Abyssibius alkaniclasticus gen. nov., sp. nov., a novel member of the family Rhodobacteraceae, isolated from the Mariana Trench

Abstract

A Gram-stain-negative bacterium with rod-shaped or irregular cells approximately 0.5–0.9×2.0–3.8 µm in size, designated as 960558T, was isolated from sediment sampled in the Mariana Trench. Strain 960558T grows at 4–37 °C (optimum, 28 °C), pH 6–7 (optimum, pH 7) and in the presence of 1–5 % (w/v) NaCl (optimum, 3 %). Strain 960558T utilizes tetradecane or hexadecane as a sole carbon and energy source, respectively. Phylogenetic trees based on 16S rRNA gene sequences and phylogenomic reconstruction revealed a close phylogenetic relationship between strain 960558T and members of the family Rhodobacteraceae by forming a separate branch within the type species of closely related genera. The validly published species that is most closely related to strain 960558T is Planktotalea lamellibrachiae JAM 119T, which has the highest 16S rRNA gene sequence similarity (93.47 %). Ubiquinone 10 is the predominant ubiquinone, while C16 : 0, 11-methyl C18 : 1 ω7c and C18 : 1 ω7c and/or C18 : 1 ω6c are the predominant fatty acids (>10 %). Additionally, phosphatidylglycerol, glycolipids, diphosphatidylglycerol, unidentified polar lipids and unidentified aminolipids are the major polar lipids. The DNA G+C content of strain 960558T is 61 %. Average nucleotide identity and digital DNA–DNA hybridization results of strain 960558T with other type strains are <70.2 and 22.1 %, respectively. Based on its phylogenetic, chemotaxonomic and other phenotypic properties, strain 960558T is considered to represent a novel genus and species within the family Rhodobacteraceae , for which the name Abyssibius alkaniclasticus gen. nov., sp. nov. is proposed. The type strain of Abyssibius alkaniclasticus is 960558T (=KCTC 82619T=MCCC 1K04727T).

Fontisubflavum oceani gen. nov., sp. nov., isolated from the deep-sea cold seep water of South China Sea

“…Members of the family Rhodobacteraceae are halotolerant or moderately halophilic and usually isolated from various saline environmental habitats, such as marine sediment, sea water and hypersaline lake [2,3]. Recent years, the number of species within the family Rhodobacteraceae has increased steadily, including Anianabacter salinae, Algicella marina, Abyssibius alkaniclasticus and Rhabdonatronobacter sediminivivens [4][5][6][7]. At the time of writing, a total of 229 validly published and correctly named species of the family Rhodobacteraceae have been reported.…”

Insights into the prokaryotic communities of the abyssal-hadal benthic-boundary layer of the Kuril Kamchatka Trench

“…Various studies have regarded the isolation of piezophilic and hyperpiezophilic microorganisms from trenches worldwide [ 4 – 8 ]. These include species of archaea, bacteria and fungi including some recently described novel taxa: Muricauda abyssi, Paraoceanicella profunda, Abyssibius alkaniclasticus [ 9 – 11 ] As for the profiling of prokaryotic communities, the investigation has been principally focused on the Mariana Trench [ 3 , 12 – 26 ] and to a lesser extent on other trenches (e.g., Puerto Rico, Japan, Kermadec, Izu-Ogasawara, Atacama, New Britain and Yap trenches) [ 16 , 17 , 27 – 34 ]. If compared to the literature available for the trench fauna, works that have reported the prokaryote intra-trench variation along the water column are scarce [ 14 , 15 , 17 , 20 – 22 ].…”