scholarly journals Georgenia halophila sp. nov., a halophilic actinobacterium isolated from a salt lake

2010 ◽  
Vol 60 (6) ◽  
pp. 1317-1421 ◽  
Author(s):  
Shu-Kun Tang ◽  
Yun Wang ◽  
Jae-Chan Lee ◽  
Kai Lou ◽  
Dong-Jin Park ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
North West ◽  
Diamino Acid ◽  
Unknown Phospholipid ◽  
Phosphatidylinositol Mannosides

A Gram-stain-positive actinobacterium, designated strain YIM 93316T, was isolated from a salt lake in Xinjiang Province, north-west China, and was subjected to a polyphasic taxonomic study. The isolate grew at 10–45 °C, at pH 6–9 and in the presence of 1–15 % (w/v) NaCl, but no growth was observed in the absence of NaCl. The cell-wall diamino acid contained alanine, glutamine and lysine with peptidoglycan type A4α. Polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannosides, an unknown glycolipid and an unknown phospholipid. The predominant menaquinone was MK-8(H4). The major fatty acids were anteiso-C15 : 0 and anteiso-C15 : 1. The DNA G+C content of strain YIM 93316T was 70.1 mol%. Chemotaxonomic properties supported the affiliation of strain YIM 93316T to the genus Georgenia, and this was supported by phylogenetic analysis based on 16S rRNA gene sequences. Levels of 16S rRNA gene sequence similarity between strain YIM 93316T and Georgenia thermotolerans TT02-04T, Georgenia ruanii YIM 004T and Georgenia muralis 1A-CT were 96.6, 96.5 and 96.3 %, respectively. Data from fatty acid, physiological and biochemical tests allowed the clear phenotypic differentiation of strain YIM 93316T from recognized members of the genus Georgenia. On the basis of evidence from the present polyphasic study, strain YIM 93316T is considered to represent a novel species of the genus Georgenia, for which the name Georgenia halophila sp. nov. is proposed. The type strain is YIM 93316T (=DSM 21365T =CCTCC AB 208144T).

scholarly journals Microbacterium murale sp. nov., isolated from an indoor wall

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2669-2673 ◽  
Author(s):  
P. Kämpfer ◽  
J. Schäfer ◽  
N. Lodders ◽  
K. Martin
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Physiological And Biochemical Characteristics ◽  
Diamino Acid ◽  
Unknown Phospholipid

A Gram-positive rod, designated 01-Gi-001T, was isolated from a wall colonized with moulds. The 16S rRNA gene sequence analysis clearly showed that the isolate belonged to the genus Microbacterium . On the basis of pairwise comparisons of 16S rRNA gene sequences, strain 01-Gi-001T was most closely related to Microbacterium hydrocarbonoxydans DSM 16089T (98.9 % sequence similarity), Microbacterium profundi Shh49T (98.7 %), Microbacterium phyllosphaerae DSM 13468T (98.3 %) and Microbacterium foliorum DSM 12966T (98.1 %). The diagnostic diamino acid of the peptidoglycan was ornithine. The major menaquinones detected were MK-13 and MK-12. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, one unknown phospholipid and one unknown glycolipid. The major fatty acids were anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0, which were in agreement with those reported for other members of the genus Microbacterium . Physiological and biochemical characteristics and DNA–DNA relatedness between strain 01-Gi-001T and the type strains of its closest phylogenetic neighbours showed clear differences. For this reason, strain 01-Gi-001T ( = DSM 22178T = CCM 7640T) is proposed as the type strain of a novel species, Microbacterium murale sp. nov.

scholarly journals Haloactinobacterium album gen. nov., sp. nov., a halophilic actinobacterium, and proposal of Ruaniaceae fam. nov.

