scholarly journals Methanococcus aeolicus sp. nov., a mesophilic, methanogenic archaeon from shallow and deep marine sediments

2006 ◽  
Vol 56 (7) ◽  
pp. 1525-1529 ◽  
Author(s):  
Melissa M. Kendall ◽  
Yitai Liu ◽  
Magdalena Sieprawska-Lupa ◽  
Karl O. Stetter ◽  
William B. Whitman ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Sediments ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Physiological And Biochemical

Three strains of CO2-reducing methanogens were isolated from marine sediments. Strain PL-15/HP was isolated from marine sediments of the Lipari Islands, near Sicily and the other two strains, Nankai-2 and Nankai-3T, were isolated from deep marine sediments of the Nankai Trough, about 50 km from the coast of Japan. Analysis of the cellular proteins and 16S rRNA gene sequences indicated that these three strains represented a single novel species that formed a deep branch of the mesophilic methanococci. Phylogenetic analysis indicated that the three strains were most closely related to Methanothermococcus okinawensis (95 % 16S rRNA gene sequence similarity). However, strains PL-15/HP, Nankai-2 and Nankai-3T grew at temperatures that were more similar to those of recognized species within the genus Methanococcus. Strain Nankai-3T grew fastest at 46 °C. Results of physiological and biochemical tests allowed the genotypic and phenotypic differentiation of strains PL-15/HP, Nankai-2 and Nankai-3T from closely related species. The name Methanococcus aeolicus sp. nov. is proposed, with strain Nankai-3T (=OCM 812T=DSM 17508T) as the type strain.

scholarly journals Rhodanobacter panaciterrae sp. nov., a bacterium with ginsenoside-converting activity isolated from soil of a ginseng field

2011 ◽  
Vol 61 (12) ◽  
pp. 3028-3032 ◽  
Author(s):  
Liang Wang ◽  
Dong-Shan An ◽  
Song-Gun Kim ◽  
Feng-Xie Jin ◽  
Sung-Taik Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Liaoning Province ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Biochemical Tests ◽  
Physiological And Biochemical

A novel gammaproteobacterium, designated LnR5-47T, was isolated from soil of a ginseng field in Liaoning province, China. The isolate was a Gram-negative, aerobic, non-motile, non-spore-forming rod. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain LnR5-47T belonged to the genus Rhodanobacter. The isolate was most closely related to Rhodanobacter ginsengisoli GR17-7T, Rhodanobacter terrae GP18-1T, Dyella ginsengisoli Gsoil 3046T, Rhodanobacter soli DCY45T, Dyella soli JS12-10T and Dyella japonica IAM 15069T (98.0, 97.9, 97.7, 97.3, 97.2 and 97.1 % 16S rRNA gene sequence similarity, respectively). Chemotaxonomic data (Q-8 as the predominant ubiquinone, and iso-C16 : 0, iso-C17 : 1ω9c and iso-C15 : 0 as the major fatty acids) also supported the affiliation of strain LnR5-47T with the genus Rhodanobacter. However, DNA–DNA relatedness between strain LnR5-47T and its closest phylogenetic neighbours was <25.8 %. Moreover, physiological and biochemical tests phenotypically differentiated the isolate from other members of the genus Rhodanobacter. Therefore, strain LnR5-47T represents a novel species, for which the name Rhodanobacter panaciterrae sp. nov. is proposed; the type strain is LnR5-47T ( = KACC 12826T = KCTC 22232T = LMG 24460T).

scholarly journals Halalkalicoccus jeotgali sp. nov., a halophilic archaeon from shrimp jeotgal, a traditional Korean fermented seafood

2007 ◽  
Vol 57 (10) ◽  
pp. 2296-2298 ◽  
Author(s):  
Seong Woon Roh ◽  
Young-Do Nam ◽  
Ho-Won Chang ◽  
Youlboong Sung ◽  
Kyoung-Ho Kim ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Rrna Gene ◽  
Halophilic Archaeon ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Biochemical Tests ◽  
Extremely Halophilic Archaeon ◽  
Physiological And Biochemical

