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 language | English |
|---|---|
| Pages (from-to) | 329-332 |
| Number of pages | 4 |
| Journal | Microbes and Environments |
| Volume | 29 |
| Issue number | 3 |
| DOIs | |
| Publication status | Published - 2014 Sep 17 |
| Externally published | Yes |
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Keywords
- Metagenomics
- Methanol
- Plant hormone
- Rice
- Shoot
ASJC Scopus subject areas
- Plant Science
- Soil Science
- Ecology, Evolution, Behavior and Systematics
Cite this
Phylogeny and functions of bacterial communities associated with field-grown rice shoots. / Okubo, Takashi; Ikeda, Seishi; Sasaki, Kazuhiro; Ohshima, Kenshiro; Hattori, Masahira; Sato, Tadashi; Minamisawa, Kiwamu.
In: Microbes and Environments, Vol. 29, No. 3, 17.09.2014, p. 329-332.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Phylogeny and functions of bacterial communities associated with field-grown rice shoots
AU - Okubo, Takashi
AU - Ikeda, Seishi
AU - Sasaki, Kazuhiro
AU - Ohshima, Kenshiro
AU - Hattori, Masahira
AU - Sato, Tadashi
AU - Minamisawa, Kiwamu
PY - 2014/9/17
Y1 - 2014/9/17
N2 - 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.
AB - 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.
KW - Metagenomics
KW - Methanol
KW - Plant hormone
KW - Rice
KW - Shoot
UR - http://www.scopus.com/inward/record.url?scp=84908068449&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84908068449&partnerID=8YFLogxK
U2 - 10.1264/jsme2.ME14077
DO - 10.1264/jsme2.ME14077
M3 - Article
C2 - 25130883
AN - SCOPUS:84908068449
VL - 29
SP - 329
EP - 332
JO - Microbes and Environments
JF - Microbes and Environments
SN - 1342-6311
IS - 3
ER -