2010 ◽  
Vol 60 (9) ◽  
pp. 2113-2119 ◽  
Author(s):  
Shu-Kun Tang ◽  
Xiao-Yang Zhi ◽  
Yun Wang ◽  
Jin-Yuan Wu ◽  
Jae-Chan Lee ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Gene Signature ◽  
Rrna Gene ◽  
North West ◽  
Gram Staining

A Gram-staining-positive, facultatively anaerobic, non-motile and moderately halophilic actinobacterium, designated YIM 93306T, was isolated from a salt lake in Xinjiang province, north-west China, and subjected to a polyphasic taxonomic study. Strain YIM 93306T grew in the presence of 2–16 % (w/v) NaCl and did not grow without NaCl. The peptidoglycan type was A4α with an l-Lys–l-Glu interpeptide bridge. The whole-cell sugars were glucosamine, arabinose, mannose and two unknown sugars. The predominant menaquinone was MK-8(H4). The major fatty acids were iso-C15 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. The polar lipids comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, one unknown phosphoglycolipid and one unknown phospholipid. The DNA G+C content was 68.3 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YIM 93306T fell within the radius of the suborder Micrococcineae. Its closest phylogenetic neighbour was the type strain of Ruania albidiflava (AS 4.3142T; 96.2 % 16S rRNA gene sequence similarity), the sole recognized species of the genus Ruania. Sequence similarities between strain YIM 93306T and members of other genera of the suborder Micrococcineae were <95.2 %. On the basis of phylogenetic analysis, phenotypic characteristics and chemotaxonomic differences, a novel genus and species, Haloactinobacterium album gen. nov., sp. nov., is proposed. The type strain of the species is YIM 93306T (=DSM 21368T =KCTC 19413T =CCTCC AB 208069T). Based on phylogenetic characteristics and 16S rRNA gene signature nucleotide patterns, the genera Ruania and Haloactinobacterium gen. nov. are proposed to belong to a novel family, Ruaniaceae fam. nov.

scholarly journals Pseudonocardia artemisiae sp. nov., isolated from surface-sterilized Artemisia annua L.

2011 ◽  
Vol 61 (5) ◽  
pp. 1061-1065 ◽  
Author(s):  
Guo-Zhen Zhao ◽  
Jie Li ◽  
Hai-Yu Huang ◽  
Wen-Yong Zhu ◽  
Li-Xing Zhao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Artemisia Annua ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Actinomycete Strain ◽  
Diamino Acid ◽  
Unknown Phospholipid ◽  
Phosphatidylinositol Mannosides ◽  
Type Strains

A novel actinomycete strain, designated YIM 63587T, was isolated from surface-sterilized roots of Artemisia annua L. collected from Yunnan province, south-west China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 63587T was affiliated to the genus Pseudonocardia. 16S rRNA gene sequence similarities between strain YIM 63587T and type strains of species of the genus Pseudonocardia were 96.6–93.8 %. The diagnostic cell-wall diamino acid in the peptidoglycan layer of strain YIM 63587T was meso-diaminopimelic acid and the whole-cell sugars were arabinose, galactose, mannose and ribose. The predominant menaquinone was MK-8(H4) (97.7 %). The phospholipids were diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, phosphatidylinositol mannosides, phosphatidylinositol and an unknown phospholipid. The major cellular fatty acids (>5 %) were iso-C16 : 0 (44.7 %), iso-C14 : 0 (10.3 %), iso-C16 : 1 H (9.8 %) and iso-C15 : 0 (7.7 %). The G+C content of the genomic DNA was 68.2 mol%. On the basis of phylogenetic, physiological and chemotaxonomic data, strain YIM 63587T represents a novel species of the genus Pseudonocardia, for which the name Pseudonocardia artemisiae sp. nov. is proposed. The type strain is YIM 63587T ( = DSM 45313T = CCTCC AA 208081T).

scholarly journals Amycolatopsis halophila sp. nov., a halophilic actinomycete isolated from a salt lake

2010 ◽  
Vol 60 (5) ◽  
pp. 1073-1078 ◽  
Author(s):  
Shu-Kun Tang ◽  
Yun Wang ◽  
Tong-Wei Guan ◽  
Jae-Chan Lee ◽  
Chang-Jin Kim ◽  
...  
Keyword(s):  
Cell Wall ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
North West ◽  
Halophilic Actinomycete ◽  
Type Strains

