Mesoaciditoga lauensis gen. nov., sp. nov., a moderately thermoacidophilic member of the order Thermotogales from a deep-sea hydrothermal vent

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4724-4729 ◽  
Author(s):  
Anna-Louise Reysenbach ◽  
Yitai Liu ◽  
Annie R. Lindgren ◽  
Isaac D. Wagner ◽  
Christine D. Sislak ◽  
...  
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
New Genus ◽  
Heterotrophic Bacterium ◽  
Spreading Center ◽  
Rrna Gene ◽  
Content Type ◽  
Moderately Thermophilic ◽  
Optimum Ph ◽  
The 16S Rrna Gene

A novel moderately thermophilic, heterotrophic bacterium was isolated from a deep-sea hydrothermal vent deposit from the Mariner field along the Eastern Lau Spreading Center of the south-western Pacific Ocean. Cells were short motile rods (about 0.4×0.8 µm) that occurred singly or in pairs and were surrounded by a sheath-like membrane or ‘toga’. The cells grew between 45 and 65 °C (optimum 57–60 °C) and at pH 4.1–6.0 (optimum pH 5.5–5.7) and grew optimally at 3 % (w/v) NaCl. The isolate grew on a range of carbon and proteinaceous substrates and reduced sulfur. The G+C content of the DNA was about 45 mol%. Phylogenetic analysis of the 16S rRNA gene sequence placed the new isolate as a deeply diverging lineage within the order Thermotogales . Based on the physiological, morphological and phylogenetic data, the isolate represents a novel species of a new genus with the proposed name Mesoaciditoga lauensis gen. nov., sp. nov. The type strain of Mesoaciditoga lauensis is cd-1655RT ( = DSM 25116T = OCM 1212T).

scholarly journals Nautilia nitratireducens sp. nov., a thermophilic, anaerobic, chemosynthetic, nitrate-ammonifying bacterium isolated from a deep-sea hydrothermal vent

2010 ◽  
Vol 60 (5) ◽  
pp. 1182-1186 ◽  
Author(s):  
Ileana Pérez-Rodríguez ◽  
Jessica Ricci ◽  
James W. Voordeckers ◽  
Valentin Starovoytov ◽  
Costantino Vetriani
Keyword(s):  
Gas Phase ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
East Pacific ◽  
Optimum Ph ◽  
Casamino Acids ◽  
The 16S Rrna Gene

A thermophilic, anaerobic, chemosynthetic bacterium, designated strain MB-1T, was isolated from the walls of an active deep-sea hydrothermal vent chimney on the East Pacific Rise at  ° 50′ N 10 ° 17′ W. The cells were Gram-negative-staining rods, approximately 1–1.5 μm long and 0.3–0.5 μm wide. Strain MB-1T grew at 25–65 °C (optimum 55 °C), with 10–35 g NaCl l−1 (optimum 20 g l−1) and at pH 4.5–8.5 (optimum pH 7.0). Generation time under optimal conditions was 45.6 min. Growth occurred under chemolithoautotrophic conditions with H2 as the energy source and CO2 as the carbon source. Nitrate was used as the electron acceptor, with resulting production of ammonium. Thiosulfate, sulfur and selenate were also used as electron acceptors. No growth was observed in the presence of lactate, peptone or tryptone. Chemo-organotrophic growth occurred in the presence of acetate, formate, Casamino acids, sucrose, galactose and yeast extract under a N2/CO2 gas phase. The G+C content of the genomic DNA was 36.0 mol%. Phylogenetic analysis of the 16S rRNA gene sequence indicated that this organism is closely related to Nautilia profundicola AmHT, Nautilia abyssi PH1209T and Nautilia lithotrophica 525T (95, 94 and 93 % sequence identity, respectively). On the basis of phylogenetic, physiological and genetic considerations, it is proposed that the organism represents a novel species within the genus Nautilia, Nautilia nitratireducens sp. nov. The type strain is MB-1T (=DSM 22087T =JCM 15746T).

