scholarly journals Dactylosporangium darangshiense sp. nov., isolated from rock soil

2010 ◽  
Vol 60 (6) ◽  
pp. 1256-1260 ◽  
Author(s):  
Seong Hae Seo ◽  
Soon Dong Lee
Keyword(s):  
Dna Hybridization ◽  
Unsaturated Fatty Acids ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Aerial Mycelium ◽  
Rock Surface ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Physiological Properties ◽  
Type Strains

A novel actinomycete was isolated from soil of a rock surface collected from the peak of Darangshi Oreum (Small Mountain) in Jeju, Republic of Korea. Phylogenetic analyses based on 16S rRNA gene sequences demonstrated that strain DLS-44T belonged to the genus Dactylosporangium, with the type strains of Dactylosporangium roseum (99.1 % sequence similarity) and Dactylosporangium fulvum (99.0 %) as the nearest phylogenetic relatives. Substrate mycelium was abundant, irregularly branched, twisted and vivid orange–yellow in colour. Aerial mycelium was not produced on most media tested. Finger-shaped sporangia and globose bodies were formed directly from the vegetative mycelium. The combination of morphological and chemotaxonomic characteristics supported assignment of the actinomycete to the genus Dactylosporangium. Strain DLS-44T could be distinguished clearly from all type strains of the genus based on its physiological properties (utilization of methyl α-d-mannoside and glycerol, nitrate reduction and growth at 20 °C and pH 9.1) and some chemotaxonomic characteristics (absence of unsaturated fatty acids). DNA–DNA relatedness values between strain DLS-44T and its closest phylogenetic relatives were 12.2–14.8 % with D. roseum DSM 43916T and 2.5–3.6 % with D. fulvum IMSNU 22055T. On the basis of phenotypic, phylogenetic and DNA–DNA hybridization data, strain DLS-44T represents a novel species of the genus Dactylosporangium, for which the name Dactylosporangium darangshiense sp. nov. is proposed. The type strain is strain DLS-44T (=KCTC 19560T =DSM 45260T).

scholarly journals Nocardiopsis arvandica sp. nov., isolated from sandy soil

2011 ◽  
Vol 61 (5) ◽  
pp. 1189-1194 ◽  
Author(s):  
Javad Hamedi ◽  
Fatemeh Mohammadipanah ◽  
Gabriele Pötter ◽  
Cathrin Spröer ◽  
Peter Schumann ◽  
...  
Keyword(s):  
Sandy Soil ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Actinomycete Strain ◽  
Taxonomic Approach

An actinomycete strain, HM7T, was isolated from sandy soil from the banks of the Arvand River, Khoramshahr, Iran. In a study conducted using a polyphasic taxonomic approach, it was found that this strain represented a novel species in the genus Nocardiopsis. Strain HM7T had long, branched substrate mycelia and the aerial mycelium completely fragmented to long chains of rod-shaped spores. The cell wall of strain HM7T contained meso-diaminopimelic acid, galactose and ribose. The predominant phospholipids were phosphatidylglycerol, phosphatidylethanolamine diphosphatidylglycerol, and phosphatidylcholine. The main menaquinones were MK-10(H2), MK-10(H4), MK-10(H0) and MK-9(H2). Strain HM7T showed the highest degree of 16S rRNA gene sequence similarity with Nocardiopsis sinuspersici UTMC 00102T (99.8 %) and Nocardiopsis quinghaiensis YIM 28A4T (99.3 %), but differed significantly from these type strains based on DNA–DNA hybridization data (37.6 and 38.9 % relatedness, respectively). Physiological, biochemical and phenotypic characteristics allowed strain HM7T to be differentiated from related species. On the basis of results from phenotypic and phylogenetic analyses, strain HM7T is considered to represent a novel species of the genus Nocardiopsis, for which the name Nocardiopsis arvandica sp. nov. is proposed; the type strain of this species is HM7T ( = UTMC 00103T = DSM 45278T = CCUG 58831T).

