Occurrence and diversity of nitrite-dependent anaerobic methane oxidation bacteria in the sediments of the South China Sea revealed by amplification of both 16S rRNA and pmoA genes

TY - JOUR

T1 - Occurrence and diversity of nitrite-dependent anaerobic methane oxidation bacteria in the sediments of the South China Sea revealed by amplification of both 16S rRNA and pmoA genes

AU - Chen, Jing

AU - Zhou, Zhi Chao

AU - Gu, Ji Dong

N1 - Funding Information: Acknowledgments This project was supported by the Hong Kong PhD Fellowship (JC), the University of Hong Kong Foundation PhD Fellowship (ZCZ), and RGC GRF grant no. 701913 (J-DG). Additional financial support for this research project was from the laboratory fund. We thank Dr. Li-Ying Wang and Miss Han Meng for the useful discussions and Ms Kelly Lau for the general laboratory assistance.

PY - 2014/6

Y1 - 2014/6

N2 - Nitrite-dependent anaerobic methane oxidation (n-damo) process is unique in linking the microbial carbon and nitrogen cycles, but the presence of n-damo bacteria in marine ecosystem and the associated environmental factors are still poorly understood. In the present study, detection of n-damo bacteria using 16S rRNA and pmoA gene-based PCR primers was successfully employed to reveal their diversity and distribution in the surface and subsurface sediments of the South China Sea (SCS). The widespread occurrence of n-damo bacteria in both the surface and subsurface sediments with high diversity has been confirmed in this study. The pmoA gene-amplified sequences clustered within three newly erected subclusters, namely SCS-1, SCS-2, and SCS-3, suggesting the unique niche specificity of n-damo bacteria in the marine ecosystem. Results indicated the presence of n-damo bacteria in the west Pacific Ocean with a wide distribution from the continental shelf (E201S) to the deep abyss (E407S and E407B). Community structures of n-damo bacteria in SCS are clearly different from those of nonmarine ones known. It is also found that NOx- and NH4+ affected the community structures and distribution of n-damo bacteria in the SCS sediments differently. Salinity is another important factor identified, shaping the n-damo communities in marine environments. The community based on pmoA gene-amplified sequences, and community richness and diversity based on 16S rRNA gene-amplified sequences correlated with temperature.

AB - Nitrite-dependent anaerobic methane oxidation (n-damo) process is unique in linking the microbial carbon and nitrogen cycles, but the presence of n-damo bacteria in marine ecosystem and the associated environmental factors are still poorly understood. In the present study, detection of n-damo bacteria using 16S rRNA and pmoA gene-based PCR primers was successfully employed to reveal their diversity and distribution in the surface and subsurface sediments of the South China Sea (SCS). The widespread occurrence of n-damo bacteria in both the surface and subsurface sediments with high diversity has been confirmed in this study. The pmoA gene-amplified sequences clustered within three newly erected subclusters, namely SCS-1, SCS-2, and SCS-3, suggesting the unique niche specificity of n-damo bacteria in the marine ecosystem. Results indicated the presence of n-damo bacteria in the west Pacific Ocean with a wide distribution from the continental shelf (E201S) to the deep abyss (E407S and E407B). Community structures of n-damo bacteria in SCS are clearly different from those of nonmarine ones known. It is also found that NOx- and NH4+ affected the community structures and distribution of n-damo bacteria in the SCS sediments differently. Salinity is another important factor identified, shaping the n-damo communities in marine environments. The community based on pmoA gene-amplified sequences, and community richness and diversity based on 16S rRNA gene-amplified sequences correlated with temperature.

KW - Anaerobic methane oxidation

KW - Distribution

KW - Diversity

KW - Marine

KW - South China Sea

KW - n-damo

KW - pmoA gene

UR - http://www.scopus.com/inward/record.url?scp=84903818313&partnerID=8YFLogxK

U2 - 10.1007/s00253-014-5733-4

DO - 10.1007/s00253-014-5733-4

M3 - 文章

C2 - 24769903

AN - SCOPUS:84903818313

SN - 0175-7598

VL - 98

SP - 5685

EP - 5696

JO - Applied Microbiology and Biotechnology

JF - Applied Microbiology and Biotechnology

IS - 12

ER -