scholarly journals Caminibacter mediatlanticus sp. nov., a thermophilic, chemolithoautotrophic, nitrate-ammonifying bacterium isolated from a deep-sea hydrothermal vent on the Mid-Atlantic Ridge

2005 ◽  
Vol 55 (2) ◽  
pp. 773-779 ◽  
Author(s):  
James W. Voordeckers ◽  
Valentin Starovoytov ◽  
Costantino Vetriani
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Optimal Conditions ◽  
Rrna Gene Sequence ◽  
Optimum Ph ◽  
Mid Atlantic Ridge ◽  
The 16S Rrna Gene

A thermophilic, anaerobic, chemolithoautotrophic bacterium, designated strain TB-2T, was isolated from the walls of an active deep-sea hydrothermal vent chimney on the Mid-Atlantic Ridge at 36° 14′ N 33° 54′ W. The cells were Gram-negative rods approximately 1·5 μm in length and 0·75 μm in width. Strain TB-2T grew between 45 and 70 °C (optimum 55 °C), 10 and 40 g NaCl l−1 (optimum 30 g l−1) and pH 4·5 and 7·5 (optimum pH 5·5). Generation time under optimal conditions was 50 min. Growth occurred under chemolithoautotrophic conditions with H2 as the energy source and CO2 as the carbon source. Nitrate or sulfur was used as the electron acceptor, with resulting production of ammonium and hydrogen sulfide, respectively. Oxygen, thiosulfate, sulfite, selenate and arsenate were not used as electron acceptors. Growth was inhibited by the presence of acetate, lactate, formate and peptone. The G+C content of the genomic DNA was 25·6 mol%. Phylogenetic analysis of the 16S rRNA gene sequence indicated that this organism is closely related to Caminibacter hydrogeniphilus and Caminibacter profundus (95·9 and 96·3 % similarity, respectively). On the basis of phylogenetic, physiological and genetic considerations, it is proposed that the organism represents a novel species within the genus Caminibacter, Caminibacter mediatlanticus sp. nov. The type strain is TB-2T (=DSM 16658T=JCM 12641T).

Dissulfuribacter thermophilus gen. nov., sp. nov., a thermophilic, autotrophic, sulfur-disproportionating, deeply branching deltaproteobacterium from a deep-sea hydrothermal vent

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 1967-1971 ◽  
Author(s):  
A. I. Slobodkin ◽  
A.-L. Reysenbach ◽  
G. B. Slobodkina ◽  
T. V. Kolganova ◽  
N. A. Kostrikina ◽  
...  
Keyword(s):  
Energy Source ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Elemental Sulfur ◽  
Phylogenetic Analyses ◽  
Spreading Center ◽  
Rrna Gene ◽  
Content Type ◽  
Physiological Properties ◽  
Ph Range

A thermophilic, anaerobic, chemolithoautotrophic bacterium (strain S69T) was isolated from a deep-sea hydrothermal vent chimney located on the Eastern Lau Spreading Center and Valu Fa Ridge, Pacific Ocean, at a depth of 1910 m using anoxic medium with elemental sulfur as the only energy source. Cells of strain S69T were Gram-negative short rods, 0.4–0.6 µm in diameter and 1.0–2.5 µm in length, motile with a single polar flagellum. The temperature range for growth was 28–70 °C, with an optimum at 61 °C. The pH range for growth was 5.6–7.9, with optimum growth at pH 6.8. Growth of strain S69T was observed at NaCl concentrations ranging from 0.9 to 5.0 %, with an optimum at 1.8–2.7 (w/v). Strain S69T grew anaerobically with elemental sulfur as an energy source and bicarbonate/CO2 as a carbon source. Elemental sulfur was disproportionated to sulfide and sulfate. Growth was enhanced in the presence of poorly crystalline Fe(III) oxide (ferrihydrite) as a sulfide-scavenging agent. Strain S69T was also able to grow by disproportionation of thiosulfate and sulfite. Sulfate was not used as an electron acceptor either with H2 or with organic electron donors. Analysis of the 16S rRNA gene sequence revealed that the isolate formed a distinct phylogenetic branch within the Deltaproteobacteria . On the basis of its physiological properties and results of phylogenetic analyses, strain S69T is considered to represent a novel species of a new genus, for which the name Dissulfuribacter thermophilus gen. nov., sp. nov. is proposed. The type strain of Dissulfuribacter thermophilus is S69T ( = DSM 25762T = VKM B-2760T).