A novel, extremely halophilic archaeon B3T was isolated from shrimp-salted seafood. Its morphology, physiology, biochemical features and 16S rRNA gene sequence were characterized. Strain B3T is non-motile, Gram-variable, requires at least 10 % (w/v) NaCl for growth and grows in the ranges of 21–50 °C and pH 6.5–9.0. The DNA G+C content of strain B3T was 63.2 mol%. Phylogenetic analysis based on the 16S rRNA gene sequences indicated that strain B3T belonged to the genus Halalkalicoccus and was phylogenetically closely related to the type strain Halalkalicoccus tibetensis (98.64 %). However, DNA–DNA hybridization experiments showed 7.0 % relatedness between strain B3T and a strain of a reference species of the genus Halalkalicoccus. Combined analysis of 16S rRNA gene sequences, DNA–DNA relatedness data, physiological and biochemical tests indicated that the genotypic and phenotypic characteristics differentiate strain B3T from other Halalkalicoccus species. On the basis of the evidence presented in this report, strain B3T represents a novel species of the genus Halalkalicoccus, for which the name Halalkalicoccus jeotgali. sp. nov. is proposed. The type strain is B3T (=KCTC 4019T=DSM 18796T=JCM 14584T=CECT 7217T).

Actinoplanes couchii sp. nov.

2007 ◽  
Vol 57 (4) ◽  
pp. 721-724 ◽  
Author(s):  
Peter Kämpfer ◽  
Birgit Huber ◽  
Kathrin Thummes ◽  
Iris Grün-Wollny ◽  
Hans-Jürgen Busse
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Bacterium Strain

A Gram-positive bacterium, strain GW8-1761T, was isolated from soil close to the Marmore waterfalls, Terni, Italy. 16S rRNA gene sequence similarity studies showed that strain GW8-1761T belonged to the genus Actinoplanes, being most closely related to Actinoplanes italicus JCM 3165T (98.9 %), A. rectilineatus IFO 13941T (98.5 %), A. palleronii JCM 7626T (97.8 %), A. utahensis IFO 13244T (97.6 %) and A. cyaneus DSM 46137T (97.6 %). Strain GW8-1761T could be distinguished from any other Actinoplanes species with validly published names by 16S rRNA gene sequence similarity values of less than 97.5 %. Chemotaxonomic data [major menaquinone MK-9(H4); major polar lipids diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol, with phosphatidylcholine and aminoglycolipids absent; major fatty acids C15 : 0, C16 : 0, C16 : 0 iso, C17 : 1 ω8c and summed feature 3 (C16 : 1 ω7c and/or C15 : 0 iso 2-OH)] supported the affiliation of strain GW8-1761T to the genus Actinoplanes. The results of DNA–DNA hybridizations and physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain GW8-1761T from the most closely related species. Strain GW8-1761T therefore merits species status, and we propose the name Actinoplanes couchii sp. nov., with the type strain GW8-1761T (=DSM 45050T=CIP 109316T).

scholarly journals Promicromonospora xylanilytica sp. nov., an endophytic actinomycete isolated from surface-sterilized leaves of the medicinal plant Maytenus austroyunnanensis

2012 ◽  
Vol 62 (1) ◽  
pp. 84-89 ◽  
Author(s):  
Sheng Qin ◽  
Ji-Hong Jiang ◽  
Hans-Peter Klenk ◽  
Wen-Yong Zhu ◽  
Guo-Zhen Zhao ◽  
...  
Keyword(s):  
16S Rrna ◽  
Medicinal Plant ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Actinomycete Strain ◽  
The Media ◽  
Physiological And Biochemical ◽  
Fatty Acid Compositions

