scholarly journals Halorubrum aquaticum sp. nov., an archaeon isolated from hypersaline lakes

2011 ◽  
Vol 61 (5) ◽  
pp. 1144-1148 ◽  
Author(s):  
M. C. Gutiérrez ◽  
A. M. Castillo ◽  
P. Corral ◽  
M. Kamekura ◽  
A. Ventosa
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Lipid Analysis ◽  
Halophilic Archaea ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Dna Relatedness ◽  
Gene Sequence Analysis ◽  
Nacl Concentration ◽  
Optimum Ph

Two halophilic archaea, strains EN-2T and SH-4, were isolated from the saline lakes Erliannor and Shangmatala, respectively, in Inner Mongolia, China. Cells were strictly aerobic, motile rods. Colonies were red. Strains EN-2T and SH-4 were able to grow at 25–50 °C (optimum 35–40 °C), with 2.5–5.0 M NaCl (optimum 3.4 M NaCl) and at pH 6.0–9.0 (optimum pH 7.5). MgCl2 was not required for growth. Cells lysed in distilled water and the lowest NaCl concentration that prevented cell lysis was 12 % (w/v). On the basis of 16S rRNA gene sequence analysis, strains EN-2T and SH-4 were closely related to Halorubrum cibi B31T (97.9 and 98.0 % similarity, respectively), Hrr. tibetense 8W8T (97.3 and 97.7 %), Hrr. alkaliphilum DZ-1T (96.8 and 97.1 %), Hrr. luteum CGSA15T (96.8 and 97.0 %) and Hrr. lipolyticum 9-3T (96.8 and 97.0 %). DNA–DNA hybridization showed that strains EN-2T and SH-4 did not belong to the same species as any of these strains (≤45 % DNA–DNA relatedness) but that they are members of the same species (>70 % DNA–DNA relatedness). Polar lipid analysis revealed that strains EN-2T and SH-4 contained phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, sulfated diglycosyl diethers and several unidentified glycolipids. The DNA G+C content of both isolates was 62.1 mol%. It was concluded that strains EN-2T and SH-4 represent a novel species of the genus Halorubrum, for which the name Halorubrum aquaticum sp. nov. is proposed. The type strain is EN-2T ( = CECT 7174T  = CGMCC 1.6377T  = JCM 14031T).

scholarly journals Halogeometricum rufum sp. nov., a halophilic archaeon from a marine solar saltern, and emended description of the genus Halogeometricum

2010 ◽  
Vol 60 (11) ◽  
pp. 2613-2617 ◽  
Author(s):  
Heng-Lin Cui ◽  
Xin Yang ◽  
Xia Gao ◽  
Xin-Yi Li ◽  
Xue-Wei Xu ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Halophilic Archaea ◽  
Rrna Gene ◽  
Solar Saltern ◽  
Marine Solar Saltern ◽  
Gene Sequence Analysis ◽  
Nacl Concentration ◽  
Optimum Ph ◽  
Emended Description ◽  
Halogeometricum Borinquense

Two halophilic archaea, strains RO1-4T and RO1-64, were isolated from a marine solar saltern in Jiangsu, China. Cells of the two strains were pleomorphic, motile, and stained Gram-negative. Colonies were red-pigmented. Strains RO1-4T and RO1-64 were able to grow at 25–55 °C (optimum 40–42 °C), at 2.1–5.1 M NaCl (optimum 3.9 M NaCl), at 0.05–0.7 M MgCl2 (optimum 0.3 M MgCl2) and at pH 6.0–8.5 (optimum pH 7.0). Cells lyse in distilled water and the minimal NaCl concentration to prevent cell lysis is 12 % (w/v). On the basis of 16S rRNA gene sequence analysis, strains RO1-4T and RO1-64 were closely related to Halogeometricum borinquense PR3T (98.0 and 98.2 % similarity, respectively) and Halosarcina pallida BZ256T (97.8 and 97.9 %). The major polar lipids of the two strains were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester and two glycolipids (S-DGD-1 and DGD-1). The DNA G+C contents of strains RO1-4T and RO1-64 are 64.9 and 62.4 mol%, respectively. The DNA–DNA hybridization value between strains RO1-4T and RO1-64 was 83.0 % and both strains showed low DNA–DNA relatedness with Halogeometricum borinquense PR3T (42.5 and 50.1 % relatedness, respectively) and Halosarcina pallida BZ256T (37.6 and 42.1 % relatedness). It was concluded that strains RO1-4T and RO1-64 represent a novel species of the genus Halogeometricum, for which the name Halogeometricum rufum sp. nov. is proposed. The type strain is RO1-4T (=CGMCC 1.7736T =JCM 15770T).