Desulfomarina profundi gen. nov., sp. nov., a novel mesophilic, hydrogen-oxidizing, sulphate-reducing chemolithoautotroph isolated from a deep-sea hydrothermal vent chimney

2021 ◽  
Vol 71 (11) ◽  
Author(s):  
Yurina Hashimoto ◽  
Akihiro Tame ◽  
Shigeki Sawayama ◽  
Junichi Miyazaki ◽  
Ken Takai ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Deep Sea ◽  
Hydrothermal Vent ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Casamino Acids ◽  
The 16S Rrna Gene

A novel mesophilic, strictly anaerobic, chemolithoautotrophic sulphate-reducing bacterium, designated strain KT2T, was isolated from a deep-sea hydrothermal vent chimney at the Suiyo Seamount in the Izu-Bonin Arc. Strain KT2T grew at 25–40 °C (optimum 35 °C) and pH 5.5–7.0 (optimum 6.6) in the presence of 25–45 g l−1 NaCl (optimum 30 g l−1). Growth occurred with molecular hydrogen as the electron donor and sulphate, thiosulphate, and sulphite as the electron acceptors. The isolate utilized CO2 as the sole carbon source for chemolithoautotrophic growth on H2. Glycerol, succinate, fumarate, malate, glutamate, or casamino acids could serve as an alternative electron donor in the presence of CO2. Malate, citrate, glutamate, and casamino acids were used as fermentative substrates for weak growth. The G+C content of genomic DNA was 46.1 %. Phylogenetic analysis of the 16S rRNA gene sequence indicated that strain KT2T is a member of the family Desulfobulbaceae , showing a sequence similarity of 94.3 % with Desulforhopalus singaporensis . Phylogenomic analysis based on concatenated 156 single-copy marker genes confirmed the same topology as the 16S rRNA gene phylogeny. The ANI and AAI values between strain KT2T and related genera of the family Desulfobulbaceae were 65.6–68.6 % and 53.1–62.9 %. Based on the genomic, molecular, and physiological characteristics, strain KT2T represents a novel genus and species within the family Desulfobulbaceae , for which the name Desulfomarina profundi gen. nov., sp. nov. is proposed, with KT2T (=JCM 34118T = DSM 111364T) as the type strain.

Deferrisoma camini gen. nov., sp. nov., a moderately thermophilic, dissimilatory iron(III)-reducing bacterium from a deep-sea hydrothermal vent that forms a distinct phylogenetic branch in the Deltaproteobacteria

2012 ◽  
Vol 62 (Pt_10) ◽  
pp. 2463-2468 ◽  
Author(s):  
G. B. Slobodkina ◽  
A.-L. Reysenbach ◽  
A. N. Panteleeva ◽  
N. A. Kostrikina ◽  
I. D. Wagner ◽  
...  
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Electron Donors ◽  
Rrna Gene ◽  
Content Type ◽  
Moderately Thermophilic ◽  
Link Type ◽  
Ph Range

