Draft genome of an Aerophobetes bacterium reveals a facultative lifestyle in deep-sea anaerobic sediments
Tian, Ren Mao
Bajic, Vladimir B.
KAUST DepartmentComputational Bioscience Research Center (CBRC)
Applied Mathematics and Computational Science Program
Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
KAUST Grant NumberSA-C0040/UK-C0016
Online Publication Date2016-07-01
Print Publication Date2016-08
Permanent link to this recordhttp://hdl.handle.net/10754/621722
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AbstractAerophobetes (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 bacterium TCS1 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 TCS1 and some thermophilic bacterial phyla. The genome of TCS1 (at least 1.27 Mbp) contains a full set of genes encoding core metabolic pathways, 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 in the sediment under the microbial mat. Aerophobetes bacterium TCS1 therefore probably carried out saccharolytic and fermentative metabolism. The genes responsible for autotrophic synthesis of acetyl-CoA via the Wood–Ljungdahl 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, Aerophobetes bacterium TCS1 genome lacks the genes involved in nitrogen metabolism, sulfur metabolism, signal transduction and cell motility. The metabolic activities of TCS1 might depend on geochemical conditions such as supplies of CO2, hydrogen and sugars, and therefore the TCS1 might be a facultative bacterium in anaerobic saline sediments near cold seeps. © 2016, Science China Press and Springer-Verlag Berlin Heidelberg.
CitationWang Y, Gao Z-M, Li J-T, Bougouffa S, Tian RM, et al. (2016) Draft genome of an Aerophobetes bacterium reveals a facultative lifestyle in deep-sea anaerobic sediments. Science Bulletin 61: 1176–1186. Available: http://dx.doi.org/10.1007/s11434-016-1135-6.
SponsorsThis work was supported by the Strategic Priority Research Program of the Chinese Academy of Sciences (XDB06010201) and the National Natural Science Foundation of China (41476104). This study was also supported by the Strategic Priority Research Program (XDB06010102) and an award from the King Abdullah University of Science and Technology (SA-C0040/UK-C0016) to P.Y. Qian. V.B. Bajic was supported by KAUST Base Research Funds, and S. Bougouffa was supported by a SABIC postdoctoral fellowship.