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Draft genome of an Aerophobetes bacterium reveals a facultative lifestyle in deep-sea anaerobic sediments

Science Bulletin 2016年第15期61卷 1176-1186页

作者： Yong Wang Zhao-Ming Gao Jiang-Tao Li salim bougouffa Ren Mao Tian Vladimir B. Bajic Pei-Yuan Qian Sanya Institute of Deep Sea Science and Engineering ChineseAcademy of Sciences Sanya 572000 China Division of Life Science Hong Kong University of Science and Technology Clear Water Bay Hong Kong China State Key Laboratory of Marine Geology Tongji UniversityShanghai 200092 China Computational Bioscience Research Center King Abdullah University of Science and Technology Thuwal Jeddah 23955-6900 Saudi Arabia

Aerophobetes （or CD12） is a recently defined bacterial phylum, of which the metabolic processes and ecological importance remain unclear. In the present study, we obtained the draft genome of an Aerophobetes bac- terium TCSI from saline sediment near the Thuwal cold seep in the Red Sea using a genome binning method. Analysis of 16S rRNA genes of TCS1 and close relatives revealed wide distribution of Aerophobetes in deep-sea sediments. Phylogenetic relationships showed affinity between Aerophobetes TCS 1 and some thermophilic bac- terial phyla. The genome of TCS1 （at least 1.27 Mbp） contains a full set of genes encoding core metabolic path- ways, including glycolysis and pyruvate fermentation to produce acetyl-CoA and acetate. The identification of cross-membrane sugar transporter genes further indicates its potential ability to consume carbohydrates preserved inthe sediment under the microbial mat. Aerophobetes bac- terium TCS1 therefore probably carried out saccharolytic and fermentative metabolism. The genes responsible for autotrophic synthesis of acetyl-CoA via the Wood-Ljung- dahl pathway were also found in the genome. Phylogenetic study of the essential genes for the Wood-Ljungdahl pathway implied relative independence of Aerophobetes bacterium from the known acetogens and methanogens. Compared with genomes of acetogenic bacteria, Aero- phobetes bacterium TCS 1 genome lacks the genes involved in nitrogen metabolism, sulfur metabolism, signal trans- duction and cell motility. The metabolic activities of TCS 1 might depend on geochemical conditions such as supplies of CO2, hydrogen and sugars, and therefore the TCSI might be a facultative bacterium in anaerobic saline sedi- ments near cold seeps.

关键词： Deep-sea sediment Aerophobetes Metagenome Sugar fermentation Cold seep

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