A moderately thermophilic, anaerobic, dissimilatory iron(III)-reducing bacterium (strain S3R1T) was isolated from a deep-sea hydrothermal vent chimney located on the Eastern Lau Spreading Centre in the Pacific Ocean at a depth of about 2150 m. Cells of strain S3R1T were ovals to short rods with a single polar flagellum, Gram-stain-negative, 0.5–0.6 µm in diameter and 0.8–1.3 µm long, growing singly or in pairs. The temperature range for growth was 36–62 °C, with an optimum at 50 °C. The pH range for growth was 5.5–7.5, with an optimum at pH 6.5. Growth of strain S3R1T was observed at NaCl concentrations ranging from 1.0 to 5.0 % (w/v), with an optimum at 2.0–2.5 % (w/v). The isolate used acetate, fumarate, malate, maleinate, succinate, propanol, palmitate, stearate, peptone and yeast extract as electron donors for growth and iron(III) reduction. All electron donors were oxidized completely to CO2 and H2O. Iron(III) (in the form of ferrihydrite, ferric citrate or ferric nitrilotriacetate) and elemental sulfur (S0) were the electron acceptors that supported growth. The DNA G+C content was 64.4 mol%. Results of 16S rRNA gene sequence analysis showed that the novel bacterium was related to representatives of the orders Desulfuromonadales and Syntrophobacterales with 84–86 % sequence similarity and formed a distinct phylogenetic branch in the Deltaproteobacteria . On the basis of its physiological properties and results of phylogenetic analyses, it is proposed that the new isolate represents the sole species of a novel genus, Deferrisoma camini gen. nov., sp. nov. The type strain of Deferrisoma camini is S3R1T ( = DSM 24185T  = VKM B-2672T).

Pararhodonellum marinum gen. nov., sp. nov., isolated from deep-sea sediment

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Lei Song ◽  
Hongcan Liu ◽  
Ying Huang ◽  
Xin Dai ◽  
Yuguang Zhou
Keyword(s):  
Deep Sea ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Content Type ◽  
Deep Sea Sediment ◽  
Link Type ◽  
The Family ◽  
Optimum Ph ◽  
The Indian Ocean ◽  
The 16S Rrna Gene

A Gram-stain-negative, non-motile bacterial strain, designated SW124T, was isolated from a deep-sea sediment sample collected from the Indian Ocean. SW124T was aerobic and catalase-positive. The strain grew at 4–40 °C (optimum, 30 °C), at pH 5.0–8.6 (optimum, pH 7.0) and in the presence of 0.5–9.5 % (w/v) NaCl (optimum, 3.0%). The results of comparative analyses of the 16S rRNA gene sequence indicated that SW124T was grouped in the vicinity of the genus Rhodonellum in the family Cyclobacteriaceae . The quinone system contained menaquinone MK-7. The predominant cellular fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c). SW124T contained phosphatidylethanolamine (PE) as the major polar lipid. The genomic DNA G+C content of SW124T was 41.7 mol%. On the basis of its phenotypic characteristics and phylogenetic data, we propose that strain SW124T (=CGMCC 1.16171T=KCTC 82235T) represents a novel species of a novel genus, with the name Pararhodonellum marinum gen. nov., sp. nov.

Thermosulfurimonas dismutans gen. nov., sp. nov., an extremely thermophilic sulfur-disproportionating bacterium from a deep-sea hydrothermal vent

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2565-2571 ◽  
Author(s):  
A. I. Slobodkin ◽  
A.-L. Reysenbach ◽  
G. B. Slobodkina ◽  
R. V. Baslerov ◽  
N. A. Kostrikina ◽  
...  
Keyword(s):  
Deep Sea ◽  
Hydrothermal Vent ◽  
Elemental Sulfur ◽  
Phylogenetic Analyses ◽  
Spreading Center ◽  
Rrna Gene ◽  
Content Type ◽  
Physiological Properties ◽  
Bacterium Strain ◽  
Ph Range

