scholarly journals Pontibacter actiniarum gen. nov., sp. nov., a novel member of the phylum ‘Bacteroidetes’, and proposal of Reichenbachiella gen. nov. as a replacement for the illegitimate prokaryotic generic name Reichenbachia Nedashkovskaya et al. 2003

2005 ◽  
Vol 55 (6) ◽  
pp. 2583-2588 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Makoto Suzuki ◽  
Lyudmila S. Shevchenko ◽  
Myung Sook Lee ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Negative Bacterium ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Novel Genus And Species

The taxonomic position of a marine, gliding, pink-pigmented, aerobic, heterotrophic and Gram-negative bacterium was established using a polyphasic approach. 16S rRNA gene sequence analysis indicated that the strain was a member of the phylum ‘Bacteroidetes’ in which it occupied a separate lineage. The predominant cellular fatty acids were C15 : 0 iso, C17 : 0 iso 3-OH, summed feature 3 and summed feature 4. The DNA G+C content was 48·7 mol%. Phylogenetic evidence and the results of phenotypic, genotypic and chemotaxonomic analyses strongly support the assignment of the newly isolated bacterium as a member of a novel genus and species, for which the name Pontibacter actiniarum gen. nov., sp. nov. is proposed. The type strain is KMM 6156T (=KCTC 12367T=LMG 23027T). It is also proposed that the illegitimate names Reichenbachia and Reichenbachia agariperforans are replaced with Reichenbachiella and Reichenbachiella agariperforans, respectively.

scholarly journals Nocardioides aestuarii sp. nov., isolated from tidal flat sediment

2004 ◽  
Vol 54 (6) ◽  
pp. 2151-2154 ◽  
Author(s):  
Hana Yi ◽  
Jongsik Chun
Keyword(s):  
Fatty Acids ◽  
Tidal Flat ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis

A strictly aerobic, non-motile, rod-shaped actinomycete, designated strain JC2056T, was isolated from a sediment sample of getbol, the tidal flat of Korea. Results of 16S rRNA gene sequence analysis indicated that the isolate belonged to the genus Nocardioides, with the highest similarity being to Nocardioides luteus KCTC 9575T (95·7 %). The major menaquinone was MK-8(H4), and predominant cellular fatty acids were iso-16 : 0 and iso-16 : 1 H. The DNA G+C content was 70 mol%. Based on the morphological, physiological, biochemical and chemotaxonomical data presented in this study, strain JC2056T should be classified as a novel species, for which the name Nocardioides aestuarii sp. nov. is proposed; the type strain is JC2056T (=IMSNU 14029T=KCTC 9921T=JCM 12125T).

scholarly journals Roseospira visakhapatnamensis sp. nov. and Roseospira goensis sp. nov.

2007 ◽  
Vol 57 (11) ◽  
pp. 2453-2457 ◽  
Author(s):  
S. Kalyan Chakravarthy ◽  
T. N. R. Srinivas ◽  
P. Anil Kumar ◽  
Ch. Sasikala ◽  
Ch. V. Ramana
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Aminobenzoic Acid ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Photosynthetic Membranes ◽  
Marine Habitats ◽  
Gene Sequence Analysis

Two Gram-negative, vibrioid, phototrophic, purple non-sulfur strains, JA131T and JA135T, were isolated from marine habitats. Strain JA131T is non-motile but strain JA135T is motile by means of a pair of monopolar flagella. Both strains have an obligate requirement for NaCl for growth. The intracellular photosynthetic membranes of the two novel strains are of the vesicular type. Bacteriochlorophyll a and probably rhodovibrine are present as photosynthetic pigments. Niacin, thiamine and p-aminobenzoic acid are required as growth factors for both novel strains. Based on 16S rRNA gene sequence analysis, morphological and physiological characteristics, strains JA131T and JA135T are significantly different from each other and from other species of the genus Roseospira and thus represent two novel species for which the names Roseospira visakhapatnamensis sp. nov. and Roseospira goensis sp. nov. are proposed, respectively. The type strain of Roseospira visakhapatnamensis sp. nov. is JA131T (=ATCC BAA-1365T=JCM 14190T) and the type strain of Roseospira goensis sp. nov. is JA135T (=ATCC BAA-1364T=JCM 14191T).