scholarly journals Glaciecola arctica sp. nov., isolated from Arctic marine sediment

2011 ◽  
Vol 61 (10) ◽  
pp. 2338-2341 ◽  
Author(s):  
Yan-Jiao Zhang ◽  
Xi-Ying Zhang ◽  
Zi-Hao Mi ◽  
Chun-Xiao Chen ◽  
Zhao-Ming Gao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Sediment ◽  
Dna Hybridization ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Gene Sequence Analysis ◽  
Curved Rods ◽  
Type Strains

A Gram-negative, motile, psychrotolerant, oxidase- and catalase-positive bacterium, designated BSs20135T, was isolated from Arctic marine sediment. Cells were straight or slightly curved rods and formed circular, convex and yellowish-brown colonies. Buds and prosthecae could be produced. The strain grew at 4–28 °C (optimum 25 °C) and with 1–5 % (w/v) NaCl (optimum 2 %) and hydrolysed aesculin and DNA, but did not reduce nitrate to nitrite. Phylogenetic analysis of 16S rRNA gene sequences indicated that strain BSs20135T belonged to the genus Glaciecola and shared 93.6–97.7 % sequence similarity with the type strains of known species of the genus Glaciecola. The major cellular fatty acids of strain BSs20135T were summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0, C17 : 1ω8c and C18 : 1ω7c. The genomic DNA G+C content was 40.3 mol%. Based on 16S rRNA gene sequence analysis, DNA–DNA hybridization data and phenotypic and chemotaxonomic characterization, strain BSs20135T represents a novel species, for which the name Glaciecola arctica sp. nov. is proposed. The type strain is BSs20135T ( = CCTCC AB 209161T  = KACC 14537T).

scholarly journals Chryseobacterium formosense sp. nov., isolated from the rhizosphere of Lactuca sativa L. (garden lettuce)

2005 ◽  
Vol 55 (1) ◽  
pp. 423-426 ◽  
Author(s):  
Chiu-Chung Young ◽  
Peter Kämpfer ◽  
Fo-Ting Shen ◽  
Wei-An Lai ◽  
A. B. Arun
Keyword(s):  
Lactuca Sativa ◽  
Dna Hybridization ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Lactuca Sativa L ◽  
Taxonomic Approach ◽  
Type Strains ◽  
The 16S Rrna Gene

A yellow-pigmented bacterial strain (CC-H3-2T), isolated from the rhizosphere of Lactuca sativa L. (garden lettuce) in Taiwan, was investigated using a polyphasic taxonomic approach. The cells were Gram-negative, rod-shaped and non-spore-forming. Phylogenetic analyses using the 16S rRNA gene sequence of the isolate indicated that the organism belongs to the genus Chryseobacterium, with the highest sequence similarity to the type strains of Chryseobacterium indoltheticum (97·7 %), Chryseobacterium scophthalmum (97·5 %), Chryseobacterium joostei (97·2 %) and Chryseobacterium defluvii (97·2 %). The major whole-cell fatty acids were iso-C15 : 0 (52·2 %) and iso-C17 : 0 3-OH. DNA–DNA hybridization experiments revealed levels of only 27·4 % to C. scophthalmum, 27·1 % to C. indoltheticum, 14·1 % to C. joostei and 7·8 % to C. defluvii. DNA–DNA relatedness and biochemical and chemotaxonomic properties demonstrate that strain CC-H3-2 T represents a novel species, for which the name Chryseobacterium formosense sp. nov. is proposed. The type strain is CC-H3-2T (=CCUG 49271T=CIP 108367T).

scholarly journals Marmoricola korecus sp. nov.

