Thalassobius abyssi sp. nov., a marine bacterium isolated from cold-seep sediment

Abstract

A novel marine bacterial strain, designated JAMH 043 T , was isolated from cold-seep sediment in Sagami Bay, Japan. Cells were Gram-stain-negative, rod-shaped, non-motile and aerobic chemo-organotrophs. The isolate grew optimally at 25 8C, at pH 7.0-7.5 and with 3 % (w/v) NaCl. The major respiratory quinone was ubiquinone-10 (Q-10). The predominant fatty acid was C 18 : 1 v7c. On the basis of 16S rRNA gene sequence analysis, the isolated strain was closely affiliated to members of the genus Thalassobius in the class Alphaproteobacteria, and 16S rRNA gene sequence similarity of the novel isolate with the type strain of its closest related species, Thalassobius aestuarii JC2049 T , was 98.4 %. The DNA G+C content of the novel strain was 58.0 mol%. The hybridization values for DNA-DNA relatedness between strain JAMH 043 T and reference strains belonging to the genus Thalassobius were less than 14.1¡2.2 %. Based on differences in taxonomic characteristics, the isolated strain represents a novel species of the genus Thalassobius, for which the name Thalassobius abyssi sp. nov. is proposed. The type strain is JAMH 043The genus Thalassobius, first proposed by Arahal et al. et al., 2012). In this taxonomic study, we used a polyphasic approach to investigate marine bacterial strain JAMH 043 T , which was found to represent a novel species belonging to the genus Thalassobius. Strain JAMH 043T was isolated from sediment of the deep-sea cold-seep area off Hatsushima, Sagami Bay, Japan (358 0099 N 1398 1369 E, depth: 1097 m) collected by means of a sterilized sediment sampler using the SHI-NKAI 6500 system operated by JAMSTEC (cruise YK07-05) in April 2007. The sediment was suspended with a small amount of sterilized artificial seawater (ASW; RohtoMarine, Rei-Sea), cooled with ice and allowed to stand for 10 min. The supernatant was spread on marine agar 2216 (MA; Difco) plates and incubated at 10 8C for 1 week upon isolation. A pure culture was obtained after at least three subcultivations on MA plates and the morphological, physiological and biochemical characteristics of strain JAMH 043 T were investigated by using routine incubation on MA plates or in marine broth 2216 (MB; Difco) at 25 8C. T. aestuarii JCM 14322 T , T. gelatinovorus IAM 12617 T , T. maritimus KCTC 23347 T , T. mediterraneus DSM 16398T and 'Thalassobius aquaeponti' NBRC 110378 were used as reference strains in the study for biochemical and antibiotic susceptibility tests, and analysis of cellular fatty acids.Growth conditions were investigated on Luria-Bertani (LB) medium supplemented with 3 % NaCl [1.0 % (w/v) tryptone (Difco), 0.5 % (w/v) yeast extract (Difco), 3.0 % (w/v) NaCl], trypticase soy broth agar (TSBA; Difco) supplemented with 3 % NaCl, nutrient agar (Difco) supplemented with 3 % NaCl and MA plates in triplicate at 25 8C for 1 week. Cell growth was not observed on TSBA or on nutrient agar, which do not contain yeast extract. The effects of temperature, NaCl concentrationThe GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of...

Thiosulfatihalobacter marinus gen. nov. sp. nov., a novel member of the family Roseobacteraceae, isolated from the West Pacific Ocean

“…Continued Table 2. Differential properties of strain GL-11-2 T and its adjacent genera Strains/genera: 1, GL-11-2 T (data from this study); 2, Pseudoruegeria [50,[55][56][57][58][59][60]; 3, Shimia [51,52,[61][62][63][64][65][66][67][68][69]; 4, Thalassobius [70][71][72][73][74][75]; 5, Leisingera [54,[76][77][78][79]; 6, Ruegeria [53,72,[80][81][82][83][84][85][86][87][88][89][90][91][92][93]. +, Positive; −, negative; v, variable; na, no data available; + (na), positive for some species but no data available for the others; − (na), negative for some species but no data available for the others; v (na), variable for some species but no data available for the others.…”

Shimia sediminis sp. nov., a bacterium isolated from marine sediment in the East China Sea

“… Data marked with a, b, c were taken from [6], [8] and [2], respectively. …”

“…Based on the result of 16S rRNA gene sequence alignment, strain ZQ172 T belonged to the genus Shimia, and had sequence similarities of 97.5, 97.5 and 97.3 % to S. aestuarii Data marked with a, b, c were taken from [6], [8] and [2], respectively. ).…”

Draft genome sequence of Thalassobius mediterraneus CECT 5383 T , a poly-beta-hydroxybutyrate producer

“…Currently, the genus Thalassobius contains four species with validly published names: T. mediterraneus [1] , T. gelatinovorus [1] , T. aestuarii [3] and T. maritimus [4] . ‘ T. aquaeponti ’ was reported recently [5] , although it has not been yet validated, and even more recently T. abysii has been also proposed [6] .…”