scholarly journals Haloplanus aerogenes sp. nov., an extremely halophilic archaeon from a marine solar saltern

2011 ◽  
Vol 61 (4) ◽  
pp. 965-968 ◽  
Author(s):  
Heng-Lin Cui ◽  
Xia Gao ◽  
Xin Yang ◽  
Xue-Wei Xu
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Solar Saltern ◽  
Gas Vesicles ◽  
Marine Solar Saltern ◽  
Gene Sequence Analysis ◽  
Nacl Concentration ◽  
Optimum Ph ◽  
Extremely Halophilic Archaeon

Halophilic archaeal strain TBN37T was isolated from Taibei marine solar saltern near Lianyungang city of Jiangsu province, China. Cells were pleomorphic, flat and contained gas vesicles. Cells of strain TBN37T stained Gram-negative and the colonies were pink-pigmented. The strain was able to grow at 25–50 °C (optimum, 37–40 °C), with 1.4–5.1 M NaCl (optimum, 2.1 M NaCl), with 0–1.0 M MgCl2 (optimum, 0.01 M MgCl2) and at pH 6.0–9.0 (optimum, pH 7.5). Cells lysed in distilled water and the minimal NaCl concentration to prevent cell lysis was 8 % (w/v). The major polar lipids of strain TBN37T were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and one major glycolipid chromatographically identical to sulfated mannosyl glucosyl diether (S-DGD-1). On the basis of 16S rRNA gene sequence analysis, strain TBN37T was closely related to Haloplanus natans and Haloplanus vescus, with the same similarity of 97.4 %. The DNA G+C content of strain TBN37T is 64.1 mol%. DNA–DNA hybridization values between strain TBN37T and Haloplanus natans JCM 14081T and between strain TBN37T and Haloplanus vescus RO5-8T were 37.6 % and 42.1 %, respectively. It was concluded that strain TBN37T represents a novel species of the genus Haloplanus, for which the name Haloplanus aerogenes sp. nov. is proposed. The type strain is TBN37T ( = CGMCC 1.10124T  = JCM 16430T).

Isolation and description of Selenomonas timonae sp. nov., a novel Selenomonas species detected in a gingivitis patient

2021 ◽  
Vol 71 (10) ◽  
Author(s):  
Angéline Antezack ◽  
Manon Boxberger ◽  
Mariem Ben Khedher ◽  
Bernard La Scola ◽  
Virginie Monnet-Corti
Keyword(s):  
Dna Hybridization ◽  
Type Species ◽  
Gene Sequence ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
A Genome ◽  
Optimum Ph