A novel halophilic actinomycete, designated strain YIM 93223T, was isolated from a salt lake in Xinjiang Province, north-west China, and was subjected to a polyphasic taxonomic study. The isolate grew at 25–45 °C, at pH 6–8 and in the presence of 1–15 % (w/v) NaCl; no growth was observed in the absence of NaCl. Strain YIM 93223T contained meso-diaminopimelic acid, glutamic acid and alanine as cell-wall amino acids, and glucose and galactose as major whole-cell-wall sugars. Major fatty acids were iso-C16 : 0, C16 : 0 and C16 : 1 ω7c/iso-C15 : 0 2-OH. MK-8(H4) was the predominant menaquinone. The genomic DNA G+C content was 66.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 93223T belongs to the genus Amycolatopsis. It shared highest 16S rRNA gene sequence similarity with Amycolatopsis palatopharyngis 1BDZT (96.6 %) and Amycolatopsis marina Ms392AT (96.4 %), but lower values (94.5–96.2 %) with the type strains of other recognized species of the genus Amycolatopsis. On the basis of the data from this polyphasic study, strain YIM 93223T is considered to represent a novel species of the genus Amycolatopsis, for which the name Amycolatopsis halophila sp. nov. is proposed. The type strain is YIM 93223T (=DSM 45216T =KCTC 19403T).

scholarly journals Haloechinothrix alba gen. nov., sp. nov., a halophilic, filamentous actinomycete of the suborder Pseudonocardineae

2010 ◽  
Vol 60 (9) ◽  
pp. 2154-2158 ◽  
Author(s):  
Shu-Kun Tang ◽  
Yun Wang ◽  
Hua Zhang ◽  
Jae-Chan Lee ◽  
Kai Lou ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
North West ◽  
Novel Genus And Species

A novel halophilic, filamentous actinomycete strain, designated YIM 93221T, was isolated from a salt lake in Xinjiang province, north-west China, and subjected to a polyphasic taxonomic characterization. The isolate grew with 9–23 % (w/v) NaCl and did not grow without NaCl. The isolate formed spiny aerial mycelium and did not form spores at maturity. The isolate contained meso-diaminopimelic acid as the diagnostic diamino acid and glucose, glucosamine, mannose and an unknown sugar as the major whole-cell sugars. The phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannosides and an unknown phospholipid. MK-8(H4) was the predominant menaquinone. The major fatty acid was iso-C16 : 0. The DNA G+C content was 68.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YIM 93221T formed a distinct lineage within the suborder Pseudonocardineae and showed 91.9–94.8 % 16S rRNA gene sequence similarity with members of the suborder Pseudonocardineae. On the basis of the evidence from this polyphasic study, a novel genus and species, Haloechinothrix alba gen. nov., sp. nov., are proposed. The type strain of Haloechinothrix alba is YIM 93221T (=DSM 45207T =CCTCC AB 208140T).

scholarly journals Nocardia acidivorans sp. nov., isolated from soil of the island of Stromboli

2007 ◽  
Vol 57 (6) ◽  
pp. 1183-1187 ◽  
Author(s):  
Peter Kämpfer ◽  
Birgit Huber ◽  
Sandra Buczolits ◽  
Kathrin Thummes ◽  
Iris Grün-Wollny ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Polar Lipid ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Phenotypic Differentiation ◽  
Bacterium Strain ◽  
Phosphatidylinositol Mannosides

