scholarly journals Aquimarina intermedia sp. nov., reclassification of Stanierella latercula (Lewin 1969) as Aquimarina latercula comb. nov. and Gaetbulimicrobium brevivitae Yoon et al. 2006 as Aquimarina brevivitae comb. nov. and emended description of the genus Aquimarina

2006 ◽  
Vol 56 (9) ◽  
pp. 2037-2041 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Marc Vancanneyt ◽  
Leentje Christiaens ◽  
Natalia I. Kalinovskaya ◽  
Valery V. Mikhailov ◽  
...  
Keyword(s):  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Emended Description ◽  
Bacterium Strain ◽  
Taxonomic Approach ◽  
Gliding Bacterium ◽  
Sequence Similarities

A heterotrophic, aerobic, Gram-negative, pigmented and gliding bacterium, strain KMM 6258T, was isolated from the sea urchin Strongylocentrotus intermedius and investigated using a polyphasic taxonomic approach. 16S rRNA gene sequence analysis revealed that the closest relatives of the novel strain are Aquimarina muelleri, Stanierella latercula and Gaetbulimicrobium brevivitae, members of the family Flavobacteriaceae, with sequence similarities of 96.3, 96.4 and 96.2 %, respectively. Phylogenetic evidence, supported by chemotaxonomic and phenotypic data, assigned strain KMM 6258T to the genus Aquimarina as Aquimarina intermedia sp. nov. (type strain KMM 6258T=DSM 17527T=JCM 13506T=LMG 23204T). The reclassification of Stanierella latercula as Aquimarina latercula comb. nov. and Gaetbulimicrobium brevivitae as Aquimarina brevivitae comb. nov. is proposed.

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

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 591-595 ◽  
Author(s):  
Sang-Hee Lee ◽  
Qing-Mei Liu ◽  
Sung-Taik Lee ◽  
Sun-Chang Kim ◽  
Wan-Taek Im
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Bacterium Strain

A Gram-reaction-positive, rod-shaped, non-motile, non-spore-forming bacterium (strain BX5-10T) was isolated from the soil of a ginseng field on Baekdu Mountain in Jilin district, China. The taxonomic position of this bacterium was determined in an investigation based on a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain BX5-10T was shown to belong to the family Nocardioidaceae and to be most closely related to Nocardioides plantarum NCIMB 12834T (96.5 % sequence similarity), Nocardioides dokdonensis KCTC 19309T (96.2 %) and Nocardioides fonticola NAA-13T (95.1 %). Strain BX5-10T was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in its cell-wall peptidoglycan, MK-8(H4) as the predominant menaquinone and C18 : 1ω9c, C16 : 0 and C17 : 1ω8c as its major fatty acids. The G+C content of the genomic DNA was 70.3 mol%. The novel strain could be differentiated genotypically and phenotypically from all recognized species of the genus Nocardioides. Based on the results of the phylogenetic analyses and the genotypic and phenotypic data, a novel species, Nocardioides ginsengagri sp. nov., is proposed. The type strain is BX5-10T ( = KCTC 19467T = DSM 21362T).

scholarly journals Niabella tibetensis sp. nov., isolated from soil, and emended description of the genus Niabella

2011 ◽  
Vol 61 (5) ◽  
pp. 1201-1205 ◽  
Author(s):  
Jun Dai ◽  
Fan Jiang ◽  
Yang Wang ◽  
Bo Yu ◽  
Huan Qi ◽  
...  
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Emended Description ◽  
Taxonomic Approach ◽  
Physiological And Biochemical ◽  
Sequence Similarities ◽  
Biochemical Features

Strain 15-4T, a Gram-stain-negative, rod-shaped, non-motile bacterial strain that produced flexirubin-type pigments, was isolated from Tibet Province, China, and characterized by using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belonged to the family Chitinophagaceae, phylum ‘Bacteroidetes’, and was related to members of the genus Niabella, with sequence similarities ranging from 94.1 to 96.4 %. Strain 15-4T contained MK-7 as the predominant menaquinone and its DNA G+C content was 46.9 mol%. The major fatty acids of strain 15-4T were iso-C15 : 0 (41.3 %), iso-C15 : 1 G (14.9 %), iso-C17 : 0 3-OH (13.2 %) and summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH, 16.0 %). These chemotaxonomic data supported the affiliation of strain 15-4T to the genus Niabella. However, a number of physiological and biochemical features enabled the isolate to be differentiated phenotypically from recognized species of the genus Niabella. On the basis of the evidence presented, it is proposed that strain 15-4T represents a novel species, Niabella tibetensis sp. nov.; the type strain is 15-4T ( = CCTCC AB 209167T = NRRL B-59394T). On the basis of these data, an emended description of the genus Niabella is also proposed.