scholarly journals Slackia equolifaciens sp. nov., a human intestinal bacterium capable of producing equol

2010 ◽  
Vol 60 (8) ◽  
pp. 1721-1724 ◽  
Author(s):  
Jong-Sik Jin ◽  
Maki Kitahara ◽  
Mitsuo Sakamoto ◽  
Masao Hattori ◽  
Yoshimi Benno
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Dimethyl Acetal ◽  
Rrna Gene ◽  
Intestinal Bacterium ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Bacterium Strain

An equol-producing bacterium, strain DZET, which was isolated from human faeces, was characterized by morphological, biochemical and molecular methods. The isolate was Gram-positive, obligately anaerobic, non-spore-forming, asaccharolytic and rod-shaped. 16S rRNA gene sequence analysis showed 92.8, 91.0, 91.1 and 90.6 % similarities with Slackia faecicanis, Slackia exigua, Slackia heliotrinireducens and Slackia isoflavoniconvertens, respectively. Based on these data, we propose a novel species of the genus Slackia, Slackia equolifaciens sp. nov. The major cellular fatty acids are C14 : 0, C18 : 1 ω9c and C18 : 1 ω9c DMA (dimethyl acetal). The DNA G+C content of the strain is 60.8 mol%. The type strain of S. equolifaciens sp. nov. is DZET (=JCM 16059T =CCUG 58231T).

scholarly journals Veillonella denticariosi sp. nov., isolated from human carious dentine

2007 ◽  
Vol 57 (12) ◽  
pp. 2844-2848 ◽  
Author(s):  
Roy Byun ◽  
Jean-Philippe Carlier ◽  
Nicholas A. Jacques ◽  
Helene Marchandin ◽  
Neil Hunter
Keyword(s):  
Fatty Acids ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Gram Negative ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Carious Dentine ◽  
Distinct Lineage

Selective culture of human carious dentine for Veillonella strains resulted in the isolation of two strains of a Gram-negative, coccus-shaped bacterium that has not been described previously. Comparative 16S rRNA and dnaK gene sequence analysis indicated that the two strains were homogeneous and comprised a distinct lineage within the genus Veillonella, phylogenetically most closely related to Veillonella rodentium. This was supported by DNA–DNA hybridization, which showed clearly that the two strains were similar and distinct from other Veillonella species, and the production of major cellular fatty acids (C13 : 0 and C17 : 1 ω8), which is consistent with other members of the genus Veillonella. Based on these observations, strains RBV81 and RBV106T represent a novel species, for which the name Veillonella denticariosi sp. nov. is proposed, with the type strain RBV106T (=CIP 109448T =CCUG 54362T =DSM 19009T).

scholarly journals Rheinheimera texasensis sp. nov., a halointolerant freshwater oligotroph

2007 ◽  
Vol 57 (10) ◽  
pp. 2376-2380 ◽  
Author(s):  
Mubina M. Merchant ◽  
Allana K. Welsh ◽  
Robert J. C. McLean
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Gram Negative ◽  
Physiological And Biochemical

A Gram-negative, rod-shaped, motile, non-spore-forming bacterium, designated strain A62-14BT, was isolated from a constant-temperature, spring-fed, freshwater lake. On the basis of the complete 16S rRNA gene sequence, strain A62-14BT was shown to belong to the class Gammaproteobacteria, being most closely related to Rheinheimera sp. HTB082 (96.2 % sequence similarity), Rheinheimera baltica (95.01 %), Rheinheimera pacifica (96.35 %), Rheinheimera perlucida and Alishewanella fetalis (95.9 %). The major fatty acids (C16 : 1 ω7c, 38.56 %; C16 : 0, 19.04 %; C12 : 0 3-OH, 12.83 %; C18 : 1 ω7c, 7.70 %) and the motility of strain A62-14BT support its affiliation to the genus Rheinheimera. The salt intolerance of strain A62-14BT, together with the results of other physiological and biochemical tests, allowed the differentiation of this strain from the three species of the genus Rheinheimera with validly published names. Therefore strain A62-14BT represents a novel species of the genus Rheinheimera, for which the name Rheinheimera texasensis sp. nov. is proposed. The type strain is A62-14BT (=ATCC BAA-1235T=DSM 17496T). The description of the genus Rheinheimera is emended to reflect the halointolerance and freshwater origin of strain A62-14BT.