A Gram-positive, non-spore-forming bacterium (strain GW4-1778T) was isolated from soil of the Italian island of Stromboli. 16S rRNA gene sequence similarity studies showed that strain GW4-1778T is a member of the genus Nocardia, most closely related to Nocardia pseudobrasiliensis (GenBank accession no. DQ659914; 98.6 %), Nocardia nova (Z36930; 98.6 %), Nocardia niigatensis (AB092563; 98.4 %), Nocardia jiangxiensis (AY639902; 98.0 %), Nocardia uniformis (Z46752; 98.0 %) and Nocardia miyunensis (AY639901; 97.8 %). Strain GW4-1778T could be distinguished from any other established Nocardia species by sequence similarity values of less than 97.5 %. Strain GW4-1778T exhibited a quinone system with the predominant compound MK-8 (H4, ω-cycl) (99.5 %) and traces of MK-8 (H4), characteristic for the genus Nocardia. The polar lipid profile of strain GW4-1778T consisted of the predominant compound diphosphatidylglycerol, moderate amounts of phosphatidylethanolamine, phosphatidylinositol, two phosphatidylinositol mannosides, a unknown polar lipid and trace amounts of two unknown lipids and the major fatty acids were C15 : 0, C16 : 0, C17 : 1 ω8c and 10-methyl C17 : 0. The results of DNA–DNA hybridizations and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain GW4-1778T from related species with 16S rRNA gene similarities of >97.5 %. Therefore, strain GW4-1778T merits species status, for which the name Nocardia acidivorans sp. nov. is proposed, with the type strain GW4-1778T (=CCUG 53410T=CIP 109315T=DSM 45049T).

Thauera humireducens sp. nov., a humus-reducing bacterium isolated from a microbial fuel cell

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 873-878 ◽  
Author(s):  
Gui-Qin Yang ◽  
Jun Zhang ◽  
Soon-Wo Kwon ◽  
Shun-Gui Zhou ◽  
Lu-Chao Han ◽  
...  
Keyword(s):  
Fuel Cell ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Microbial Fuel Cell ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Content Type ◽  
Link Type

A Gram-negative, rod-shaped, non-spore-forming bacterium, designated SgZ-1T, was isolated from the anode biofilm of a microbial fuel cell. The strain had the ability to grow under anaerobic condition via the oxidation of various organic compounds coupled to the reduction of anthraquione-2,6-disulfonate (AQDS) to anthrahydroquinone-2,6-disulfonate (AHQDS). Growth occurred in TSB in the presence of 0–5.5 % (w/v) NaCl (optimum 0–1 %), at 10–45 °C (optimum 25–37 °C) and at pH 6.0–10.0 (optimum 8.0–8.5). Based on 16S rRNA gene sequence similarity, strain SgZ-1T belonged to the genus Thauera . The highest level of 16S rRNA gene sequences similarity (96.7 %) was found to be with Thauera aminoaromatica S2 T and Thauera selenatis AXT, and lower values were obtained when compared with other recognized Thauera species. Chemotaxonomic analysis revealed that strain SgZ-1T contained Q-8 as the predominant quinone, and putrescine and 2-hydroxyputrescine as the major polyamines. The major cellular fatty acids (>5 %) were C16 : 1ω6c and/or C16 : 1ω7c (44.6 %), C16 : 0 (18.8 %), and C18 : 1ω6c and/or C18 : 1ω7c (12.7 %). Based on its phenotypic and phylogenetic properties, chemotaxonomic analysis and the results of physiological and biochemical tests, strain SgZ-1T ( = KACC 16524T = CCTCC M 2011497T) was designated the type strain of a novel species of the genus Thauera , for which the name Thauera humireducens sp. nov. was proposed.

Longimycelium tulufanense gen. nov., sp. nov., a filamentous actinomycete of the family Pseudonocardiaceae

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2813-2818 ◽  
Author(s):  
Zhan-Feng Xia ◽  
Tong-Wei Guan ◽  
Ji-Sheng Ruan ◽  
Ying Huang ◽  
Li-Li Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
North West ◽  
Link Type ◽  
The Family

A novel filamentous actinomycete strain, designated TRM 46004T, was isolated from sediment of Aiding Lake in Tulufan Basin (42° 64′ N 89° 26′ E), north-west China. The isolate was characterized using a polyphasic approach. The isolate formed abundant aerial mycelium with few branches and vegetative mycelium, occasionally twisted and coiled; spherical sporangia containing one to several spherical spores developed at the ends of short sporangiophores on aerial mycelium. The G+C content of the DNA was 65.2 mol%. The isolate contained meso-diaminopimelic acid as the diagnostic diamino acid and xylose, galactose and ribose as the major whole-cell sugars. The diagnostic phospholipids were phosphatidylethanolamine, phosphatidylcholine and phosphatidylglycerol. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-9(H10). The major fatty acids were iso-C16 : 0 and anteiso-C17 : 0. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain TRM 46004T formed a distinct lineage within the family Pseudonocardiaceae and showed 91.7–96.1 % 16S rRNA gene sequence similarity with members of the family Pseudonocardiaceae . On the basis of the evidence from this polyphasic study, a novel genus and species, Longimycelium tulufanense gen. nov., sp. nov., are proposed. The type strain of Longimycelium tulufanense is TRM 46004T ( = CGMCC 4.5737T = NBRC 107726T).