An extremely thermophilic, anaerobic, chemolithoautotrophic bacterium (strain S95T) was isolated from a deep-sea hydrothermal vent chimney located on the Eastern Lau Spreading Center, Pacific Ocean, at a depth of 1910 m. Cells of strain S95T were oval to short Gram-negative rods, 0.5–0.6 µm in diameter and 1.0–1.5 µm in length, growing singly or in pairs. Cells were motile with a single polar flagellum. The temperature range for growth was 50–92 °C, with an optimum at 74 °C. The pH range for growth was 5.5–8.0, with an optimum at pH 7.0. Growth of strain S95T was observed at NaCl concentrations ranging from 1.5 to 3.5 % (w/v). Strain S95T grew anaerobically with elemental sulfur as an energy source and bicarbonate/CO2 as a carbon source. Elemental sulfur was disproportionated to sulfide and sulfate. Growth was enhanced in the presence of poorly crystalline iron(III) oxide (ferrihydrite) as a sulfide-scavenging agent. Strain S95T was also able to grow by disproportionation of thiosulfate and sulfite. Sulfate was not used as an electron acceptor. Analysis of the 16S rRNA gene sequence revealed that the isolate belongs to the phylum Thermodesulfobacteria . On the basis of its physiological properties and results of phylogenetic analyses, it is proposed that the isolate represents the sole species of a new genus, Thermosulfurimonas dismutans gen. nov., sp. nov.; S95T ( = DSM 24515T = VKM B-2683T) is the type strain of the type species. This is the first description of a thermophilic micro-organism that disproportionates elemental sulfur.

scholarly journals Cellulomonas endophytica sp. nov., isolated from Gastrodia elata Blume

2020 ◽  
Vol 70 (5) ◽  
pp. 3091-3095 ◽  
Author(s):  
Yan-Qiong Li ◽  
Hui Zhang ◽  
Min Xiao ◽  
Zhou-Yan Dong ◽  
Jing-Yi Zhang ◽  
...  
Keyword(s):  
Cell Wall ◽  
Type Strain ◽  
Rrna Gene ◽  
Gastrodia Elata ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Pr China ◽  
Phosphatidylinositol Mannosides ◽  
The 16S Rrna Gene

A Gram-stain-positive, facultatively anaerobic and non-motile strain, designated SYSUP0004T, was isolated from the tubers of Gastrodia elata Blume collected from Yunnan Province, PR China. The 16S rRNA gene sequence result showed that the strain SYSUP0004T shared low similarity (97.7 %) with the type strain of Cellulomonas marina . SYSUP0004T grew at pH 6.0–9.0 (optimum, pH 8.0), temperature 4–30 °C (optimum, 28 °C) and could tolerate NaCl up to 4 % w/v (optimum in the absence of NaCl). The cell-wall peptidoglycan type was A4β with an interpeptide bridge l-ornithine–d-glutamic acid. Cell-wall sugars were mannose, ribose, glucose, galactose and fucose. The menaquinone was MK-9(H4). The major fatty acids were anteiso-C15:0, anteiso-C15 : 1 A, C16 : 0 and anteiso-C17 : 0. The polar lipids of SYSUP0004T were diphosphatidylglycerol, unidentified phosphoglycolipid, phosphatidylinositol mannosides and unidentified glycolipid. The genomic DNA G+C content was 76.5 %. The average nucleotide identity values between SYSUP0004T and members of the genus Cellulomonas were below the cut-off level (95–96 %) recommended as the ANI criterion for interspecies identity. Thus, based on the above results strain SYSUP0004T represents a novel species of the genus Cellulomonas , for which the name Cellulomonas endophytica sp. nov. is proposed. The type strain, SYSUP0004T (=KCTC 49025T=CGMCC 1.16405T).

Crassaminicella thermophila sp. nov., a moderately thermophilic bacterium isolated from a deep-sea hydrothermal vent chimney and emended description of the genus Crassaminicella

2021 ◽  
Vol 71 (11) ◽  
Author(s):  
Xue-Gong Li ◽  
Jin Lin ◽  
Shi-Jie Bai ◽  
Jie Dai ◽  
Ze-Xi Jiao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Hydrothermal Vent ◽  
Type Species ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Content Type ◽  
Moderately Thermophilic ◽  
Link Type ◽  
Emended Description