scholarly journals Paenibacillus fonticola sp. nov., isolated from a warm spring

2007 ◽  
Vol 57 (6) ◽  
pp. 1346-1350 ◽  
Author(s):  
Jui-Hsing Chou ◽  
Yi-Ju Chou ◽  
Kuan-Yin Lin ◽  
Shih-Yi Sheu ◽  
Der-Shyan Sheu ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Morphological Properties ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Warm Spring ◽  
Gene Sequence Analysis ◽  
Paenibacillus Macerans ◽  
Taxonomic Approach ◽  
Type Strains

A novel bacterial strain, designated ZLT, isolated from a warm spring in Jhonglun, Taiwan, was characterized by using a polyphasic taxonomic approach. The novel strain had chemotaxonomic and morphological properties consistent with its classification in the genus Paenibacillus. Cells were Gram-variable, aerobic, sporulating, motile rods. 16S rRNA gene sequence analysis demonstrated that this novel isolate was unique, showing 94.3 % sequence similarity to Paenibacillus assamensis GPTSA 11T and lower levels to Paenibacillus timonensis 2301032T (94.0 %), Paenibacillus macerans ATCC 8244T (93.3 %), Paenibacillus barengoltzii SAFN-016T (93.3 %) and Paenibacillus sanguinis 2301083T (93.2 %). The novel isolate could be distinguished from the type strains of all of these species based on a range of phenotypic data. The major cellular phospholipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and one unknown phosphoglycolipid. The predominant isoprenologue was an unsaturated menaquinone with seven isoprene units (MK-7). The major fatty acids of strain ZLT were C16 : 0 (33.5 %), anteiso-C15 : 0 (32.5 %) and iso-C16 : 0 (9.3 %). The G+C content of the genomic DNA was 49.2 mol%. It is evident from the genotypic and phenotypic data that strain ZLT should be classified as representing a novel species of the genus Paenibacillus, for which the name Paenibacillus fonticola sp. nov. is proposed. The type strain is ZLT (=BCRC 17579T=LMG 23577T).

scholarly journals Pontirhabdus pectinivorans gen. nov., sp. nov., isolated from seawater

2011 ◽  
Vol 61 (10) ◽  
pp. 2475-2481 ◽  
Author(s):  
Hana Yi ◽  
Jang-Cheon Cho ◽  
Jongsik Chun
Keyword(s):  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Phenotypic Traits ◽  
Rrna Gene ◽  
The Novel ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Phyletic Line ◽  
Taxonomic Approach ◽  
Sequence Similarities

A yellow-coloured, rod-shaped, Gram-reaction-negative and aerobic bacterial strain, designated JC2675T, was isolated from a seawater sample from Jeju Island, Korea. The isolate required sea salts for growth. Gliding motility was observed. Flexirubin-type pigments were absent. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain JC2675T represented a distinct phyletic line that reflected a novel generic status within the family Flavobacteraceae with relatively low gene sequence similarities (<95.7 %) to other recognized genera. The predominant isoprenoid quinone (MK-6) and DNA G+C content (30 mol%) were consistent with the assignment of the novel strain to the family Flavobacteriaceae, but overall phenotypic traits demonstrated that the novel strain was not closely affiliated with any previously described genus. Based on data from a study using a polyphasic taxonomic approach, it is proposed that strain JC2675T represents a new genus and novel species belonging to the family Flavobacteriaceae, for which the name Pontirhabdus pectinivorans gen. nov., sp. nov. is proposed. The type strain of the type species is JC2675T ( = KACC 14153T = JCM 17107T).

scholarly journals Variovorax soli sp. nov., isolated from greenhouse soil

2006 ◽  
Vol 56 (12) ◽  
pp. 2899-2901 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Seung-Hee Yoo ◽  
Seon-Young Lee ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Greenhouse Soil ◽  
Variovorax Paradoxus ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Sequence Similarities

A Gram-negative, rod-shaped, non-spore-forming bacterium, strain GH9-3T, isolated from greenhouse soil, was investigated in a polyphasic study. The novel organism grew at 10–35 °C, 0–3 % NaCl and pH 5–9. It had ubiquinone 8 (Q-8) as the predominant isoprenoid quinone and possessed C16 : 0, summed feature 3, C17 : 0 cyclo and C18 : 1 ω7c as the major fatty acids (together representing 87.4 % of the total). The DNA G+C content was 67.1 mol%. 16S rRNA gene sequence analysis of strain GH9-3T showed that it grouped within the Variovorax cluster, with highest sequence similarities to Variovorax paradoxus IAM 12373T (98.3 %) and Variovorax dokdonensis DS-43T (98.0 %). DNA–DNA hybridization values between strain GH9-3T and V. paradoxus DSM 30034T and V. dokdonensis DS-43T were 38 and 29 %, respectively. Based on phenotypic, chemotaxonomic and phylogenetic features, it is proposed that strain GH9-3T represents a novel species of the genus Variovorax with the name Variovorax soli sp. nov. The type strain is GH9-3T (=KACC 11579T=DSM 18216T).