A novel xylan-degrading actinomycete, strain YIM 61515T, was isolated from surface-sterilized leaves of the medicinal plant Maytenus austroyunnanensis. Cells were Gram-positive and non-spore-forming, produced primary branches and formed white to yellowish white colonies on the media tested. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 61515T was most similar to Promicromonospora aerolata V54AT and Promicromonospora vindobonensis V45T (99.4 and 99.1 % sequence similarity, respectively). The isolate formed a separate lineage in a cluster containing P. aerolata V54AT. 16S rRNA gene sequence similarity between the isolate and other members of the genus Promicromonospora ranged from 96.3 to 98.4 %. Chemotaxonomic data, including major menaquinones, fatty acid compositions and polar lipid profiles, supported the placement of strain YIM 61515T in the genus Promicromonospora. DNA–DNA relatedness, physiological and biochemical data showed that strain YIM 61515T could be distinguished from members of all known species of the genus Promicromonospora and therefore represented a novel species. The name Promicromonospora xylanilytica sp. nov. is proposed, with YIM 61515T ( = DSM 21603T = CCTCC AA 208046T) as type strain.

Deefgea chitinilytica sp. nov., isolated from a wetland

2010 ◽  
Vol 60 (6) ◽  
pp. 1450-1453 ◽  
Author(s):  
Wen-Ming Chen ◽  
Yu-Ni Chung ◽  
Tzu-Fang Chiu ◽  
Chih-Yu Cheng ◽  
A. B. Arun ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Analyses ◽  
Physiological Data ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Gene Sequence Analysis ◽  
Taxonomic Approach ◽  
Physiological And Biochemical

A bacterial strain, designated Nsw-4T, was isolated from a water sample of Niao-Song Wetland Park in Taiwan and was characterized by using a polyphasic taxonomic approach. Strain Nsw-4T was Gram-negative, aerobic, ivory-coloured, rod-shaped and motile by means of a polar flagellum. Growth occurred at 15–37 °C, pH 6.0–8.0 and 0–2 % NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strain belonged to the genus Deefgea and that its closest neighbour was Deefgea rivuli WB 3.4-79T (96.9 %). The results of physiological and biochemical tests allowed the clear phenotypic differentiation of this isolate from D. rivuli WB 3.4-79T. The major fatty acids were C16 : 1ω7c and C16 : 0. The G+C content of the genomic DNA was 53.7 mol%. On the basis of 16S rRNA gene sequence analysis and the chemotaxonomic and physiological data, strain Nsw-4T should be classified as representing a novel species and the second member of the genus Deefgea, for which the name Deefgea chitinilytica sp. nov. is proposed. The type strain is Nsw-4T (=BCRC 17934T=LMG 24817T).

scholarly journals Actinophytocola burenkhanensis sp. nov., isolated from Mongolian soil

2011 ◽  
Vol 61 (5) ◽  
pp. 1033-1038 ◽  
Author(s):  
Ismet Ara ◽  
Baljinova Tsetseg ◽  
Damdinsuren Daram ◽  
Manabu Suto ◽  
Katsuhiko Ando
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Actinomycete Strain ◽  
Physiological And Biochemical

A Gram-positive, aerobic, non-motile actinomycete, strain MN08-A0203T, that formed pale yellow to orange-brown colonies and non-fragmented branched substrate mycelium is described. The strain, which produced very scanty aerial mycelium-like structures and scanty formation of spherical bodies on the aerial mycelium on Bennett’s agar medium, was studied in detail to determine its taxonomic position. On the basis of 16S rRNA gene sequence similarity studies, strain MN08-A0203T grouped with the genus Actinophytocola, being most closely related to the type strain of Actinophytocola oryzae (97.8 %). Chemotaxonomic data [menaquinone MK-9(H4); iso-C16 : 0 (27 %), iso-C15 : 0 (18 %), C16 : 1 H (8 %), C16 : 0 9-methyl (8 %) as major fatty acids; glucose, galactose, ribose, arabinose, mannose, rhamnose and xylose (trace) as whole cell sugars; diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine and ninhydrin-positive phosphoglycolipids as polar phospholipids] supported allocation of the strain to the genus Actinophytocola. Furthermore, the results of DNA–DNA hybridization of strain MN08-A0203T with the type strain of Actinophytocola oryzae revealed that the two strains were genetically distinct from each other. Moreover, physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain MN08-A0203T from closely related species. Thus, MN08-A0203T represents a novel species of the genus Actinophytocola, for which the name Actinophytocola burenkhanensis sp. nov. is proposed, with MN08-A0203T ( = NBRC 105883T  = VTCC D9-23T) as the type strain.