Deinococcus cellulosilyticus sp. nov., isolated from air

2007 ◽  
Vol 57 (8) ◽  
pp. 1685-1688 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Peter Schumann ◽  
Jung-A Son ◽  
Jaeseon Jang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Data ◽  
Polar Lipid Profile ◽  
Unknown Phospholipid ◽  
Air Sample

A pink-coloured bacterial strain, 5516J-15T, was isolated from an air sample from Jeju Island, Republic of Korea. The organism was found to have resistance to UV radiation typical of members of the genus Deinococcus, and it was placed within the radiation of the Deinococcus on a phylogenetic tree based on 16S rRNA gene sequences. Strain 5516J-15T shared low 16S rRNA gene sequence similarity (84.5–87.8 %) with Deinococcus species, showing highest sequence similarity to Deinococcus deserti VCD115T (87.8 %) and Deinococcus indicus Wt/1aT (87.8 %). Strain 5516J-15T had type A3β peptidoglycan with l-ornithine, menaquinone 8 (MK-8) as the major quinone and iso-C12 : 0, anteiso-C13 : 0, iso-C16 : 0 and C16 : 0 as the major fatty acids. Its polar lipid profile contained three unknown aminophospholipids, two unknown polar lipids, one unknown phospholipid and one unknown glycolipid. The DNA G+C content of strain 5516J-15T was 61.3 mol%. Based on the phylogenetic and phenotypic data presented, it is proposed that the unknown strain should be classified within a novel species in the genus Deinococcus with the name Deinococcus cellulosilyticus sp. nov. The type strain is 5516J-15T (=KACC 11606T =DSM 18568T).

scholarly journals Flavisolibacter ginsengiterrae gen. nov., sp. nov. and Flavisolibacter ginsengisoli sp. nov., isolated from ginseng cultivating soil

2007 ◽  
Vol 57 (8) ◽  
pp. 1834-1839 ◽  
Author(s):  
Min-Ho Yoon ◽  
Wan-Taek Im
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Separate Species

Two strains (Gsoil 492T and Gsoil 643T) isolated in Pocheon Province, South Korea, from soil used for ginseng cultivation were characterized using a polyphasic approach. Both isolates comprised Gram-negative, aerobic, non-motile, rod-shaped bacteria. They had similar chemotaxonomic characteristics, e.g. containing MK-7 as the major quinone, having a DNA G+C content in the range 42.5–43.3 mol% and possessing iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. A phylogenetic analysis based on 16S rRNA gene sequences indicated that the two isolates formed a tight cluster with several uncultured bacterial clones and with the established genera Terrimonas, Niastella and Chitinophaga in the phylum Bacteroidetes but were clearly separate from these genera. The levels of 16S rRNA gene sequence similarity between the isolates and type strains of related genera ranged from 87.5 to 92.4 %. Furthermore, the results of physiological and biochemical tests allowed phenotypic differentiation of the isolates from phylogenetically closely related species with validly published names. The level of 16S rRNA gene sequence similarity between the two strains was 99.5 %, whereas the DNA–DNA relatedness value was 44 %, indicating that they represent separate species. On the basis of the polyphasic evidence, a novel genus, Flavisolibacter gen. nov., and two novel species, Flavisolibacter ginsengiterrae sp. nov. (type strain Gsoil 492T=KCTC 12656T=DSM 18136T) and Flavisolibacter ginsengisoli sp. nov. (type strain Gsoil 643T=KCTC 12657T=DSM 18119T), are proposed. Flavisolibacter ginsengiterrae is the type species of the genus.

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