scholarly journals Arenibacter echinorum sp. nov., isolated from the sea urchin Strongylocentrotus intermedius

2007 ◽  
Vol 57 (11) ◽  
pp. 2655-2659 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Anatoly M. Lysenko ◽  
Kang Hyun Lee ◽  
Kyung Sook Bae ◽  
...  
Keyword(s):  
Sea Urchin ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Strongylocentrotus Intermedius ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Distinct Branch ◽  
The 16S Rrna Gene

Two marine, heterotrophic, aerobic, pigmented and gliding bacteria, isolated from the sea urchin Strongylocentrotus intermedius were subjected to a polyphasic taxonomy study. The 16S rRNA gene sequence analysis revealed that strains KMM 6032T and KMM 6047 formed a distinct branch within the genus Arenibacter, a member of the family Flavobacteriaceae. The level of sequence similarity between the novel isolates and members of the genus Arenibacter was 94.5–98.9 %. The DNA G+C content was 39–40 mol%. The dominant fatty acids were iso-C15 : 1, iso-C15 : 0, C15 : 0, C15 : 1 ω6c, iso-C15 : 0 3-OH, iso-C17 : 1 ω9c, iso-C17 : 0 3-OH and summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1 ω7c). The results of DNA–DNA hybridization experiments supported by phenotypic data indicated that the isolates represent a novel species within the genus Arenibacter, for which the name Arenibacter echinorum sp. nov. is proposed. The type strain is KMM 6032T (=KCTC 22013T=LMG 22574T).

scholarly journals Tolumonas osonensis sp. nov., isolated from anoxic freshwater sediment, and emended description of the genus Tolumonas

2011 ◽  
Vol 61 (11) ◽  
pp. 2659-2663 ◽  
Author(s):  
Matthew E. Caldwell ◽  
Toby D. Allen ◽  
Paul A. Lawson ◽  
Ralph S. Tanner
Keyword(s):  
Type Strain ◽  
Freshwater Sediment ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Respiratory Quinone ◽  
Fermentation Products ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Emended Description ◽  
Bacterium Strain

A polyphasic taxonomic study was performed on a strain of an unknown Gram-negative, non-motile, saccharolytic, facultatively anaerobic bacterium, strain OCF 7T, isolated from anoxic freshwater sediment. The strain grew optimally at 22 °C and pH 7.5, and was able to grow under strictly anaerobic conditions. Major fermentation products from glucose metabolism were formate, acetate, ethanol and lactate. Comparative 16S rRNA gene sequence analysis indicated that strain OCF 7T was phylogenetically related to the type strain of Tolumonas auensis (97.2 % similarity) within the family Aeromonadaceae of the Gammaproteobacteria. However, OCF 7T did not produce toluene from phenylacetate, phenylalanine, phenoxyacetate, phenylsuccinate or phenylbutyrate in the presence of glucose. Phenol was not produced from tyrosine or phenoxyacetate in the presence of glucose. Dominant fatty acids of this micro-organism included C16 : 0, C18 : 1ω7c and C16 : 1ω7c (and/or iso-C15 : 0 2-OH). Major polar lipids were phosphatidylglycerol and phosphatidylethanolamine, and the respiratory quinone was menaquinone MK-8. The genomic DNA G+C content of strain OCF 7T was 52.1 mol%. Based on phylogenetic and phenotypic evidence, strain OCF 7T should be classified as a representative of a novel species of Tolumonas, for which the name Tolumonas osonensis sp. nov. is proposed; the type strain is OCF 7T ( = DSM 22975T  = ATCC BAA-1908T). An emended description of the genus Tolumonas is also given.

scholarly journals Proposal of Algoriphagus vanfongensis sp. nov., transfer of members of the genera Hongiella Yi and Chun 2004 emend. Nedashkovskaya et al. 2004 and Chimaereicella Tiago et al. 2006 to the genus Algoriphagus, and emended description of the genus Algoriphagus Bowman et al. 2003 emend. Nedashkovskaya et al. 2004

2007 ◽  
Vol 57 (9) ◽  
pp. 1988-1994 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Kae Kyoung Kwon ◽  
Dong Sung Shin ◽  
Xuseong Luo ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Emended Description ◽  
Genotypic Characteristics ◽  
Sequence Similarities

