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; Helvecio D. Coletta-Filho; Jaime Cubero; Xiaoling Deng; Veronica Ancona; Zhanjun Lu; Balian Zhong; M. Caroline Roper; Nieves Capote; Vittoria Catara; Gerhard Pietersen; Christian Verniere; Abdullah M. Al-Sadi; Lei Li; Fan Yang; Xun Xu; Jian Wang; Huanming Yang; Tao Jin; Nian Wang

doi:10.1038/s41467-018-07343-2

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The structure and function of the global citrus rhizosphere microbiome

Article de revue

Avec comité de lecture

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, Helvecio D. Coletta-Filho, …

Nature communications, Vol.9(1), pp.4894-10

20/11/2018

DOI: https://doi.org/10.1038/s41467-018-07343-2

PMID: 30459421

Résumé

Multidisciplinary Sciences

Science & Technology

Science & Technology - Other Topics

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.

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Titre: The structure and function of the global citrus rhizosphere microbiome
Créateurs - sans rôle: Jin Xu - Univ Florida, Inst Food & Agr Sci, Dept Microbiol & Cell Sci, Citrus Res & Educ Ctr, Lake Alfred, FL 33885 USA
Yunzeng Zhang - Univ Florida, Inst Food & Agr Sci, Dept Microbiol & Cell Sci, Citrus Res & Educ Ctr, Lake Alfred, FL 33885 USA
Pengfan Zhang - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Pankaj Trivedi - Colorado State Univ, Dept Bioagr Sci & Pest Management, Ft Collins, CO 80523 USA
Nadia Riera - Univ Florida, Inst Food & Agr Sci, Dept Microbiol & Cell Sci, Citrus Res & Educ Ctr, Lake Alfred, FL 33885 USA
Yayu Wang - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Xin Liu - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Guangyi Fan - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Jiliang Tang - Guangxi Univ, Nanning 530004, Peoples R China
Helvecio D. Coletta-Filho - CCSM, Inst Agron, IAC Ctr Citricultura Sylvio Moreira, BR-13490 Cordeiropolis, SP, Brazil
Jaime Cubero - Inst Nacl Invest & Tecnol Agr & Alimentaria INIA, Dept Plant Protect, Madrid 28040, Spain
Xiaoling Deng - South China Agr Univ, Dept Plant Pathol, Guangzhou 510642, Peoples R China
Veronica Ancona - Texas A&M Univ, Kingsville Citrus Ctr, Weslaco, TX 78599 USA
Zhanjun Lu - Gannan Normal Univ, Natl Navel Orange Engn Res Ctr, Ganzhou 341000, Jiangxi, Peoples R China
Balian Zhong - Gannan Normal Univ, Natl Navel Orange Engn Res Ctr, Ganzhou 341000, Jiangxi, Peoples R China
M. Caroline Roper - Univ Calif Riverside, Riverside, CA 92521 USA
Nieves Capote - IFAPA Las Torres, Seville 41200, Spain
Vittoria Catara - Univ Catania, Dipartimento Agr Alimentaz & Ambiente, Via Santa Sofia 100, I-95123 Catania, Italy
Gerhard Pietersen - Univ Stellenbosch, Dept Genet, ZA-7600 Stellenbosch, South Africa
Christian Verniere - CIRAD, UMR BGPI, F-34398 Montpellier, France
Abdullah M. Al-Sadi - Sultan Qaboos Univ, Dept Crop Sci, Muscat 123, Oman
Lei Li - Univ Florida, Inst Food & Agr Sci, Dept Microbiol & Cell Sci, Citrus Res & Educ Ctr, Lake Alfred, FL 33885 USA
Fan Yang - BGI Shenzhen, China Natl GeneBank, Shenzhen 518083, Guangdong, Peoples R China
Xun Xu - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Jian Wang - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Huanming Yang - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Tao Jin - BGI Shenzhen, Shenzhen 518083, Guangdong, Peoples R China
Nian Wang - Univ Florida, Inst Food & Agr Sci, Dept Microbiol & Cell Sci, Citrus Res & Educ Ctr, Lake Alfred, FL 33885 USA
Détails de publication: Nature communications, Vol.9(1), pp.4894-10
Éditeur: NATURE PORTFOLIO
Nombre de pages: 10
Note de subvention: Florida Citrus Initiative
Identifiants: 99148047609311
Unité académique: Plant Health Institute of Montpellier - PHIM
Langue: English
Type de ressource: Journal article