2011 ◽  
Vol 61 (7) ◽  
pp. 1628-1631 ◽  
Author(s):  
Soon Dong Lee ◽  
Dong Wan Lee ◽  
Young-Hwan Ko
Keyword(s):  
Dna Hybridization ◽  
Volcanic Ash ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Phyletic Line ◽  
Diamino Acid ◽  
Unknown Phospholipid ◽  
Type Strains

A novel actinomycete, designated strain Sco-A36T, was isolated from volcanic ash. Cells were aerobic, Gram-stain-positive, oxidase-negative, catalase-positive, non-motile cocci; colonies were yellow-coloured, smooth, entire and convex. Phylogenetic analysis showed that the organism formed a distinct phyletic line within the radiation of the genus Marmoricola. Its closest phylogenetic neighbours were Marmoricola aurantiacus DSM 12652T (97.9 % 16S rRNA gene sequence similarity), Marmoricola scoriae Sco-D01T (97.9 %), Marmoricola aequoreus SST-45T (97.4 %) and Marmoricola bigeumensis MSL-05T (96.3 %). The diagnostic diamino acid in the cell walls was ll-diaminopimelic acid. The predominant menaquinone was MK-8(H4). The polar lipids contained phosphatidylinositol, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine and an unknown phospholipid. The predominant fatty acids were C16 : 0, C17 : 1ω8c, C18 : 1ω9c and C16 : 1ω7c and/or iso-C15 : 0 2-OH. The DNA G+C content of strain Sco-A36T was 71.0 mol%. Levels of DNA–DNA relatedness between the new isolate and the type strains of recognized species of the genus Marmoricola were 4.9–29.2 %. The phenotypic and DNA–DNA hybridization data presented here strongly suggest that strain Sco-A36T represents a novel species of the genus Marmoricola, for which the name Marmoricola korecus sp. nov. is proposed. The type strain is Sco-A36T ( = KCTC 19596T = DSM 22128T).

Alkalimonas collagenimarina sp. nov., a psychrotolerant, obligate alkaliphile isolated from deep-sea sediment

2007 ◽  
Vol 57 (7) ◽  
pp. 1549-1553 ◽  
Author(s):  
Atsushi Kurata ◽  
Masayuki Miyazaki ◽  
Tohru Kobayashi ◽  
Yuichi Nogi ◽  
Koki Horikoshi
Keyword(s):  
Dna Hybridization ◽  
Deep Sea ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Deep Sea Sediment ◽  
Hybridization Data ◽  
Physiological Properties ◽  
Initial Ph

A psychrotolerant, obligately alkaliphilic, collagenolytic enzyme-producing bacterium, strain AC40T, was isolated from a deep-sea sediment off Torishima Island, Japan, at a depth of 4026 m. Phylogenetic analysis of 16S rRNA gene sequences indicated that this bacterium was closely related to members of the genus Alkalimonas, with highest sequence similarity (97.9 %) to Alkalimonas delamerensis 1E1T. DNA–DNA hybridization experiments of strain AC40T with A. delamerensis 1E1T revealed a level of relatedness of less than 30 %. Cells of strain AC40T were strictly aerobic, rod-shaped, Gram-negative and motile by means of a single polar flagellum. The organism grew over a range of temperatures from 5 to 37 °C and at initial pH values between 7.0 and 10.5. Optimal growth was observed at 33 °C and at pH 8.5–10.0. Cellular fatty acids of strain AC40T were predominantly saturated and mono-unsaturated straight-chain components (C16 : 0 and C18 : 1). The major isoprenoid quinone was Q-8. The G+C content of the DNA was 49.3 mol%. Phylogenetic characteristics, physiological properties and DNA–DNA hybridization data indicate that strain AC40T represents a novel species of the genus Alkalimonas, for which the name Alkalimonas collagenimarina sp. nov. is proposed. The type strain is AC40T (=JCM 14267T=NCIMB 14266T).

scholarly journals Rubritalea halochordaticola sp. nov., a carotenoid-producing verrucomicrobial species isolated from a marine chordate

2011 ◽  
Vol 61 (7) ◽  
pp. 1515-1520 ◽  
Author(s):  
Jaewoo Yoon ◽  
Satoru Matsuda ◽  
Kyoko Adachi ◽  
Hiroaki Kasai ◽  
Akira Yokota
Keyword(s):  
Dna Hybridization ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Sea Squirt ◽  
Cell Biomass ◽  
Taxonomic Approach

