Dataset Information

Phylogeny and functions of bacterial communities associated with field-grown rice shoots.

ABSTRACT: Metagenomic analysis was applied to bacterial communities associated with the shoots of two field-grown rice cultivars, Nipponbare and Kasalath. In both cultivars, shoot microbiomes were dominated by Alphaproteobacteria (51-52%), Actinobacteria (11-15%), Gammaproteobacteria (9-10%), and Betaproteobacteria (4-10%). Compared with other rice microbiomes (root, rhizosphere, and phyllosphere) in public databases, the shoot microbiomes harbored abundant genes for C1 compound metabolism and 1-aminocyclopropane-1-carboxylate catabolism, but fewer genes for indole-3-acetic acid production and nitrogen fixation. Salicylate hydroxylase was detected in all microbiomes, except the rhizosphere. These genomic features facilitate understanding of plant-microbe interactions and biogeochemical metabolism in rice shoots.

SUBMITTER: Okubo T

PROVIDER: S-EPMC4159046 | biostudies-literature | 2014 Sep

REPOSITORIES: biostudies-literature

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Phylogeny and functions of bacterial communities associated with field-grown rice shoots.

Okubo Takashi T Ikeda Seishi S Sasaki Kazuhiro K Ohshima Kenshiro K Hattori Masahira M Sato Tadashi T Minamisawa Kiwamu K

Microbes and environments 20140812 3

Metagenomic analysis was applied to bacterial communities associated with the shoots of two field-grown rice cultivars, Nipponbare and Kasalath. In both cultivars, shoot microbiomes were dominated by Alphaproteobacteria (51-52%), Actinobacteria (11-15%), Gammaproteobacteria (9-10%), and Betaproteobacteria (4-10%). Compared with other rice microbiomes (root, rhizosphere, and phyllosphere) in public databases, the shoot microbiomes harbored abundant genes for C1 compound metabolism and 1-aminocycl ...[more]

PMID: 25130883

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Dataset Information

Phylogeny and functions of bacterial communities associated with field-grown rice shoots.

Publications

Phylogeny and functions of bacterial communities associated with field-grown rice shoots.

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