scholarly journals Agromyces soli sp. nov., isolated from farm soil

2011 ◽  
Vol 61 (6) ◽  
pp. 1286-1292 ◽  
Author(s):  
Myungjin Lee ◽  
Leonid N. Ten ◽  
Sung-Geun Woo ◽  
Joonhong Park
Keyword(s):  
Cell Wall ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Unidentified Phospholipid ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis

A Gram-positive, aerobic to microaerophilic, non-motile bacterial strain, designated MJ21T, was isolated from farm soil and was characterized to determine its taxonomic position by using a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain MJ21T was placed within the genus Agromyces, and exhibited relatively high levels of similarity to Agromyces ulmi XIL01T (97.8 %), Agromyces aurantiacus YIM 21741T (97.1 %), Agromyces mediolanus JCM 3346T (96.7 %), A. mediolanus JCM 1376 (99.1 %), A. mediolanus JCM 9632 (99.1 %), A. mediolanus JCM 9633 (98.9 %) and A. mediolanus JCM 9631 (96.5 %). Chemotaxonomic data also supported the classification of strain MJ21T within the genus Agromyces. The new isolate contained MK-12 as the predominant menaquinone and rhamnose, galactose and xylose as cell-wall sugars. The major cellular fatty acids (>10 % of the total) were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. Cell-wall amino acids were 2,4-diaminobutyric acid, glutamic acid, glycine and alanine. Diphosphatidylglycerol, phosphatidylglycerol, two unknown glycolipids and one unidentified phospholipid were detected as polar lipids. The DNA G+C content of strain MJ21T was 73.4 mol%. However, levels of DNA–DNA relatedness between strain MJ21T and the seven phylogenetically closest Agromyces strains ranged from 14 to 56 %, showing clearly that the new isolate represents a novel genomic species. Strain MJ21T could be differentiated clearly from its phylogenetic neighbours on the basis of phenotypic, genotypic and chemotaxonomic features. Therefore, strain MJ21T is considered to represent a novel species of the genus Agromyces, for which the name Agromyces soli sp. nov. is proposed. The type strain is MJ21T ( = KCTC 19549T  = JCM 16247T).

scholarly journals Prevotella bergensis sp. nov., isolated from human infections

2006 ◽  
Vol 56 (3) ◽  
pp. 609-612 ◽  
Author(s):  
Julia Downes ◽  
Iain C. Sutcliffe ◽  
Tor Hofstad ◽  
William G. Wade
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Soft Tissues ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
Gene Sequence Analysis ◽  
End Products ◽  
Human Infections

Eight strains of anaerobic Gram-negative bacilli isolated from infections of the skin and soft tissues were subjected to a comprehensive range of phenotypic and genotypic tests. 16S rRNA gene sequence analysis revealed the strains to constitute a homogeneous group, distinct from species with validly published names but related to a cluster including Prevotella buccae, Prevotella dentalis and Prevotella baroniae. A novel species, Prevotella bergensis sp. nov., is proposed to accommodate these strains. Prevotella bergensis is saccharolytic and produces acetic and succinic acids as end products of fermentation. The G+C content of the DNA of the type strain is 48 mol%. The type strain of Prevotella bergensis is 94067913T (=DSM 17361T=CCUG 51224T).

scholarly journals Dyella yeojuensis sp. nov., isolated from greenhouse soil in Korea

2006 ◽  
Vol 56 (9) ◽  
pp. 2079-2082 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Kang-Hyo Lee ◽  
Soon-Ja Seok ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Sequence Analyses ◽  
Greenhouse Soil ◽  
Gram Negative ◽  
Type Strains

