Bacterial communities in the rhizosphere of Vitis vinifera L. cultivated under distinct agricultural practices in Argentina

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• 作者：A. D. Vega-Avila (1) (2)
  T. Gumiere (1)
  P. A. M. Andrade (1)
  J. E. Lima-Perim (1)
  A. Durrer (1)
  M. Baigori (3)
  F. Vazquez (2)
  F. D. Andreote (1)
  
  1. Department of Soil Science ; 鈥淟uiz de Queiroz鈥?College of Agriculture ; University of S茫o Paulo (ESALQ/USP) ; Av. Padua Dias ; 11 ; Piracicaba ; Brazil
  2. Faculty of Engineering ; Institute of Biotechnology (IBT) ; University National of San Juan ; San Juan ; Argentina
  3. PROIMI ; Industrial Microbiology Processes (CONICET) ; San Miguel de Tucum谩n ; Tucum谩n ; Argentina
  
• 关键词：Bacterial communities ; Cultivation ; independent analysis ; Plant鈥搈icrobe interactions ; Rhizosphere microbiome ; Organic management
• 刊名：Antonie van Leeuwenhoek
• 出版年：2015
• 出版时间：February 2015
• 年：2015
• 卷：107
• 期：2
• 页码：575-588
• 全文大小：1,021 KB
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• 刊物类别：Biomedical and Life Sciences
• 刊物主题：Life Sciences
  Microbiology
  Medical Microbiology
  Plant Sciences
  Soil Science and Conservation
  
• 出版者：Springer Netherlands
• ISSN：1572-9699

文摘

Plants interact with a myriad of microbial cells in the rhizosphere, an environment that is considered to be important for plant development. However, the differential structuring of rhizosphere microbial communities due to plant cultivation under differential agricultural practices remains to be described for most plant species. Here we describe the rhizosphere microbiome of grapevine cultivated under conventional and organic practices, using a combination of cultivation-independent approaches. The quantification of bacterial 16S rRNA and nifH genes, by quantitative PCR (qPCR), revealed similar amounts of these genes in the rhizosphere in both vineyards. PCR-DGGE was used to detect differences in the structure of bacterial communities, including both the complete whole communities and specific fractions, such as Alphaproteobacteria, Betaproteobacteria, Actinobacteria, and those harboring the nitrogen-fixing related gene nifH. When analyzed by a multivariate approach (redundancy analysis), the shifts observed in the bacterial communities were poorly explained by variations in the physical and chemical characteristics of the rhizosphere. These approaches were complemented by high-throughput sequencing (67,830 sequences) based on the V6 region of the 16S rRNA gene, identifying the major bacterial groups present in the rhizosphere of grapevines: Proteobacteria, Actinobacteria, Firmicutes, Bacteriodetes, Acidobacteria, Cloroflexi, Verrucomicrobia and Planctomycetes, which occur in distinct proportions in the rhizosphere from each vineyard. The differences might be related to the selection of plant metabolism upon distinct reservoirs of microbial cells found in each vineyard. The results fill a gap in the knowledge of the rhizosphere of grapevines and also show distinctions in these bacterial communities due to agricultural practices.