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

Takashi Okubo, Seishi Ikeda, Kazuhiro Sasaki, Kenshiro Ohshima, Masahira Hattori, Tadashi Sato, Kiwamu Minamisawa

Research output: Contribution to journalArticle

17 Citations (Scopus)

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.

Original languageEnglish
Pages (from-to)329-332
Number of pages4
JournalMicrobes and Environments
Volume29
Issue number3
DOIs
Publication statusPublished - 2014 Sep 17
Externally publishedYes

Keywords

  • Metagenomics
  • Methanol
  • Plant hormone
  • Rice
  • Shoot

ASJC Scopus subject areas

  • Plant Science
  • Soil Science
  • Ecology, Evolution, Behavior and Systematics

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    Okubo, T., Ikeda, S., Sasaki, K., Ohshima, K., Hattori, M., Sato, T., & Minamisawa, K. (2014). Phylogeny and functions of bacterial communities associated with field-grown rice shoots. Microbes and Environments, 29(3), 329-332. https://doi.org/10.1264/jsme2.ME14077