A Gram-stain-negative bacterium, designated strain Marseille-Q3039T, was isolated from subgingival dental plaque of a woman with gingivitis in Marseille, France. Strain Marseille-Q3039T was found to be an anaerobic, motile and spore-forming crescent-shaped bacterium that grew at 25–41.5 °C (optimum, 37 °C), pH 5.5–8.5 (optimum, pH 7.5) and salinity of 5.0 g l−1 NaCl. The results of 16S rRNA gene sequence analysis revealed that strain Marseille-Q3039T was closely related to Selenomonas infelix ATCC 43532T (98.42 % similarity), Selenomonas dianae ATCC 43527T (97.25 %) and Centipedia periodontii DSM 2778T (97.19 %). The orthologous average nucleotide identity and digital DNA–DNA hybridization relatedness between strain Q3039T and its closest phylogenetic neighbours were respectively 84.57 and 28.2 % for S. infelix ATCC 43532T and 83.93 and 27.2 % for C. periodontii DSM 2778T. The major fatty acids were identified as C13 : 0 (27.7 %), C15 : 0 (24.4 %) and specific C13 : 0 3-OH (12.3 %). Genome sequencing revealed a genome size of 2 351 779 bp and a G+C content of 57.2 mol%. On the basis of the results from phenotypic, chemotaxonomic, genomic and phylogenetic analyses and data, we concluded that strain Marseille-Q3039T represents a novel species of the genus Selenomonas , for which the name Selenomonas timonae sp. nov. is proposed (=CSUR Q3039=CECT 30128).

scholarly journals Salinicoccus jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood

2007 ◽  
Vol 57 (3) ◽  
pp. 633-638 ◽  
Author(s):  
Zubair Aslam ◽  
Ju Hyoung Lim ◽  
Wan-Taek Im ◽  
Muhammad Yasir ◽  
Young Ryun Chung ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
16S Rrna Gene Sequences ◽  
Dna Relatedness ◽  
Gene Sequence Analysis ◽  
The Family

A novel, moderately halophilic, Gram-positive coccus, designated strain S2R53-5T, was isolated from jeotgal, a traditional Korean fermented seafood. The organism was strictly aerobic, non-motile, non-sporulating and catalase- and oxidase-positive. Strain S2R53-5T grew in the presence of 0.5–15 % (w/v) NaCl and at pH 6.5–11.0, with optimum growth at 5 % (w/v) NaCl and pH 7.0. The temperature range for growth was 20.0–30.0 °C, with an optimum temperature of 30 °C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S2R53-5T belongs to the family Staphylococcaceae and was most closely related to Salinicoccus roseus DSM 5351T (96.8 % gene sequence similarity), Salinicoccus hispanicus DSM 5352T (96.1 %), Salinicoccus alkaliphilus T8T (95.2 %) and Jeotgalicoccus halotolerans YKJ-101T (95.1 %). The genomic DNA G+C content was 47.0 mol%, which is in the range of 46–51 mol% that is characteristic for the genus Salinicoccus. Levels of DNA–DNA relatedness between strain S2R53-5T and S. roseus DSM 5351T, S. hispanicus DSM 5352T and S. alkaliphilus KCTC 13928T were 32.2, 15.4 and 4.6 %, respectively. Chemotaxonomic data (major menaquinone, MK-6; major fatty acids, iso-C15 : 0 and anteiso-C15 : 0; cell-wall murein type, Lys and Gly) and 16S rRNA gene sequence analysis supported the affiliation of strain S2R53-5T with the genus Salinicoccus. The combined evidence from the low DNA–DNA relatedness, physiological, biochemical and other genotypic data indicate that strain S2R53-5T clearly represents a novel species of the genus Salinicoccus, for which the name Salinicoccus jeotgali sp. nov. is proposed. The type strain is S2R53-5T (=KCTC 13030T=LMG 23640T).

scholarly journals Jeotgalibacillus Auranticolor sp. nov., Isolated from Freshwater Collected from Baiyangdian Lake Lake, China

2021 ◽  
Author(s):  
Yu-nan Liu ◽  
Meng-yu Wei ◽  
Chao Wang ◽  
Zhi-Tang Lyu ◽  
Xiumin zhang ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Draft Genome ◽  
Luria Bertani ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Baiyangdian Lake ◽  
Gene Sequence Analysis ◽  
Optimum Ph ◽  
Diamino Acid