scholarly journals Nocardioides panacisoli sp. nov., isolated from the soil of a ginseng field

2010 ◽  
Vol 60 (2) ◽  
pp. 387-392 ◽  
Author(s):  
Chun Hwi Cho ◽  
Jung-Sook Lee ◽  
Dong-Shan An ◽  
Tae Woong Whon ◽  
Song-Gun Kim
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
The Family ◽  
Species Being

A Gram-positive, rod-shaped, non-spore-forming bacterium (Gsoil 346T) was isolated from the soil of a ginseng field in South Korea and was characterized in order to determine its taxonomic position. On the basis of 16S rRNA gene sequences, strain Gsoil 346T was shown to belong to the genus Nocardioides in the family Nocardioidaceae, with the most closely related species being Nocardioides aquiterrae GW-9T (96.6 % 16S rRNA gene sequence similarity); however, the strain clustered in a distinct branch of the phylogenetic tree with Nocardioides kongjuensis A2-4T (96.2 %), Nocardioides aromaticivorans H-1T (96.1 %), Nocardioides nitrophenolicus NSP41T (96.1 %) and Nocardioides simplex ATCC 15799T (95.9 %). Strain Gsoil 346T was characterized chemotaxonomically and found to have ll-2,6-diaminopimelic acid in the cell-wall peptidoglycan, phosphatidylinositol and phosphatidylglycerol as the major polar lipids, MK-8(H4) as the predominant menaquinone and iso-C16 : 0, C18 : 1 ω9c and C17 : 1 ω8c as the major fatty acids. The G+C content of the genomic DNA of the novel strain was 73.0 mol%. These chemotaxonomic properties supported the placement of strain Gsoil 346T in the genus Nocardioides. The results of physiological and biochemical tests, along with the phylogenetic analysis, allowed strain Gsoil 346T to be differentiated genotypically and phenotypically from recognized species of the genus Nocardioides. Therefore, strain Gsoil 346T represents a novel species, for which the name Nocardioides panacisoli sp. nov. is proposed, with Gsoil 346T (=KCTC 19470T=DSM 21348T) as the type strain.

scholarly journals Dietzia aerolata sp. nov., isolated from the air of a duck barn, and emended description of the genus Dietzia Rainey et al. 1995

2010 ◽  
Vol 60 (2) ◽  
pp. 393-396 ◽  
Author(s):  
P. Kämpfer ◽  
S. Langer ◽  
E. Martin ◽  
U. Jäckel ◽  
H.-J. Busse
Keyword(s):  
Polar Lipid ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Polar Lipid Profile ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Emended Description ◽  
Phosphatidylinositol Mannosides ◽  
Physiological And Biochemical

A Gram-stain-positive, coccoid, non-endospore-forming actinobacterium (Sj14aT) was isolated from the air of a duck barn on tryptone soy agar after filter sampling. On the basis of 16S rRNA gene sequence similarity studies, strain Sj14aT was shown to belong to the genus Dietzia and was most closely related to Dietzia schimae (98.7 %), Dietzia cercidiphylli (98.4 %) and Dietzia maris (98.6 %). The major menaquinone was MK-8 (H2). The polar lipid profile included the major components diphosphatidylglycerol, phosphatidylglycerol, an unknown polar lipid and two unknown glycolipids. Phosphatidylinositol and two phosphatidylinositol mannosides, as well as several other unknown lipids, were also detected. The polyamine pattern contained the major compounds spermine and spermidine. The fatty acid profile, containing C16 : 0, C17 : 0, C18 : 1 ω9c and 10-methyl C18 : 0 as major fatty acids, supported the affiliation of strain Sj14aT to the genus Dietzia. The results of physiological and biochemical tests and DNA–DNA hybridizations allowed a clear phenotypic differentiation of strain Sj14aT from the most closely related species of the genus Dietzia. Strain Sj14aT represents a novel species, for which the name Dietzia aerolata sp. nov. is proposed, with the type strain Sj14aT (=DSM 45334T =CCM 7659T).