A Gram-negative-staining, obligately aerobic, non-motile, rod-shaped and chemoheterotrophic bacterium, designated strain MN1-1006T, was isolated from an ascidian (sea squirt) sample, and was studied using a polyphasic taxonomic approach. Phylogenetic analyses based on 16S rRNA gene sequences indicated that the new isolate shared approximately 93–99% sequence similarity with recognized species of the genus Rubritalea within the phylum ‘Verrucomicrobia’. DNA–DNA hybridization values between strain MN1-1006T and Rubritalea squalenifaciens HOact23T and Rubritalea sabuli YM29-052T were 57% and 14.5%, respectively. Strain MN1-1006T produced carotenoid compounds that rendered the cell biomass a reddish pink colour. The strain also contained squalene. The cell-wall peptidoglycan of the novel strain contained muramic acid and meso-diaminopimelic acid. The DNA G+C content of strain MN1-1006T was 51.4 mol%. The major cellular fatty acids were iso-C14:0, iso-C16:0 and anteiso-C15:0. The major isoprenoid quinone was MK-9. On the basis of these data, it was concluded that strain MN1-1006T represents a novel species of the genus Rubritalea, for which the name Rubritalea halochordaticola sp. nov. is proposed. The type strain is MN1-1006T ( = KCTC 23186T = NBRC 107102T).

Namhaeicola litoreus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2163-2168 ◽  
Author(s):  
Yong-Taek Jung ◽  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-staining-negative, non-flagellated, non-gliding and pleomorphic bacterial strain, designated DPG-25T, was isolated from seawater in a seaweed farm in the South Sea in Korea and its taxonomic position was investigated by using a polyphasic approach. Strain DPG-25T grew optimally at 25 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. Flexirubin-type pigments were not produced. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DPG-25T formed a cluster with the type strains of Actibacter sediminis , Aestuariicola saemankumensis and Lutimonas vermicola . Strain DPG-25T exhibited 16S rRNA gene sequence similarity values of 95.3, 93.1 and 93.6 % to the type strains of Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola , respectively. Strain DPG-25T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids detected in strain DPG-25T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content was 39.9 mol%. Differential phenotypic properties and the phylogenetic distinctiveness of strain DPG-25T demonstrated that this strain is distinguishable from Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola . On the basis of the data presented here, strain DPG-25T represents a novel species in a novel genus of the family Flavobacteriaceae , for which the name Namhaeicola litoreus gen. nov., sp. nov. is proposed. The type strain of Namhaeicola litoreus is DPG-25T ( = KCTC 23702T  = CCUG 61485T).

scholarly journals Methylobacterium variabile sp. nov., a methylotrophic bacterium isolated from an aquatic environment

2005 ◽  
Vol 55 (4) ◽  
pp. 1429-1433 ◽  
Author(s):  
Virginia Gallego ◽  
Maria Teresa García ◽  
Antonio Ventosa
Keyword(s):  
Dna Hybridization ◽  
Distribution System ◽  
Bacterial Population ◽  
Sequence Similarity ◽  
Methylotrophic Bacterium ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Natural Habitats ◽  
Hybridization Data ◽  
The 16S Rrna Gene

Strain GR3T was isolated from drinking water during a screening programme to monitor the bacterial population present in the distribution system of Seville (Spain), and it was studied phenotypically, genotypically and phylogenetically. This pink-pigmented bacterium was identified as a Methylobacterium sp. Members of this genus are distributed in a wide variety of natural habitats, including soil, dust, air, freshwater and aquatic sediments. Phylogenetic analysis of the 16S rRNA gene sequence showed that strain GR3T was closely related to Methylobacterium aquaticum (97·4 % sequence similarity), whereas sequence similarity values with respect to the rest of the species belonging to this genus were lower than 96 %. Furthermore, the DNA–DNA hybridization data and its phenotypic characteristics clearly indicate that the isolate represents a novel Methylobacterium species, for which the name Methylobacterium variabile sp. nov. is proposed. GR3T (=DSM 16961T=CCM 7281T=CECT 7045T) is the type strain; the DNA G+C content of this strain is 69·2 mol%.

