scholarly journals Dethiosulfatibacter aminovorans gen. nov., sp. nov., a novel thiosulfate-reducing bacterium isolated from coastal marine sediment via sulfate-reducing enrichment with Casamino acids

2007 ◽  
Vol 57 (10) ◽  
pp. 2320-2326 ◽  
Author(s):  
Susumu Takii ◽  
Satoshi Hanada ◽  
Hideyuki Tamaki ◽  
Yutaka Ueno ◽  
Yuji Sekiguchi ◽  
...  
Keyword(s):  
Marine Sediment ◽  
Enrichment Culture ◽  
Sequence Similarity ◽  
Tokyo Bay ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Sulfate Reducing ◽  
Coastal Marine ◽  
Coastal Marine Sediment ◽  
Casamino Acids

A sulfate-reducing enrichment culture originating from coastal marine sediment of the eutrophic Tokyo Bay, Japan, was successfully established with Casamino acids as a substrate. A thiosulfate reducer, strain C/G2T, was isolated from the enrichment culture after further enrichment with glutamate. Cells of strain C/G2T were non-motile rods (0.6–0.8 μm×2.2–4.8 μm) and were found singly or in pairs and sometimes in short chains. Spores were not formed. Cells of strain C/G2T stained Gram-negatively, despite possessing Gram-positive cell walls. The optimum temperature for growth was 28–30 °C, the optimum pH was around 7.8 and the optimum salt concentration was 20–30 g l−1. Lactate, pyruvate, serine, cysteine, threonine, glutamate, histidine, lysine, arginine, Casamino acids, peptone and yeast extract were fermented as single substrates and no sugar was used as a fermentative substrate. A Stickland reaction was observed with some pairs of amino acids. Fumarate, alanine, proline, phenylalanine, tryptophan, glutamine and aspartate were utilized only in the presence of thiosulfate. Strain C/G2T fermented glutamate to H2, CO2, acetate and propionate. Thiosulfate and elemental sulfur were reduced to sulfide. Sulfate, sulfite and nitrate were not utilized as electron acceptors. The growth of strain C/G2T on Casamino acids or glutamate was enhanced by co-culturing with Desulfovibrio sp. isolated from the original mixed culture enriched with Casamino acids. The DNA G+C content of strain C/G2T was 41.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain C/G2T formed a distinct cluster with species of the genus Sedimentibacter. The closest relative was Sedimentibacter hydroxybenzoicus (with a gene sequence similarity of 91 %). On the basis of its phylogenetic and phenotypic properties, strain C/G2T (=JCM 13356T=NBRC 101112T=DSM 17477T) is proposed as representing a new genus and novel species, Dethiosulfatibacter aminovorans gen. nov., sp. nov.

Response of sulfate-reducing bacteria to an artificial oil-spill in a coastal marine sediment

2011 ◽  
Vol 13 (6) ◽  
pp. 1488-1499 ◽  
Author(s):  
Ana Suárez-Suárez ◽  
Arantxa López-López ◽  
Antonio Tovar-Sánchez ◽  
Pablo Yarza ◽  
Alejandro Orfila ◽  
...  
Keyword(s):  
Oil Spill ◽  
Marine Sediment ◽  
Sulfate Reducing Bacteria ◽  
Sulfate Reducing ◽  
Coastal Marine ◽  
Coastal Marine Sediment ◽  
Reducing Bacteria

Alkane biodegradation and dynamics of phylogenetic subgroups of sulfate-reducing bacteria in an anoxic coastal marine sediment artificially contaminated with oil

Chemosphere ◽  
2007 ◽  
Vol 68 (7) ◽  
pp. 1327-1334 ◽  
Author(s):  
Gilles Miralles ◽  
Vincent Grossi ◽  
Monique Acquaviva ◽  
Robert Duran ◽  
Jean Claude Bertrand ◽  
...  
Keyword(s):  
Marine Sediment ◽  
Sulfate Reducing Bacteria ◽  
Sulfate Reducing ◽  
Coastal Marine ◽  
Coastal Marine Sediment ◽  
Reducing Bacteria ◽  
Alkane Biodegradation

scholarly journals Isolation and cultivation of a novel sulfate-reducing magnetotactic bacterium belonging to the genus Desulfovibrio

