title: Complete genomes of freshwater sulfur oxidizers Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H: genetic insights into the sulfur oxidation pathway of betaproteobacteria.
abstract: Despite detailed studies of marine sulfur-oxidizing bacteria, our knowledge concerning their counterparts in freshwater lake ecosystems is limited. Genome sequencing of the freshwater sulfur-oxidizing betaproteobacteria Sulfuricella denitrificans skB26 and Sulfuritalea hydrogenivorans sk43H have been completed. Strain skB26 possessed a circular plasmid of 86.6-kbp in addition to its chromosome, and an approximate 18-kbp region of the plasmid was occupied by an arxA-like operon, encoding a new clade of anaerobic arsenite oxidase. Multilocus sequence analysis showed that strain skB26 could not be assigned to any existing order; thus a novel order, Sulfuricellales, is proposed. The genomes of strains skB26 and sk43H were examined, focusing on the composition and the phylogeny of genes involved in the oxidation of inorganic sulfur compounds. Strains skB26 and sk43H shared a common pathway, which consisted of Sqr, SoxEF, SoxXYZAB, Dsr proteins, AprBA, Sat, and SoeABC. Comparative genomics of betaproteobacterial sulfur oxidizers showed that this pathway was also shared by the freshwater sulfur oxidizers Thiobacillus denitrificans and Sideroxydans lithotrophicus. It also revealed the presence of a conserved gene cluster, which was located immediately upstream of the betaproteobacterial dsr operon.
authors.affiliation: The Institute of Low Temperature Science, Hokkaido University, Sapporo, Japan. Electronic address: watanabe1986@pop.lowtem.hokudai.ac.jp.
authors.forename: Tomohiro
authors.initials: T
authors.lastname: Watanabe
authors.affiliation: The Institute of Low Temperature Science, Hokkaido University, Sapporo, Japan.
authors.forename: Hisaya
authors.initials: H
authors.lastname: Kojima
authors.affiliation: The Institute of Low Temperature Science, Hokkaido University, Sapporo, Japan. Electronic address: my-fukui@pop.lowtem.hokudai.ac.jp.
authors.forename: Manabu
authors.initials: M
authors.lastname: Fukui
mesh_terms: D020562:Betaproteobacteria / Q000235:genetics* / Q000378:metabolism*; D005227:Fatty Acids / Q000378:metabolism; D005618:Fresh Water / Q000737:chemistry* / Q000382:microbiology*; D005798:Genes, Bacterial; D016680:Genome, Bacterial; D023281:Genomics; D053858:Metabolic Networks and Pathways; D008969:Molecular Sequence Data; D009876:Operon; D010084:Oxidation-Reduction; D010802:Phylogeny; D010957:Plasmids / Q000235:genetics; D013455:Sulfur / Q000378:metabolism*; D013885:Thiosulfates / Q000378:metabolism
chemical_list: D005227:Fatty Acids; D013885:Thiosulfates; D013455:Sulfur
keywords: Adenosine-5′-phosphosulfate; Betaproteobacteria; Comparative genomics; Dissimilatory sulfite reductase; Freshwater lake; Heterodisulfide reductase; Sulfur-oxidizing bacteria; Sulfuricella denitrificans; Sulfuritalea hydrogenivorans; arxA