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Title: The soil microbiome influences grapevine-associated microbiota

Abstract

Grapevine is a well-studied, economically relevant crop, whose associated bacteria could influence its organoleptic properties. In this study, the spatial and temporal dynamics of the bacterial communities associated with grapevine organs (leaves, flowers, grapes, and roots) and soils were characterized over two growing seasons to determine the influence of vine cultivar, edaphic parameters, vine developmental stage (dormancy, flowering, preharvest), and vineyard. Belowground bacterial communities differed significantly from those aboveground, and yet the communities associated with leaves, flowers, and grapes shared a greater proportion of taxa with soil communities than with each other, suggesting that soil may serve as a bacterial reservoir. A subset of soil microorganisms, including root colonizers significantly enriched in plant growth-promoting bacteria and related functional genes, were selected by the grapevine. In addition to plant selective pressure, the structure of soil and root microbiota was significantly influenced by soil pH and C:N ratio, and changes in leaf- and grape-associated microbiota were correlated with soil carbon and showed interannual variation even at small spatial scales. Diazotrophic bacteria, e.g., Rhizobiaceae and Bradyrhizobium spp., were significantly more abundant in soil samples and root samples of specific vineyards. Vine-associated microbial assemblages were influenced by myriad factors that shape their composition andmore » structure, but the majority of organ-associated taxa originated in the soil, and their distribution reflected the influence of highly localized biogeographic factors and vineyard management.« less

Authors:
 [1];  [2];  [3];  [4];  [2];  [3];  [5];  [5];  [6];  [4];  [4];  [7]
  1. Argonne National Lab. (ANL), Argonne, IL (United States); Basque Foundation for Science, Bilbao (Spain)
  2. Argonne National Lab. (ANL), Argonne, IL (United States); Univ. of Chicago, Chicago, IL (United States)
  3. Univ. of Chicago, Chicago, IL (United States)
  4. FMC Corporation, Research Triangle Park, NC (United States)
  5. Univ. of California, Davis, CA (United States)
  6. Sparkling Pointe, Southold, NY (United States)
  7. Argonne National Lab. (ANL), Argonne, IL (United States); Univ. of Chicago, Chicago, IL (United States); Marine Biological Lab., Woods Hole, MA (United States); Zhejiang Univ., Hangzhou (China)
Publication Date:
Research Org.:
Argonne National Lab. (ANL), Argonne, IL (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
1214587
Grant/Contract Number:
AC02-06CH11357
Resource Type:
Journal Article: Accepted Manuscript
Journal Name:
mBio (Online)
Additional Journal Information:
Journal Name: mBio (Online); Journal Volume: 6; Journal Issue: 2; Journal ID: ISSN 2150-7511
Publisher:
American Society for Microbiology
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES

Citation Formats

Zarraonaindia, Iratxe, Owens, Sarah M., Weisenhorn, Pamela, West, Kristin, Hampton-Marcell, Jarrad, Lax, Simon, Bokulich, Nicholas A., Mills, David A., Martin, Gilles, Taghavi, Safiyh, van der Lelie, Daniel, and Gilbert, Jack A.. The soil microbiome influences grapevine-associated microbiota. United States: N. p., 2015. Web. doi:10.1128/mBio.02527-14.
Zarraonaindia, Iratxe, Owens, Sarah M., Weisenhorn, Pamela, West, Kristin, Hampton-Marcell, Jarrad, Lax, Simon, Bokulich, Nicholas A., Mills, David A., Martin, Gilles, Taghavi, Safiyh, van der Lelie, Daniel, & Gilbert, Jack A.. The soil microbiome influences grapevine-associated microbiota. United States. doi:10.1128/mBio.02527-14.
Zarraonaindia, Iratxe, Owens, Sarah M., Weisenhorn, Pamela, West, Kristin, Hampton-Marcell, Jarrad, Lax, Simon, Bokulich, Nicholas A., Mills, David A., Martin, Gilles, Taghavi, Safiyh, van der Lelie, Daniel, and Gilbert, Jack A.. Tue . "The soil microbiome influences grapevine-associated microbiota". United States. doi:10.1128/mBio.02527-14. https://www.osti.gov/servlets/purl/1214587.
@article{osti_1214587,
title = {The soil microbiome influences grapevine-associated microbiota},
author = {Zarraonaindia, Iratxe and Owens, Sarah M. and Weisenhorn, Pamela and West, Kristin and Hampton-Marcell, Jarrad and Lax, Simon and Bokulich, Nicholas A. and Mills, David A. and Martin, Gilles and Taghavi, Safiyh and van der Lelie, Daniel and Gilbert, Jack A.},
abstractNote = {Grapevine is a well-studied, economically relevant crop, whose associated bacteria could influence its organoleptic properties. In this study, the spatial and temporal dynamics of the bacterial communities associated with grapevine organs (leaves, flowers, grapes, and roots) and soils were characterized over two growing seasons to determine the influence of vine cultivar, edaphic parameters, vine developmental stage (dormancy, flowering, preharvest), and vineyard. Belowground bacterial communities differed significantly from those aboveground, and yet the communities associated with leaves, flowers, and grapes shared a greater proportion of taxa with soil communities than with each other, suggesting that soil may serve as a bacterial reservoir. A subset of soil microorganisms, including root colonizers significantly enriched in plant growth-promoting bacteria and related functional genes, were selected by the grapevine. In addition to plant selective pressure, the structure of soil and root microbiota was significantly influenced by soil pH and C:N ratio, and changes in leaf- and grape-associated microbiota were correlated with soil carbon and showed interannual variation even at small spatial scales. Diazotrophic bacteria, e.g., Rhizobiaceae and Bradyrhizobium spp., were significantly more abundant in soil samples and root samples of specific vineyards. Vine-associated microbial assemblages were influenced by myriad factors that shape their composition and structure, but the majority of organ-associated taxa originated in the soil, and their distribution reflected the influence of highly localized biogeographic factors and vineyard management.},
doi = {10.1128/mBio.02527-14},
journal = {mBio (Online)},
number = 2,
volume = 6,
place = {United States},
year = {Tue Mar 24 00:00:00 EDT 2015},
month = {Tue Mar 24 00:00:00 EDT 2015}
}

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