PLoS ONE ◽  
2021 ◽  
Vol 16 (3) ◽  
pp. e0248313
Author(s):  
Hirokazu Shimoshige ◽  
Hideki Kobayashi ◽  
Shigeru Shimamura ◽  
Toru Mizuki ◽  
Akira Inoue ◽  
...  
Keyword(s):  
Magnetite Nanoparticles ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Magnetotactic Bacterium ◽  
Sulfate Reducing ◽  
Gene Sequence Analysis ◽  
Casamino Acids ◽  
Reducing Bacteria

Magnetotactic bacteria (MTB) synthesize magnetosomes composed of membrane-enveloped magnetite (Fe3O4) and/or greigite (Fe3S4) nanoparticles in the cells. It is known that the magnetotactic Deltaproteobacteria are ubiquitous and inhabit worldwide in the sediments of freshwater and marine environments. Mostly known MTB belonging to the Deltaproteobacteria are dissimilatory sulfate-reducing bacteria that biomineralize bullet-shaped magnetite nanoparticles, but only a few axenic cultures have been obtained so far. Here, we report the isolation, cultivation and characterization of a dissimilatory sulfate-reducing magnetotactic bacterium, which we designate “strain FSS-1”. We found that the strain FSS-1 is a strict anaerobe and uses casamino acids as electron donors and sulfate as an electron acceptor to reduce sulfate to hydrogen sulfide. The strain FSS-1 produced bullet-shaped magnetite nanoparticles in the cells and responded to external magnetic fields. On the basis of 16S rRNA gene sequence analysis, the strain FSS-1 is a member of the genus Desulfovibrio, showing a 96.7% sequence similarity to Desulfovibrio putealis strain B7-43T. Futhermore, the magnetosome gene cluster of strain FSS-1 was different from that of Desulfovibrio magneticus strain RS-1. Thus, the strain FSS-1 is considered to be a novel sulfate-reducing magnetotactic bacterium belonging to the genus Desulfovibrio.

scholarly journals Taxonomic description and genome sequence of Salinicoccus sediminis sp. nov., a halotolerant bacterium isolated from marine sediment

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3794-3799 ◽  
Author(s):  
Rajendran Mathan Kumar ◽  
Gurwinder Kaur ◽  
Narender Kumar ◽  
Anand Kumar ◽  
Nitin Kumar Singh ◽  
...  
Keyword(s):  
Marine Sediment ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Draft Genome ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Phenotypic Properties ◽  
Gram Staining ◽  
Taxonomic Description ◽  
Optimum Ph

A Gram-staining-positive, coccoid, halotolerant bacterial strain, designated SV-16T, was isolated from marine sediment and subjected to a polyphasic taxonomic study. The strain exhibited phenotypic properties that included chemotaxonomic characteristics consistent with its classification in the genus Salinicoccus. Growth occurred at temperatures in the range 25–37 °C (optimum 30 °C), at pH 7.0–11.0 (optimum pH 8.0) and at NaCl concentrations of up to 25.0 % (optimum 15.0 %). The highest level of 16S rRNA gene sequence similarity was with Salinicoccus carnicancri CrmT (98.6 %) followed by Salinicoccus halodurans W24T (96.6 %). The predominant polar lipids were diphosphatidylglycerol, phosphatidylinositol and phosphatidylglycerol. The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 0 and anteiso-C17 : 0. The draft genome of strain SV-16T consisted of 2 591 284 bp with a DNA G+C content of 48.7 mol%. On the basis of the phenotypic characteristics and genotypic distinctiveness of strain SV-16T, it should be classified within a novel species of the genus Salinicoccus, for which the name Salinicoccus sediminis sp. nov. is proposed. The type strain is SV-16T ( = MTCC 11832T = DSM 28797T).

scholarly journals Desulfoconvexum algidum gen. nov., sp. nov., a psychrophilic sulfate-reducing bacterium isolated from a permanently cold marine sediment

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 959-964 ◽  
Author(s):  
Martin Könneke ◽  
Jan Kuever ◽  
Alexander Galushko ◽  
Bo Barker Jørgensen
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Sediment ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
North West ◽  
Sulfate Reducing ◽  
Link Type

