Distribution of putative denitrifying methane oxidizing bacteria in sediment of a freshwater lake, Lake Biwa

Methane oxidation coupled to denitrification is mediated by ‘Candidatus Methylomirabilis oxyfera’, which belongs to the candidate phylum NC10. The distribution of putative denitrifying methane-oxidizing bacteria related to “M. oxyfera” was investigated in a freshwater lake, Lake Biwa, Japan. In the...

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Vydané v:Systematic and applied microbiology Ročník 35; číslo 4; s. 233 - 238
Hlavní autori: Kojima, Hisaya, Tsutsumi, Masazumi, Ishikawa, Kanako, Iwata, Tomoya, Mußmann, Marc, Fukui, Manabu
Médium: Journal Article
Jazyk:English
Vydavateľské údaje: München Elsevier GmbH 01.06.2012
Elsevier
Predmet:
Abundance
Animal, plant and microbial ecology
bacteria
Biological and medical sciences
Cluster Analysis
Deep water
Denaturing Gradient Gel Electrophoresis
Denitrification
DNA libraries
DNA, Bacterial - chemistry
DNA, Bacterial - genetics
DNA, Ribosomal - chemistry
DNA, Ribosomal - genetics
Fluorescence in situ hybridization
Fresh Water - microbiology
freshwater
Freshwater environments
Freshwater lake
Fundamental and applied biological sciences. Psychology
Gel electrophoresis
genes
Geologic Sediments - microbiology
Habitat
habitats
Horizontal distribution
In Situ Hybridization, Fluorescence
Japan
Lakes
Methane
Methane oxidation
Methanotrophic bacteria
methanotrophs
Methylococcaceae - classification
Methylococcaceae - isolation & purification
Methylococcaceae - metabolism
Microbial ecology
Molecular Sequence Data
NC10 bacteria
Oxidation
Phylogeny
phylotype
PmoA protein
Polymerase chain reaction
Proteobacteria
quantitative polymerase chain reaction
Real-Time Polymerase Chain Reaction
ribosomal RNA
RNA, Ribosomal, 16S - genetics
rRNA 16S
Sediment
Sediments
Sequence Analysis, DNA
Various environments (extraatmospheric space, air, water)
Japan
Denitrification
Freshwater lake
Sediment
Methane oxidation
NC10 bacteria
Freshwater environment
Methane
Methanotrophy
Bacteria
Oxidation
Lake sediments
Lake Biwa
ISSN:0723-2020, 1618-0984, 1618-0984
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Shrnutí:Methane oxidation coupled to denitrification is mediated by ‘Candidatus Methylomirabilis oxyfera’, which belongs to the candidate phylum NC10. The distribution of putative denitrifying methane-oxidizing bacteria related to “M. oxyfera” was investigated in a freshwater lake, Lake Biwa, Japan. In the surface layer of the sediment from a profundal site, a phylotype closely related to “M. oxyfera” was most frequently detected among NC10 bacteria in PCR analysis of the 16S rRNA gene. In the sediment, sequences related to “M. oxyfera” were also detected in a pmoA gene library. The presence of NC10 bacteria was also confirmed by catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH). Denaturing gradient gel electrophoresis (DGGE) and quantitative real-time PCR indicated that the abundance of the “M. oxyfera”-related phylotype was higher in the upper layers of the profundal sediment. The horizontal distribution of the putative methanotrophs in lake sediment was also analyzed by DGGE, which revealed that their occurrence was restricted to deep water areas. These results agreed with those in a previous study of another freshwater lake, and suggested that the upper layer of the profundal sediments is the main habitat for denitrifying methanotrophs.
Bibliografia:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
ObjectType-Article-2
ObjectType-Feature-1
ISSN:0723-2020
1618-0984
1618-0984
DOI:10.1016/j.syapm.2012.03.005