shenzhen
Xin Liu: BGI-Shenzhen
Guangyi Fan: BGI-Shenzhen
Jiliang Tang: Guangxi University
Helvécio D. Coletta-Filho: CCSM
Jaime Cubero: Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria (INIA)
Xiaoling Deng: South China Agricultural University
Veronica Ancona: Texas A&M University-Kingsville Citrus Center
Zhanjun Lu: Gannan Normal University
Balian Zhong: Gannan Normal University
M. Caroline Roper: University of California
Nieves Capote: IFAPA Las Torres
Vittoria Catara: University of Catania
Gerhard Pietersen: University of Stellenbosch
Christian Vernière: CIRAD, UMR BGPI
Abdullah M. Al-Sadi: Sultan Qaboos University
Lei Li: University of Florida
Fan Yang: BGI-Shenzhen
Xun Xu: BGI-Shenzhen
Jian Wang: BGI-Shenzhen
Huanming Yang: BGI-Shenzhen
Tao Jin: BGI-Shenzhen
Nian Wang: University of Florida

Nature Communications, 2018, vol. 9, issue 1, 1-10

Abstract: Abstract 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.

Date: 2018
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Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:9:y:2018:i:1:d:10.1038_s41467-018-07343-2

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DOI: 10.1038/s41467-018-07343-2

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