A novel strain, R2A16-10T, was isolated from greenhouse soil in Yeoju, Korea. The taxonomy of strain R2A16-10T was studied by using polyphasic methods. On the basis of 16S rRNA gene sequence analyses, strain R2A16-10T was found to be phylogenetically related to type strains of Dyella species (96.7–96.9 %), Frateuria aurantia DSM 6220T (96.5 %), Fulvimonas soli LMG 19981T (96.3 %) and Rhodanobacter species (94.9–95.7 %). Strain R2A16-10T, which produced yellow-coloured colonies, was Gram-negative, rod-shaped (0.3–0.4×1.5–3.5 μm) and motile. The predominant fatty acids were 17 : 1 iso ω9c (25.5 %), 15 : 0 iso (18.7 %) and 17 : 0 iso (14.6 %), and the major hydroxy fatty acids were 11 : 0 iso 3-OH (5.0 %), 13 : 0 iso 3-OH (3.4 %) and 17 : 0 iso 3-OH (1.0 %). The major isoprenoid quinone was Q-8. The G+C content of the DNA of the type strain was 63.0 mol%. On the basis of the data from this study, strain R2A16-10T represents a novel species of the genus Dyella, for which the name Dyella yeojuensis sp. nov. is proposed. The type strain is R2A16-10T (=KACC 11405T=DSM 17673T).

scholarly journals Pseudomonas panacis sp. nov., isolated from the surface of rusty roots of Korean ginseng

2005 ◽  
Vol 55 (4) ◽  
pp. 1721-1724 ◽  
Author(s):  
Yoon-Dong Park ◽  
Hyang Burm Lee ◽  
Hana Yi ◽  
Youngjun Kim ◽  
Kyung Sook Bae ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Phylogenetic Analysis ◽  
Type Strain ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Rrna Gene Sequence ◽  
Gram Negative ◽  
The 16S Rrna Gene ◽  
Korean Ginseng

A Gram-negative, aerobic bacterium, designated CG20106T, was isolated from the surface tissues of rusty root lesions of Korean ginseng. Phylogenetic analysis of the 16S rRNA gene sequence revealed that this isolate represents a hitherto unknown subline within the genus Pseudomonas. Strain CG20106T was catalase- and oxidase-positive, motile and rod-shaped. The overall phenotypic features of the ginseng isolate were similar to those of Pseudomonas cedrina, Pseudomonas migulae and Pseudomonas azotoformans. However, several physiological and chemotaxonomic properties can be weighted to distinguish the isolate from these organisms. The major fatty acids were C16 : 1 ω7c and/or iso-C15 : 0 2-OH (summed feature 3, 36·4±0·4 %), C16 : 0 (27·5±0·7 %) and C18 : 1 ω7c (19·4±0·2 %). The DNA G+C content was 61·4 mol%. On the basis of the polyphasic results revealed in this study, the name Pseudomonas panacis sp. nov. is proposed for strain CG20106T. The type strain is CG20106T (=IMSNU 14100T=CIP 108524T=KCTC 12330T).

scholarly journals Microbacterium ulmi sp. nov., a xylanolytic, phosphate-solubilizing bacterium isolated from sawdust of Ulmus nigra

2004 ◽  
Vol 54 (2) ◽  
pp. 513-517 ◽  
Author(s):  
Raúl Rivas ◽  
Martha E. Trujillo ◽  
Manuel Sánchez ◽  
Pedro F. Mateos ◽  
Eustoquio Martínez-Molina ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Rrna Gene ◽  
The Novel ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Phosphate Solubilizing ◽  
Type Strains

A xylanolytic and phosphate-solubilizing bacterium isolated from sawdust of Ulmus nigra in Salamanca was characterized by a polyphasic approach. The novel strain, designated XIL02T, was Gram-positive, aerobic, catalase- and oxidase-negative, rod-shaped and non-motile. Phylogenetically and chemotaxonomically, it was related to members of the genus Microbacterium. According to 16S rRNA gene sequence analysis, it is closely related to Microbacterium arborescens and Microbacterium imperiale; however, DNA–DNA hybridization showed reassociation values less than 70 % with the type strains of these species. In chemotaxonomic analyses, the major menaquinones detected were MK-12, MK-13 and MK-11 and the major fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0; the peptidoglycan was of the type B2β. The G+C content determined was 69 mol%. Based on the present data, it is proposed that strain XIL02T (=LMG 20991T=CECT 5976T) be classified as the type strain of a novel Microbacterium species, for which the name Microbacterium ulmi sp. nov. is proposed.

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