A novel moderately thermophilic, anaerobic, heterotrophic bacterium (strain SY095T) was isolated from a hydrothermal vent chimney located on the Southwest Indian Ridge at a depth of 2730 m. Cells were Gram-stain-positive, motile, straight to slightly curved rods forming terminal endospores. SY095T was grown at 45–60 °C (optimum 50–55 °C), pH 6.0–7.5 (optimum 7.0), and in a salinity of 1–4.5 % (w/v) NaCl (optimum 2.5 %). Substrates utilized by SY095T included fructose, glucose, maltose, N-acetyl glucosamine and tryptone. Casamino acid and amino acids (glutamate, glutamine, lysine, methionine, serine and histidine) were also utilized. The main end products from glucose fermentation were acetate, H2 and CO2. Elemental sulphur, sulphate, thiosulphate, sulphite, fumarate, nitrate, nitrite and Fe(III) were not used as terminal electron acceptors. The predominant cellular fatty acids were C14 : 0 (60.5%) and C16 : 0 (7.6 %). The main polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, five unidentified phospholipids and two unidentified aminophospholipids. No respiratory quinones were detected. The chromosomal DNA G+C content was 30.8 mol%. The results of phylogenetic analysis of the 16S rRNA gene sequences indicated that SY095T was closely related to Crassaminicella profunda Ra1766HT (95.8 % 16S rRNA gene sequence identity). SY095T exhibited 78.1 % average nucleotide identity (ANI) to C. profunda Ra1766HT. The in silico DNA–DNA hybridization (DDH) value indicated that SY095T shared 22.7 % DNA relatedness with C. profunda Ra1766HT. On the basis of its phenotypic, genotypic and phylogenetic characteristics, SY095T is suggested to represent a novel species of the genus Crassaminicella , for which the name Crassaminicella thermophila sp. nov. is proposed. The type strain is SY095T (=JCM 34213=MCCC 1K04191). An emended description of the genus Crassaminicella is also proposed.

A thermophilic, hydrogenogenic and carboxydotrophic bacterium, Calderihabitans maritimus gen. nov., sp. nov., from a marine sediment core of an undersea caldera

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3602-3608 ◽  
Author(s):  
Yasuko Yoneda ◽  
Takashi Yoshida ◽  
Hisato Yasuda ◽  
Chiaki Imada ◽  
Yoshihiko Sako
Keyword(s):  
Sediment Core ◽  
Marine Bacterium ◽  
New Genus ◽  
Gene Sequence ◽  
Ferric Iron ◽  
Core Sample ◽  
Rrna Gene ◽  
Content Type ◽  
Bacterium Strain ◽  
The 16S Rrna Gene

A hydrogenogenic, carboxydotrophic marine bacterium, strain KKC1T, was isolated from a sediment core sample taken from a submerged marine caldera. Cells were non-motile, Gram-stain-negative, 1.0–3.0 µm straight rods, often observed with round endospores. Strain KKC1T grew at 55–68 °C, pH 5.2–9.2 and 0.8–14 % (w/v) salinity. Optimum growth occurred at 65 °C, pH 7.0–7.5 and 2.46 % salinity with a doubling time of 3.7 h. The isolate grew chemolithotrophically, producing H2 from carbon monoxide (CO) oxidation with reduction of various electron acceptors, e.g. sulfite, thiosulfate, fumarate, ferric iron and AQDS (9,10-anthraquinone 2,6-disulfonate). KKC1T grew heterotrophically on pyruvate, lactate, fumarate, glucose, fructose and mannose with thiosulfate as an electron acceptor. When grown mixotrophically on CO and pyruvate, C16 : 0 constituted almost half of the total cellular fatty acids. The DNA G+C content was 50.6 mol%. The 16S rRNA gene sequence of KKC1T was most closely related to those of members of the genus Moorella with similarity ranging from 91 to 89 %. Based on physiological and phylogenetic novelty, we propose the isolate as a representative of a new genus and novel species with the name Calderihabitans maritimus gen. nov., sp. nov.; the type strain of the type species is KKC1T ( = DSM 26464T = NBRC 109353T).

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