title: Complex community of nitrite-dependent anaerobic methane oxidation bacteria in coastal sediments of the Mai Po wetland by PCR amplification of both 16S rRNA and pmoA genes.
abstract: In the present work, both 16S rRNA and pmoA gene-based PCR primers were employed successfully to study the diversity and distribution of n-damo bacteria in the surface and lower layer sediments at the coastal Mai Po wetland. The occurrence of n-damo bacteria in both the surface and subsurface sediments with high diversity was confirmed in this study. Unlike the two other known n-damo communities from coastal areas, the pmoA gene-amplified sequences in the present work clustered not only with some freshwater subclusters but also within three newly erected marine subclusters mostly, indicating the unique niche specificity of n-damo bacteria in this wetland. Results suggested vegetation affected the distribution and community structures of n-damo bacteria in the sediments and n-damo could coexist with sulfate-reducing methanotrophs in the coastal ecosystem. Community structures of the Mai Po n-damo bacteria based on 16S rRNA gene were different from those of either the freshwater or the marine. In contrast, structures of the Mai Po n-damo communities based on pmoA gene grouped with the marine ones and were clearly distinguished from the freshwater ones. The abundance of n-damo bacteria at this wetland was quantified using 16S rRNA gene PCR primers to be 2.65-6.71 × 10(5) copies/g dry sediment. Ammonium and nitrite strongly affected the community structures and distribution of n-damo bacteria in the coastal Mai Po wetland sediments.
authors.affiliation: Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, Faculty of Science, The University of Hong Kong, Pokfulam Road, Hong Kong SAR, People's Republic of China.
authors.forename: Jing
authors.initials: J
authors.lastname: Chen
authors.forename: Zhichao
authors.initials: Z
authors.lastname: Zhou
authors.forename: Ji-Dong
authors.initials: JD
authors.lastname: Gu
mesh_terms: D000693:Anaerobiosis; D001419:Bacteria / Q000145:classification / Q000235:genetics / Q000302:isolation & purification* / Q000378:metabolism*; D001426:Bacterial Proteins / Q000235:genetics* / Q000378:metabolism; D044822:Biodiversity; D002681:China; D004269:DNA, Bacterial / Q000235:genetics; D005618:Fresh Water / Q000382:microbiology; D019015:Geologic Sediments / Q000382:microbiology*; D008697:Methane / Q000378:metabolism*; D008969:Molecular Sequence Data; D009573:Nitrites / Q000378:metabolism*; D010084:Oxidation-Reduction; D010802:Phylogeny; D016133:Polymerase Chain Reaction; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D012988:Soil Microbiology; D053833:Wetlands
chemical_list: D001426:Bacterial Proteins; D004269:DNA, Bacterial; D009573:Nitrites; D012336:RNA, Ribosomal, 16S; D008697:Methane