scholarly journals Gramella aquimixticola sp. nov., isolated from water of an estuary environment

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 4244-4249 ◽  
Author(s):  
Sooyeon Park ◽  
Sona Kim ◽  
Yong-Taek Jung ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Closely Related Species ◽  
Type Strains

A Gram-stain-negative, aerobic, non-spore-forming bacterial strain, motile by gliding and with rod-shaped or ovoid cells, was isolated from water of an estuary environment at Hwajinpo, South Korea. The strain was designated HJM-19T and subjected to a polyphasic taxonomic study. The novel strain grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 1.0–2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain HJM-19T belongs to the genus Gramella. It exhibited 16S rRNA gene sequence similarity values of 97.2–98.1 % to the type strains of Gramella portivictoriae, Gramella aestuariivivens, Gramella marina, Gramella echinicola and Gramella aestuarii, and of 93.9–96.5 % to the type strains of the other species of the genus Gramella with validly published names. Strain HJM-19T contained MK-6 as the predominant menaquinone and anteiso-C15 : 0, anteiso-C17 : 1ω9c and C17 : 0 2-OH as the major fatty acids. The major polar lipids of strain HJM-19T were phosphatidylethanolamine and two unidentified lipids. The DNA G+C content of strain HJM-19T was 48.0 mol%, and its DNA–DNA relatedness values with the type strains of the five phylogenetically closely related species of the genus Gramella were 11–23 %. The differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strain HJM-19T is separated from other species of the genus Gramella. On the basis of the data presented, strain HJM-19T is considered to represent a novel species of the genus Gramella, for which the name Gramella aquimixticola sp. nov. is proposed. The type strain is HJM-19T ( = KCTC 42706T = NBRC 111224T).

scholarly journals Janibacter anophelis sp. nov., isolated from the midgut of Anopheles arabiensis

2006 ◽  
Vol 56 (2) ◽  
pp. 389-392 ◽  
Author(s):  
Peter Kämpfer ◽  
Olle Terenius ◽  
Jenny M. Lindh ◽  
Ingrid Faye
Keyword(s):  
Dna Hybridization ◽  
Anopheles Arabiensis ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Closely Related Species ◽  
Phenotypic Differentiation ◽  
Diamino Acid ◽  
Physiological And Biochemical

A Gram-positive, aerobic, non-motile strain, H2.16BT, isolated from the midgut of the mosquito Anopheles arabiensis was investigated using a polyphasic approach. On the basis of 16S rRNA gene sequence similarity studies, strain H2.16BT was shown to belong to the genus Janibacter, being most closely related to Janibacter melonis (98·3 %), Janibacter terrae (98·5 %) and Janibacter limosus (98·5 %). Chemotaxonomic data (meso-diaminopimelic acid as the diagnostic diamino acid in the cell wall and major fatty acids of iso-C16 : 0, C17 : 1 ω8c and C17 : 0) supported the allocation of the strain to the genus Janibacter. The results of DNA–DNA hybridization and physiological and biochemical tests allowed the genotypic and phenotypic differentiation of strain H2.16BT from closely related species. Thus, H2.16BT represents a novel species of the genus Janibacter, for which the name Janibacter anophelis sp. nov. is proposed. The type strain is H2.16BT (=CCUG 49715T=CIP 108728T).

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