A sulfate-reducing bacterium, designated JHA1T, was isolated from a permanently cold marine sediment sampled in an Artic fjord on the north-west coast of Svalbard. The isolate was originally enriched at 4 °C in a highly diluted liquid culture amended with hydrogen and sulfate. Strain JHA1T was a psychrophile, growing fastest between 14 and 16 °C and not growing above 20 °C. Fastest growth was found at neutral pH (pH 7.2–7.4) and at marine concentrations of NaCl (20–30 g l−1). Phylogenetic analysis of 16S rRNA gene sequences revealed that strain JHA1T was a member of the family Desulfobacteraceae in the Deltaproteobacteria . The isolate shared 99 % 16S rRNA gene sequence similarity with an environmental sequence obtained from permanently cold Antarctic sediment. The closest recognized relatives were Desulfobacula phenolica DSM 3384T and Desulfobacula toluolica DSM 7467T (both <95 % sequence similarity). In contrast to its closest phylogenetic relatives, strain JHA1T grew chemolithoautotrophically with hydrogen as an electron donor. CO dehydrogenase activity indicated the operation of the reductive acetyl-CoA pathway for inorganic carbon assimilation. Beside differences in physiology and morphology, strain JHA1T could be distinguished chemotaxonomically from the genus Desulfobacula by the absence of the cellular fatty acid C16 : 0 10-methyl. Phylogenetic differentiation from other genera was further supported by DsrAB and AprBA sequence analysis. Based on the described phylogenetic and phenotypic differences between strain JHA1T and its closest relatives, the establishment of a novel genus and a novel species, Desulfoconvexum algidum gen. nov., sp. nov. is proposed. The type strain is JHA1T ( = DSM 21856T  = JCM 16085T).

scholarly journals Accelerated Sulfur Cycle in Coastal Marine Sediment beneath Areas of Intensive Shellfish Aquaculture

2005 ◽  
Vol 71 (6) ◽  
pp. 2925-2933 ◽  
Author(s):  
Hiroki Asami ◽  
Masato Aida ◽  
Kazuya Watanabe
Keyword(s):  
Sulfur Oxidation ◽  
Sulfur Cycle ◽  
Rrna Gene ◽  
Shellfish Aquaculture ◽  
Sulfate Reducing ◽  
Oxidation Rates ◽  
Coastal Marine ◽  
Culture Independent ◽  
Molecular Phylogenetic ◽  
Coastal Marine Sediment

ABSTRACT Prokaryotes in marine sediments taken from two neighboring semienclosed bays (the Yamada and Kamaishi bays) at the Sanriku coast in Japan were investigated by the culture-independent molecular phylogenetic approach coupled with chemical and activity analyses. These two bays were chosen in terms of their similar hydrogeological and chemical characteristics but different usage modes; the Yamada bay has been used for intensive shellfish aquaculture, while the Kamaishi bay has a commercial port and is not used for aquaculture. Substantial differences were found in the phylogenetic composition of 16S rRNA gene clone libraries constructed for the Yamada and Kamaishi sediments. In the Yamada library, phylotypes affiliated with δ-Proteobacteria were the most abundant, and those affiliated with γ-Proteobacteria were the second-most abundant. In contrast, the Kamaishi library was occupied by phylotypes affiliated with Planctomycetes, γ-Proteobacteria, δ-Proteobacteria, and Crenarchaeota. In the γ-Proteobacteria, many Yamada phylotypes were related to free-living and symbiotic sulfur oxidizers, whereas the Kamaishi phylotype was related to the genus Pseudomonas. These results allowed us to hypothesize that sulfate-reducing and sulfur-oxidizing bacteria have become abundant in the Yamada sediment. This hypothesis was supported by quantitative competitive PCR (qcPCR) with group-specific primers. The qcPCR also suggested that organisms closely related to Desulfotalea in the Desulfobulbaceae were the major sulfate-reducing bacteria in these sediments. In addition, potential sulfate reduction and sulfur oxidation rates in the sediment samples were determined, indicating that the sulfur cycle has become active in the Yamada sediment beneath the areas of intensive shellfish aquaculture.

scholarly journals Brassicibacter thermophilus sp. nov., a thermophilic bacterium isolated from coastal sediment