Abstract A novel Gram-positive, strictly aerobic, rod-shaped, orange-pigmented bacterial strain, designated R-1-5s-1T, was isolated from Baiyangdian Lake, China. Strain R-1-5s-1T grew at 15-37℃ (optimum 37℃) and pH 7-11 (optimum pH 8) in Luria-Bertani medium. Based on 16S rRNA gene sequence analysis, strain R-1-5s-1T was assigned to the genus Jeotgalibacillus and showed the closest relationships with Jeotgalibacillus salarius ASL-1T (97.69%), Jeotgalibacillus alkaliphilus JC303T (97.29%), Jeotgalibacillus marinus DSM 1297T (97.15%), Jeotgalibacillus campisalis SF-57T (97.01%), and Jeotgalibacillus spp. (≤ 97%). The predominant polar lipids were phosphatidylglycerol and diphosphatidylglycerol; the major cellular fatty acids were iso-C15:0, anteiso-C15:0, iso-C17:0, and anteiso-C17:0; and the major respiratory quinones were MK-7 and MK-8. The peptidoglycan type of the cell wall was A1a linked via L-lysine as the diamino acid. The G+C content was 43.6%, and the draft genome size of strain R-1-5s-1T was 3.4 Mbp. Between strain R-1-5s-1T and the related strain J. salarius ASL-1T, the ANI and dDDH relatedness values were 78.9% and 20.8%, respectively. Phylogenetic, chemotaxonomic, and genotypic analyses revealed that strain R-1-5s-1T is a novel species in the genus Jeotgalibacillus, for which the name Jeotgalibacillus auranticolor sp. nov. is proposed. The type strain is R-1-5s-1T (=CGMCC 1.13567T=KCTC 43038T).

scholarly journals Halorussus amylolyticus sp. nov., isolated from an inland salt lake

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3734-3738 ◽  
Author(s):  
Pan-Pan Yuan ◽  
Wei-Tao Ye ◽  
Jia-Xiang Pan ◽  
Dong Han ◽  
Wen-Jiao Zhang ◽  
...  
Keyword(s):  
16S Rrna ◽  
Gene Sequence ◽  
Salt Lake ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Shanxi Province ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
Nacl Concentration ◽  
Optimum Ph

A halophilic archaeal strain, YC93T, was isolated from Yuncheng salt lake in Shanxi Province, China. Cells were pleomorphic rods, stained Gram-negative and formed light-red-pigmented colonies on agar plates. Strain YC93T was able to grow at 25–50 °C (optimum 37 °C), with 1.4–4.8 M NaCl (optimum 2.0 M), with 0–1.0 M MgCl2 (optimum 0.05 M) and at pH 6.0–9.5 (optimum pH 7.0). Cells lysed in distilled water and the minimal NaCl concentration to prevent cell lysis was 8 % (w/v). 16S rRNA gene sequence analysis revealed that strain YC93T had two dissimilar 16S rRNA genes both of which were phylogenetically related to those of the two recognized members of the genus Halorussus (93.0–95.3 % similarity). The rpoB′ gene of strain YC93T was phylogenetically related to the corresponding gene of Halorussus rarus TBN4T (91.3 % similarity) and Halorussus ruber YC25T (90.5 %). The major polar lipids were phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and five glycolipids chromatographically identical to those of Halorussus rarus CGMCC 1.10122T. The DNA G+C content of strain YC93T was 64.6 mol%. The phenotypic, chemotaxonomic and phylogenetic properties suggested that strain YC93T represents a novel species of the genus Halorussus, for which the name Halorussus amylolyticus sp. nov. is proposed. The type strain is YC93T ( = CGMCC 1.12126T = JCM 18367T).

scholarly journals Haloferax sulfurifontis sp. nov., a halophilic archaeon isolated from a sulfide- and sulfur-rich spring