A taxonomic study of a novel marine, heterotrophic, non-gliding, halotolerant and light-pink-pigmented bacterium was carried out using a polyphasic approach. 16S rRNA gene sequence analysis revealed that strain KMM 6241T is a member of the phylum Bacteroidetes. Strain KMM 6241T formed a cluster with the genera Algoriphagus, Chimaereicella and Hongiella with sequence similarities of 94.0–98.2 %. Hongiella ornithinivorans was the closest relative of the novel isolate. Comparative analysis of phenotypic, chemotaxonomic and genotypic characteristics of strain KMM 6241T and representatives of the genera Algoriphagus, Chimaereicella and Hongiella revealed many similar features. Consequently, phylogenetic evidence supported by phenotypic and genotypic similarities support the transfer of members of the genera Chimaereicella and Hongiella to the genus Algoriphagus and the establishment of a novel species, Algoriphagus vanfongensis sp. nov., with strain KMM 6241T (=DSM 17529T=KCTC 12716T) as the type strain.

scholarly journals Chitinimonas koreensis sp. nov., isolated from greenhouse soil in Korea

2006 ◽  
Vol 56 (8) ◽  
pp. 1761-1764 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Seung-Hee Yoo ◽  
Wen-Ming Chen ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Greenhouse Soil ◽  
Phenotypic Data ◽  
Physiological Properties ◽  
Gene Sequence Analysis ◽  
Single Flagellum ◽  
Sequence Similarities

Strain R2A43-10T was isolated from a greenhouse soil in Korea. Cells were Gram-negative rods, motile by means of a single flagellum. Growth occurred at 10–40 °C and at pH 5–8. Ubiquinone-8 (Q-8) was the only respiratory lipoquinone. Major fatty acids were summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) and C16 : 0. 16S rRNA gene sequence analysis revealed that strain R2A43-10T was closely related to Chitinimonas taiwanensis cfT (sequence similarity of 94.8 %), but it exhibited low sequence similarities (<92 %) to other members of the Betaproteobacteria. The G+C content of the genomic DNA of strain R2A43-10T was 65.0 mol%. The novel isolate could be differentiated from C. taiwanensis cfT by several physiological properties. On the basis of genomic and phenotypic data, it is concluded that R2A43-10T (=KACC 11467T=DSM 17726T) is the type strain of a novel species of the genus Chitinimonas, for which the name Chitinimonas koreensis sp. nov. is proposed.

scholarly journals Halotalea alkalilenta gen. nov., sp. nov., a novel osmotolerant and alkalitolerant bacterium from alkaline olive mill wastes, and emended description of the family Halomonadaceae Franzmann et al. 1989, emend. Dobson and Franzmann 1996

2007 ◽  
Vol 57 (9) ◽  
pp. 1975-1983 ◽  
Author(s):  
Spyridon Ntougias ◽  
Georgios I. Zervakis ◽  
Constantinos Fasseas
Keyword(s):  
16S Rrna ◽  
Rrna Gene ◽  
The Novel ◽  
Two Phase ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Emended Description ◽  
Obligate Aerobe ◽  
Ph Range ◽  
Olive Mill

A novel Gram-negative, motile, nonsporulating, rod-shaped bacterium isolated from alkaline sludge-like wastes (‘alpeorujo’ or ‘alperujo’) of two-phase olive oil extraction is described. The strain, designated AW-7T, is an obligate aerobe that is halotolerant (tolerating up to 15 % w/v NaCl), sugar-tolerant (tolerating up to 45 % and 60 % w/v (+)-d-glucose and maltose respectively; these are the highest concentrations tolerated by any known members of the Bacteria domain) and alkalitolerant (growing at a broad pH range of 5–11). Strain AW-7T is chemo-organotrophic. Ubiquinone-9 was detected in the respiratory chain of strain AW-7T. The major fatty acids present are C18 : 1 ω7c, C16 : 0, C19 : 0 cyclo ω8c, C12 : 0 3-OH and C16 : 1 ω7c/iso-C15 : 0 2-OH. Based on 16S rRNA gene sequence analysis, strain AW-7T showed almost equal phylogenetic distances from Zymobacter palmae (95.6 % similarity) and Carnimonas nigrificans (95.4 % similarity). In addition, low DNA–DNA relatedness values were found for strain AW-7T against Carnimonas nigrificans CECT 4437T (22.5–25.4 %) and Z. palmae DSM 10491T (11.9–14.4 %). The DNA G+C content of strain AW-7T is 64.4 mol%. Physiological and chemotaxonomic data further confirmed the differentiation of strain AW-7T from the genera Zymobacter and Carnimonas. Thus, strain AW-7T represents a novel bacterial genus within the family Halomonadaceae, for which the name Halotalea gen. nov. is proposed. Halotalea alkalilenta sp. nov. (type strain AW-7T=DSM 17697T=CECT 7134T) is proposed as the type species of the genus Halotalea gen. nov. A reassignment of the descriptive 16S rRNA signature characteristics of the family Halomonadaceae permitted the placement of the novel genus Halotalea into the family; in contrast, the genus Halovibrio possessed only 12 out of the 18 signature characteristics proposed, and hence it was excluded from the family Halomonadaceae.

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