Rhizosphere microbiome assemblage is affected by plant development

被引:972
作者
Chaparro, Jacqueline M. [1 ]
Badri, Dayakar V. [1 ]
Vivanco, Jorge M. [1 ]
机构
[1] Colorado State Univ, Dept Hort & Landscape Architecture, Ctr Rhizosphere Biol, Ft Collins, CO 80523 USA
基金
美国国家科学基金会;
关键词
Arabidopsis thaliana; development; microbiome; rhizosphere; root exudation; GROWTH-PROMOTING RHIZOBACTERIA; BACTERIAL COMMUNITY STRUCTURE; AGE-RELATED RESISTANCE; ARABIDOPSIS-THALIANA; PHYLUM ACIDOBACTERIA; MEDICAGO-TRUNCATULA; FUNGAL COMMUNITIES; EXUDATE COMPONENTS; NITROGEN-FIXATION; ROOT EXUDATION;
D O I
10.1038/ismej.2013.196
中图分类号
Q14 [生态学(生物生态学)];
学科分类号
071012 ; 0713 ;
摘要
There is a concerted understanding of the ability of root exudates to influence the structure of rhizosphere microbial communities. However, our knowledge of the connection between plant development, root exudation and microbiome assemblage is limited. Here, we analyzed the structure of the rhizospheric bacterial community associated with Arabidopsis at four time points corresponding to distinct stages of plant development: seedling, vegetative, bolting and flowering. Overall, there were no significant differences in bacterial community structure, but we observed that the microbial community at the seedling stage was distinct from the other developmental time points. At a closer level, phylum such as Acidobacteria, Actinobacteria, Bacteroidetes, Cyanobacteria and specific genera within those phyla followed distinct patterns associated with plant development and root exudation. These results suggested that the plant can select a subset of microbes at different stages of development, presumably for specific functions. Accordingly, metatranscriptomics analysis of the rhizosphere microbiome revealed that 81 unique transcripts were significantly (P<0.05) expressed at different stages of plant development. For instance, genes involved in streptomycin synthesis were significantly induced at bolting and flowering stages, presumably for disease suppression. We surmise that plants secrete blends of compounds and specific phytochemicals in the root exudates that are differentially produced at distinct stages of development to help orchestrate rhizosphere microbiome assemblage.
引用
收藏
页码:790 / 803
页数:14
相关论文
共 120 条
[1]   Corngrass1 of maize (Zea mays L) delays development of adult plant resistance to common rust (Puccinia sorghi Schw) and European corn borer (Ostrinia nubilalis hubner) [J].
Abedon, BG ;
Tracy, WF .
JOURNAL OF HEREDITY, 1996, 87 (03) :219-223
[2]   Salicylic Acid and its Function in Plant Immunity [J].
An, Chuanfu ;
Mou, Zhonglin .
JOURNAL OF INTEGRATIVE PLANT BIOLOGY, 2011, 53 (06) :412-428
[3]   Potential of Rhizobium and Bradyrhizobium species as plant growth promoting rhizobacteria on non-legumes:: Effect on radishes (Raphanus sativus L.) [J].
Antoun, H ;
Beauchamp, CJ ;
Goussard, N ;
Chabot, R ;
Lalande, R .
PLANT AND SOIL, 1998, 204 (01) :57-67
[4]   METAGENassist: a comprehensive web server for comparative metagenomics [J].
Arndt, David ;
Xia, Jianguo ;
Liu, Yifeng ;
Zhou, You ;
Guo, An Chi ;
Cruz, Joseph A. ;
Sinelnikov, Igor ;
Budwill, Karen ;
Nesbo, Camilla L. ;
Wishart, David S. .
NUCLEIC ACIDS RESEARCH, 2012, 40 (W1) :W88-W95
[5]   Application of Natural Blends of Phytochemicals Derived from the Root Exudates of Arabidopsis to the Soil Reveal That Phenolic-related Compounds Predominantly Modulate the Soil Microbiome [J].
Badri, Dayakar V. ;
Chaparro, Jacqueline M. ;
Zhang, Ruifu ;
Shen, Qirong ;
Vivanco, Jorge M. .
JOURNAL OF BIOLOGICAL CHEMISTRY, 2013, 288 (07) :4502-4512
[6]   Potential impact of soil microbiomes on the leaf metabolome and on herbivore feeding behavior [J].
Badri, Dayakar V. ;
Zolla, Gaston ;
Bakker, Matthew G. ;
Manter, Daniel K. ;
Vivanco, Jorge M. .
NEW PHYTOLOGIST, 2013, 198 (01) :264-273
[7]   An ABC Transporter Mutation Alters Root Exudation of Phytochemicals That Provoke an Overhaul of Natural Soil Microbiota [J].
Badri, Dayakar V. ;
Quintana, Naira ;
El Kassis, Elie G. ;
Kim, Hye Kyong ;
Choi, Young Hae ;
Sugiyama, Akifumi ;
Verpoorte, Robert ;
Martinoia, Enrico ;
Manter, Daniel K. ;
Vivanco, Jorge M. .
PLANT PHYSIOLOGY, 2009, 151 (04) :2006-2017
[8]  
Badri DV, 2009, PLANT CELL ENVIRON, V32, P666, DOI [10.1111/j.1365-3040.2008.01926.x, 10.1111/j.1365-3040.2009.01926.x]
[9]   GeoChip-based analysis of the functional gene diversity and metabolic potential of soil microbial communities of mangroves [J].
Bai, Shijie ;
Li, Jiangwei ;
He, Zhili ;
Van Nostrand, Joy D. ;
Tian, Yun ;
Lin, Guanghui ;
Zhou, Jizhong ;
Zheng, Tianling .
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY, 2013, 97 (15) :7035-7048
[10]   The role of root exudates in rhizosphere interations with plants and other organisms [J].
Bais, Harsh P. ;
Weir, Tiffany L. ;
Perry, Laura G. ;
Gilroy, Simon ;
Vivanco, Jorge M. .
ANNUAL REVIEW OF PLANT BIOLOGY, 2006, 57 :233-266