Activity and composition of methanotrophic bacterial communities in planted rice soil studied by flux measurements, analyses of pmoA gene and stable isotope probing of phospholipid fatty acids.

2.50
Hdl Handle:
http://hdl.handle.net/10033/23952
Title:
Activity and composition of methanotrophic bacterial communities in planted rice soil studied by flux measurements, analyses of pmoA gene and stable isotope probing of phospholipid fatty acids.
Authors:
Shrestha, Minita; Abraham, Wolf-Rainer ( 0000-0002-2850-2649 ) ; Shrestha, Pravin Malla; Noll, Matthias; Conrad, Ralf
Abstract:
Methanotrophs in the rhizosphere of rice field ecosystems attenuate the emissions of CH(4) into the atmosphere and thus play an important role for the global cycle of this greenhouse gas. Therefore, we measured the activity and composition of the methanotrophic community in the rhizosphere of rice microcosms. Methane oxidation was determined by measuring the CH(4) flux in the presence and absence of difluoromethane as a specific inhibitor for methane oxidation. Methane oxidation started on day 24 and reached the maximum on day 32 after transplantation. The total methanotrophic community was analysed by terminal restriction fragment length polymorphism (T-RFLP) and cloning/sequencing of the pmoA gene, which encodes a subunit of particulate methane monooxygenase. The metabolically active methanotrophic community was analysed by stable isotope probing of microbial phospholipid fatty acids (PLFA-SIP) using (13)C-labelled CH(4) directly added to the rhizospheric region. Rhizospheric soil and root samples were collected after exposure to (13)CH(4) for 8 and 18 days. Both T-RFLP/cloning and PLFA-SIP approaches showed that type I and type II methanotrophic populations changed over time with respect to activity and population size in the rhizospheric soil and on the rice roots. However, type I methanotrophs were more active than type II methanotrophs at both time points indicating they were of particular importance in the rhizosphere. PLFA-SIP showed that the active methanotrophic populations exhibit a pronounced spatial and temporal variation in rice microcosms.
Affiliation:
Max-Planck-Institut für terrestrische Mikrobiologie, Karl-von-Frisch-Strasse, D-35043, Marburg, Germany.
Citation:
Activity and composition of methanotrophic bacterial communities in planted rice soil studied by flux measurements, analyses of pmoA gene and stable isotope probing of phospholipid fatty acids. 2008, 10 (2):400-12 Environ. Microbiol.
Journal:
Environmental microbiology
Issue Date:
Feb-2008
URI:
http://hdl.handle.net/10033/23952
DOI:
10.1111/j.1462-2920.2007.01462.x
PubMed ID:
18177369
Type:
Article
Language:
en
ISSN:
1462-2920
Appears in Collections:
publications of the research group chemical microbiology (CMIK)

Full metadata record

DC FieldValue Language
dc.contributor.authorShrestha, Minita-
dc.contributor.authorAbraham, Wolf-Rainer-
dc.contributor.authorShrestha, Pravin Malla-
dc.contributor.authorNoll, Matthias-
dc.contributor.authorConrad, Ralf-
dc.date.accessioned2008-04-22T09:10:50Z-
dc.date.available2008-04-22T09:10:50Z-
dc.date.issued2008-02-
dc.identifier.citationActivity and composition of methanotrophic bacterial communities in planted rice soil studied by flux measurements, analyses of pmoA gene and stable isotope probing of phospholipid fatty acids. 2008, 10 (2):400-12 Environ. Microbiol.en
dc.identifier.issn1462-2920-
dc.identifier.pmid18177369-
dc.identifier.doi10.1111/j.1462-2920.2007.01462.x-
dc.identifier.urihttp://hdl.handle.net/10033/23952-
dc.description.abstractMethanotrophs in the rhizosphere of rice field ecosystems attenuate the emissions of CH(4) into the atmosphere and thus play an important role for the global cycle of this greenhouse gas. Therefore, we measured the activity and composition of the methanotrophic community in the rhizosphere of rice microcosms. Methane oxidation was determined by measuring the CH(4) flux in the presence and absence of difluoromethane as a specific inhibitor for methane oxidation. Methane oxidation started on day 24 and reached the maximum on day 32 after transplantation. The total methanotrophic community was analysed by terminal restriction fragment length polymorphism (T-RFLP) and cloning/sequencing of the pmoA gene, which encodes a subunit of particulate methane monooxygenase. The metabolically active methanotrophic community was analysed by stable isotope probing of microbial phospholipid fatty acids (PLFA-SIP) using (13)C-labelled CH(4) directly added to the rhizospheric region. Rhizospheric soil and root samples were collected after exposure to (13)CH(4) for 8 and 18 days. Both T-RFLP/cloning and PLFA-SIP approaches showed that type I and type II methanotrophic populations changed over time with respect to activity and population size in the rhizospheric soil and on the rice roots. However, type I methanotrophs were more active than type II methanotrophs at both time points indicating they were of particular importance in the rhizosphere. PLFA-SIP showed that the active methanotrophic populations exhibit a pronounced spatial and temporal variation in rice microcosms.en
dc.language.isoenen
dc.subject.meshCarbon Isotopesen
dc.subject.meshEcosystemen
dc.subject.meshFatty Acidsen
dc.subject.meshMethaneen
dc.subject.meshMethylococcaceaeen
dc.subject.meshMethylocystaceaeen
dc.subject.meshMolecular Sequence Dataen
dc.subject.meshOryza sativaen
dc.subject.meshOxidation-Reductionen
dc.subject.meshOxygenasesen
dc.subject.meshPhospholipidsen
dc.subject.meshPhylogenyen
dc.subject.meshPlant Rootsen
dc.subject.meshPolymorphism, Restriction Fragment Lengthen
dc.subject.meshSequence Analysis, DNAen
dc.subject.meshSoil Microbiologyen
dc.titleActivity and composition of methanotrophic bacterial communities in planted rice soil studied by flux measurements, analyses of pmoA gene and stable isotope probing of phospholipid fatty acids.en
dc.typeArticleen
dc.contributor.departmentMax-Planck-Institut für terrestrische Mikrobiologie, Karl-von-Frisch-Strasse, D-35043, Marburg, Germany.en
dc.identifier.journalEnvironmental microbiologyen
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