2004 ◽  
Vol 54 (6) ◽  
pp. 2275-2279 ◽  
Author(s):  
Mostafa S. Elshahed ◽  
Kristen N. Savage ◽  
Aharon Oren ◽  
M. Carmen Gutierrez ◽  
Antonio Ventosa ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Lipid Analysis ◽  
Rrna Gene ◽  
Halophilic Archaeon ◽  
Physiological Characterization ◽  
Gene Sequence Analysis ◽  
Wide Range ◽  
The Family ◽  
Extremely Halophilic Archaeon

A pleomorphic, extremely halophilic archaeon (strain M6T) was isolated from a sulfide- and sulfur-rich spring in south-western Oklahoma (USA). It formed small (0·8–1·0 mm), salmon pink, elevated colonies on agar medium. The strain grew in a wide range of NaCl concentrations (6 % to saturation) and required at least 1 mM Mg2+ for growth. Strain M6T was able to reduce sulfur to sulfide anaerobically. 16S rRNA gene sequence analysis indicated that strain M6T belongs to the family Halobacteriaceae, genus Haloferax; it showed 96·7–98·0 % similarity to other members of the genus with validly published names and 89 % similarity to Halogeometricum borinquense, its closest relative outside the genus Haloferax. Polar lipid analysis and DNA G+C content further supported placement of strain M6T in the genus Haloferax. DNA–DNA hybridization values, as well as biochemical and physiological characterization, allowed strain M6T to be differentiated from other members of the genus Haloferax. A novel species, Haloferax sulfurifontis sp. nov., is therefore proposed to accommodate the strain. The type strain is M6T (=JCM 12327T=CCM 7217T=DSM 16227T=CIP 108334T).

scholarly journals Alcanivorax gelatiniphagus sp. nov., a marine bacterium isolated from tidal flat sediments enriched with crude oil

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2204-2208 ◽  
Author(s):  
Kae Kyoung Kwon ◽  
Ji Hye Oh ◽  
Sung-Hyun Yang ◽  
Hyun-Seok Seo ◽  
Jung-Hyun Lee
Keyword(s):  
Dna Hybridization ◽  
Marine Bacterium ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Characteristics ◽  
Gene Sequence Analysis ◽  
Optimum Ph ◽  
Tidal Flat Sediments

A Gram-reaction-negative, rod-shaped marine bacterium, designated MEBiC08158T, was isolated from sediments collected from Taean County, Korea, near the Hebei Spirit tanker oil spill accident. 16S rRNA gene sequence analysis revealed that strain MEBiC08158T was closely related to Alcanivorax marinus R8-12T (99.5 % similarity) but was distinguishable from other members of the genus Alcanivorax (93.7–97.1 %). The DNA–DNA hybridization value between strain MEBiC08158T and A. marinus R8-12T was 58.4 %. Growth of strain MEBiC08158T was observed at 15–43 °C (optimum 37–40 °C), at pH 6.0–9.5 (optimum pH 7.0–8.0) and with 0.5–16 % NaCl (optimum 1.5–3.0 %). The dominant fatty acids were C16 : 0, C19 : 0 cyclo ω8c, C12 : 0, C18 : 1ω7c, C12 : 0 3-OH and summed feature 3 (comprising C15 : 0 2-OH and/or C16 : 1ω7c). Several phenotypic characteristics differentiate strain MEBiC08158T from phylogenetically close members of the genus Alcanivorax. Therefore, strain MEBiC08158T should be classified as representing a novel species of the genus Alcanivorax, for which the name Alcanivorax gelatiniphagus sp. nov. is proposed. The type strain is MEBiC08158T ( = KCCM 42990T = JCM 18425T).

scholarly journals Halolamina pelagica gen. nov., sp. nov., a new member of the family Halobacteriaceae

2011 ◽  
Vol 61 (7) ◽  
pp. 1617-1621 ◽  
Author(s):  
Heng-Lin Cui ◽  
Xia Gao ◽  
Xin Yang ◽  
Xue-Wei Xu
Keyword(s):  
Dna Hybridization ◽  
New Genus ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Marine Solar Saltern ◽  
The Family ◽  
Nacl Concentration ◽  
Optimum Ph