Terrabacter carboxydivorans sp. nov., a carbon monoxide-oxidizing actinomycete

2011 ◽  
Vol 61 (3) ◽  
pp. 482-486 ◽  
Author(s):  
Sung M. Kim ◽  
Sae W. Park ◽  
Sang T. Park ◽  
Young M. Kim
Keyword(s):  
Carbon Monoxide ◽  
Dna Hybridization ◽  
Gene Sequence ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Type Strains

A bacterial strain, PY2T, capable of oxidizing carbon monoxide, was isolated from a soil sample collected from a roadside at Yonsei University, Seoul, Korea. On the basis of 16S rRNA gene sequence analysis, strain PY2T was shown to belong to the genus Terrabacter and was most closely related to Terrabacter lapilli LR-26T (99.1 % similarity). Strain PY2T was characterized chemotaxonomically as having iso-C15 : 0 as the predominant fatty acid, MK-8(H4) as the major menaquinone, ll-diaminopimelic acid as the diagnostic diamino acid of the cell wall, as possessing a polar lipid profile that included diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and unknown amino-containing phosphoglycolipids, and having a DNA G+C content of 75.6 mol%. DNA–DNA relatedness values between strain PY2T and the type strains of T. lapilli, Terrabacter tumescens, Terrabacter terrae and Terrabacter aerolatus were 20.0 %, 22.9 %, 35.9 % and 64.5 %, respectively. Based on the combined evidence from the phylogenetic analyses, chemotaxonomic data and DNA–DNA hybridization experiments, it is proposed that strain PY2T represents a novel species for which the name Terrabacter carboxydivorans sp. nov. is proposed. The type strain is PY2T (=KCCM 42922T=JCM 16259T).

scholarly journals Streptomyces fenghuangensis sp. nov., isolated from seawater

2011 ◽  
Vol 61 (12) ◽  
pp. 2811-2815 ◽  
Author(s):  
Honghui Zhu ◽  
Shumei Jiang ◽  
Qing Yao ◽  
Yonghong Wang ◽  
Meibiao Chen ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Substrate Mycelium ◽  
Physiological And Biochemical Characteristics ◽  
Type Strains ◽  
Physiological And Biochemical ◽  
The 16S Rrna Gene

An actinomycete, designated strain GIMN4.003T, was isolated from seawater collected in Sanya, China. It produced white aerial mycelium and yellow substrate mycelium on Gause’s synthetic agar medium no. 1. The substrate mycelium colour was not sensitive to pH. Scanning electron microscopy observations revealed that GIMN4.003T produced straight to flexuous spore chains of rough to warty spores. ll-Diaminopimelic acid was present in the cell-wall hydrolysate. Based on chemotaxonomy and morphological features, strain GIMN4.003T was identified as a member of the genus Streptomyces. Melanin was not produced. No antimicrobial activity was detected against Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, Penicillium citrinum or Candida albicans. Analysis of the 16S rRNA gene sequence revealed that the highest sequence similarity was to Streptomyces radiopugnans R97T (99.0 %). However, DNA relatedness between GIMN4.003T and S. radiopugnans DSM 41901T was low (41.24±1.47 %). Furthermore, the morphological, physiological and biochemical characteristics of strain GIMN4.003T were different from those of S. radiopugnans DSM 41901T and the type strains of other closely related Streptomyces species. On the basis of its physiological and molecular properties, it is evident that strain GIMN4.003T ( = CCTCCM 208215T  = NRRL B-24801T) represents the type strain of a novel species within the genus Streptomyces, for which the name Streptomyces fenghuangensis sp. nov. is proposed.

Sign in / Sign up

Export Citation Format

Share Document