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Different bacterial populations associated with the roots and rhizosphere of rice incorporate plant-derived carbon

Different bacterial populations associated with the roots and rhizosphere of rice incorporate plant-derived carbon
Different bacterial populations associated with the roots and rhizosphere of rice incorporate plant-derived carbon
Microorganisms associated with the roots of plants have an important function in plant growth and in soil carbon sequestration. Rice cultivation is the second largest anthropogenic source of atmospheric CH4, which is a significant greenhouse gas. Up to 60% of fixed carbon formed by photosynthesis in plants is transported below ground, much of it as root exudates that are consumed by microorganisms. A stable isotope probing (SIP) approach was used to identify microorganisms using plant carbon in association with the roots and rhizosphere of rice plants. Rice plants grown in Italian paddy soil were labeled with 13CO2 for 10 days. RNA was extracted from root material and rhizosphere soil and subjected to cesium gradient centrifugation followed by 16S rRNA amplicon pyrosequencing to identify microorganisms enriched with 13C. Thirty operational taxonomic units (OTUs) were labeled and mostly corresponded to Proteobacteria (13 OTUs) and Verrucomicrobia (8 OTUs). These OTUs were affiliated with the Alphaproteobacteria, Betaproteobacteria, and Deltaproteobacteria classes of Proteobacteria and the “Spartobacteria” and Opitutae classes of Verrucomicrobia. In general, different bacterial groups were labeled in the root and rhizosphere, reflecting different physicochemical characteristics of these locations. The labeled OTUs in the root compartment corresponded to a greater proportion of the 16S rRNA sequences (∼20%) than did those in the rhizosphere (∼4%), indicating that a proportion of the active microbial community on the roots greater than that in the rhizosphere incorporated plant-derived carbon within the time frame of the experiment.
0099-2240
2244-2253
Hernández, Marcela
e73477e7-cf3e-4f50-97c8-4494c5b05cd0
Dumont, Marc G.
afd9f08f-bdbb-4cee-b792-1a7f000ee511
Yuan, Quan
43e2dac9-28c1-4214-a95d-45e8594106f2
Conrad, Ralf
88f7ac36-9f3b-415c-8bc3-e5f338738d6b
Hernández, Marcela
e73477e7-cf3e-4f50-97c8-4494c5b05cd0
Dumont, Marc G.
afd9f08f-bdbb-4cee-b792-1a7f000ee511
Yuan, Quan
43e2dac9-28c1-4214-a95d-45e8594106f2
Conrad, Ralf
88f7ac36-9f3b-415c-8bc3-e5f338738d6b

Hernández, Marcela, Dumont, Marc G., Yuan, Quan and Conrad, Ralf (2015) Different bacterial populations associated with the roots and rhizosphere of rice incorporate plant-derived carbon. Applied and Environmental Microbiology, 81 (6), 2244-2253. (doi:10.1128/AEM.03209-14). (PMID:25616793)

Record type: Article

Abstract

Microorganisms associated with the roots of plants have an important function in plant growth and in soil carbon sequestration. Rice cultivation is the second largest anthropogenic source of atmospheric CH4, which is a significant greenhouse gas. Up to 60% of fixed carbon formed by photosynthesis in plants is transported below ground, much of it as root exudates that are consumed by microorganisms. A stable isotope probing (SIP) approach was used to identify microorganisms using plant carbon in association with the roots and rhizosphere of rice plants. Rice plants grown in Italian paddy soil were labeled with 13CO2 for 10 days. RNA was extracted from root material and rhizosphere soil and subjected to cesium gradient centrifugation followed by 16S rRNA amplicon pyrosequencing to identify microorganisms enriched with 13C. Thirty operational taxonomic units (OTUs) were labeled and mostly corresponded to Proteobacteria (13 OTUs) and Verrucomicrobia (8 OTUs). These OTUs were affiliated with the Alphaproteobacteria, Betaproteobacteria, and Deltaproteobacteria classes of Proteobacteria and the “Spartobacteria” and Opitutae classes of Verrucomicrobia. In general, different bacterial groups were labeled in the root and rhizosphere, reflecting different physicochemical characteristics of these locations. The labeled OTUs in the root compartment corresponded to a greater proportion of the 16S rRNA sequences (∼20%) than did those in the rhizosphere (∼4%), indicating that a proportion of the active microbial community on the roots greater than that in the rhizosphere incorporated plant-derived carbon within the time frame of the experiment.

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More information

Accepted/In Press date: 8 January 2015
e-pub ahead of print date: 23 January 2015
Published date: 15 March 2015
Organisations: Biological Sciences, Centre for Biological Sciences

Identifiers

Local EPrints ID: 387928
URI: http://eprints.soton.ac.uk/id/eprint/387928
ISSN: 0099-2240
PURE UUID: 0dc27e9a-599c-40f3-b783-43651afbec42
ORCID for Marc G. Dumont: ORCID iD orcid.org/0000-0002-7347-8668

Catalogue record

Date deposited: 09 Jun 2016 11:48
Last modified: 15 Mar 2024 03:53

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Contributors

Author: Marcela Hernández
Author: Marc G. Dumont ORCID iD
Author: Quan Yuan
Author: Ralf Conrad

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