Two extremely halophilic archaeal strains, TBN21T and TBN49, were isolated from the Taibei marine solar saltern near Lianyungang city, Jiangsu province, China. Cells of the two strains were pleomorphic and Gram-negative and colonies were red. Strains TBN21T and TBN49 were able to grow at 25–50 °C (optimum 37 °C), at 1.4–5.1 M NaCl (optimum 3.4–3.9 M) and at pH 5.5–9.5 (optimum pH 7.0–7.5) and neither strain required Mg2+ for growth. Cells lysed in distilled water and the minimal NaCl concentration to prevent cell lysis was 8 % (w/v). The major polar lipids of the two strains were phosphatidic acid, phosphatidylglycerol, phosphatidylglycerol phosphate methyl ester, phosphatidylglycerol sulfate and eight glycolipids; three of these glycolipids (GL3, GL4 and GL5) were chromatographically identical to sulfated mannosyl glucosyl diether (S-DGD-1), galactosyl mannosyl glucosyl diether (TGD-1) and mannosyl glucosyl diether (DGD-1), respectively. Phylogenetic analysis revealed that strains TBN21T and TBN49 formed a distinct clade with their closest relative, Halobaculum gomorrense JCM 9908T (89.0–89.5 % 16S rRNA gene sequence similarity). The DNA G+C contents of strains TBN21T and TBN49 were 64.8 and 62.7 mol%, respectively. DNA–DNA hybridization between strains TBN21T and TBN49 was 90.1 %. The phenotypic, chemotaxonomic and phylogenetic properties suggest that strains TBN21T and TBN49 represent a novel species in a new genus within the family Halobacteriaceae, for which the name Halolamina pelagica gen. nov., sp. nov. is proposed. The type strain of Halolamina pelagica is TBN21T ( = CGMCC 1.10329T  = JCM 16809T).

scholarly journals Herbidospora sakaeratensis sp. nov., isolated from soil, and reclassification of Streptosporangium claviforme as a later synonym of Herbidospora cretacea

2011 ◽  
Vol 61 (4) ◽  
pp. 777-780 ◽  
Author(s):  
Antika Boondaeng ◽  
Chanwit Suriyachadkun ◽  
Yuumi Ishida ◽  
Tomohiko Tamura ◽  
Shinji Tokuyama ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Biosphere Reserve ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Dna Relatedness ◽  
Gene Sequence Analysis ◽  
Actinomycete Strain ◽  
Type Strains

An actinomycete strain, DMKUA 205T, was isolated from a soil sample collected from the Sakaerat Biosphere Reserve in Nakhonratchasima Province, Thailand. The novel strain produced short chains of non-motile spores on the tips of long sporophores branching from the vegetative hyphae. The morphological and chemotaxonomic properties of this new isolate corresponded to those of members of the genus Herbidospora. Furthermore, 16S rRNA gene sequence analysis showed that the strain was closely related to members of the genus Herbidospora. Phenotypic properties and DNA–DNA relatedness values differentiated the new strain from its closest phylogenetic relatives Herbidospora yilanensis 0351M-12T (35–54 % DNA–DNA relatedness) and Herbidospora daliensis 0385M-1T (58–65 % relatedness). On the basis of phenotypic, genotypic and phylogenetic data, strain DMKUA 205T could be clearly distinguished from the type strains of H. yilanensis and H. daliensis. Therefore, strain DMKUA 205T represents a novel species, for which the name Herbidospora sakaeratensis sp. nov. is proposed. The type strain is strain DMKUA 205T ( = BCC 11662T = NBRC 102641T). In addition, the DNA–DNA hybridization results from this study revealed that Streptosporangium claviforme is a later synonym of Herbidospora cretacea.

Sign in / Sign up

Export Citation Format

Share Document