title: Genomic, physiologic, and proteomic insights into metabolic versatility in Roseobacter clade bacteria isolated from deep-sea water.
abstract: Roseobacter clade bacteria are ubiquitous in marine environments and now thought to be significant contributors to carbon and sulfur cycling. However, only a few strains of roseobacters have been isolated from the deep-sea water column and have not been thoroughly investigated. Here, we present the complete genomes of phylogentically closed related Thiobacimonas profunda JLT2016 and Pelagibaca abyssi JLT2014 isolated from deep-sea water of the Southeastern Pacific. The genome sequences showed that the two deep-sea roseobacters carry genes for versatile metabolisms with functional capabilities such as ribulose bisphosphate carboxylase-mediated carbon fixation and inorganic sulfur oxidation. Physiological and biochemical analysis showed that T. profunda JLT2016 was capable of autotrophy, heterotrophy, and mixotrophy accompanied by the production of exopolysaccharide. Heterotrophic carbon fixation via anaplerotic reactions contributed minimally to bacterial biomass. Comparative proteomics experiments showed a significantly up-regulated carbon fixation and inorganic sulfur oxidation associated proteins under chemolithotrophic conditions compared to heterotrophic conditions. Collectively, rosebacters show a high metabolic flexibility, suggesting a considerable capacity for adaptation to the marine environment.
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Kai
authors.initials: K
authors.lastname: Tang
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Yujie
authors.initials: Y
authors.lastname: Yang
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Dan
authors.initials: D
authors.lastname: Lin
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Shuhui
authors.initials: S
authors.lastname: Li
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Wenchu
authors.initials: W
authors.lastname: Zhou
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Yu
authors.initials: Y
authors.lastname: Han
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Keshao
authors.initials: K
authors.lastname: Liu
authors.affiliation: State Key Laboratory for Marine Environmental Science, Institute of Marine Microbes and Ecospheres, Xiamen University, Xiamen 361102, P. R. China.
authors.forename: Nianzhi
authors.initials: N
authors.lastname: Jiao
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism; D023281:Genomics; D011135:Polysaccharides, Bacterial / Q000235:genetics / Q000378:metabolism; D040901:Proteomics; D041904:Roseobacter / Q000502:physiology*; D012623:Seawater / Q000382:microbiology*; D014871:Water Microbiology
chemical_list: D001426:Bacterial Proteins; D011135:Polysaccharides, Bacterial