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2870-2874 ◽  
Author(s):  
Bing Wang ◽  
Shi-Qi Ji ◽  
Xin-Xin Tian ◽  
Ling-Yun Qu ◽  
Fu-Li Li
Keyword(s):  
Lipid Analysis ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Thermophilic Bacterium ◽  
Sea Salt ◽  
Rrna Gene ◽  
Optimal Growth Temperature ◽  
Coastal Marine ◽  
Coastal Marine Sediment ◽  
Bacterium Strain

A novel thermophilic, obligately anaerobic bacterium, strain Cel2fT, was isolated from a cellulolytic community enriched from coastal marine sediment. Cells were Gram-stain-negative, non-motile, non-spore-forming and rod-shaped. Optimal growth temperature and pH of strain Cel2fT were 55 °C and pH 7.0, respectively. NaCl was essential for the growth of strain Cel2fT and the strain showed enhanced growth in the presence of sea salt; the optimum sea salt concentration for growth was 7 % (w/v). Thiosulfate, sulfate and sulfite were potential electron acceptors. The major fatty acids of strain Cel2fT were iso-C15 : 0, C16 : 0, and C18 : 0. Polar lipid analysis indicated the presence of phosphatidylethanolamine and phosphatidylglycerol. Strain Cel2fT contained menaquinone MK-7 as the isoprenoid quinone, and the DNA G+C content was 31.3 mol%. Phylogenetic analysis revealed that the nearest relative of strain Cel2fT was Brassicibacter mesophilus BMT with 93.8 % 16S rRNA gene sequence similarity. Based on phenotypic, chemotaxonomic and phylogenetic characteristics, strain Cel2fT represents a novel species of genus Brassicibacter, for which the name Brassicibacter thermophilus sp. nov. is proposed. The type strain is Cel2fT ( = JCM 30480T = CGMCC 1.5200T).

scholarly journals Ferrimonas futtsuensis sp. nov. and Ferrimonas kyonanensis sp. nov., selenate-reducing bacteria belonging to the Gammaproteobacteria isolated from Tokyo Bay

2006 ◽  
Vol 56 (11) ◽  
pp. 2639-2645 ◽  
Author(s):  
Tatsunori Nakagawa ◽  
Takao Iino ◽  
Ken-ichiro Suzuki ◽  
Shigeaki Harayama
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Sequence Similarity ◽  
Carbon Sources ◽  
Tokyo Bay ◽  
Elemental Selenium ◽  
Rrna Gene ◽  
Casamino Acids ◽  
Reducing Bacteria

Two novel mesophilic, facultatively anaerobic, selenate-reducing bacteria, designated strains FUT3661T and Asr22-7T, were isolated from a sediment sample and the alimentary tract of littleneck clams, respectively. Both sources of the samples were collected from the coast of Tokyo Bay, Japan. Cells were Gram-negative rods and motile by means of a polar flagellum. The strains reduced selenate to elemental selenium (Se0) and also reduced iron(III) oxyhydroxide, iron(III) citrate, arsenate, manganese(IV) oxide, elemental sulfur and oxygen and used lactate, pyruvate, yeast extract, tryptone and Casamino acids as electron donors and carbon sources. The strains contained both menaquinone (MK-7) and ubiquinones (Q-7 and Q-8) as isoprenoid quinones. The major fatty acids were C16 : 0 and C16 : 1 ω9c. The G+C content of the genomic DNA was 58.1 mol% for strain FUT3661T and 57.2 mol% for strain Asr22-7T. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the strains were related to members of the genus Ferrimonas (<94.0 % similarities), although the two novel strains formed a separate lineage. 16S rRNA gene sequence similarity between strains FUT3661T and Asr22-7T was 96 %. On the basis of this polyphasic analysis, it was concluded that strains FUT3661T and Asr22-7T represent two novel species within the genus Ferrimonas, for which the names Ferrimonas futtsuensis sp. nov. (type strain FUT3661T=NBRC 101558T=DSM 18154T) and Ferrimonas kyonanensis sp. nov. (type strain Asr22-7T=NBRC 101286T=DSM 18153T) are proposed.

Sign in / Sign up

Export Citation Format

Share Document