scholarly journals Bacillus chungangensis sp. nov., a halophilic species isolated from sea sand

2010 ◽  
Vol 60 (6) ◽  
pp. 1349-1352 ◽  
Author(s):  
Sung-Lim Cho ◽  
Min Young Jung ◽  
Mi-Hak Park ◽  
Wonyong Kim
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Divergence ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Phenotypic Data ◽  
Phenotypic Differences ◽  
Sea Sand ◽  
Gene Sequence Analysis ◽  
Halophilic Species

The taxonomic position of a Gram-stain-positive, endospore-forming, halophilic strain, designated CAU 348T, isolated from sea sand was investigated using a polyphasic approach. Colony morphology, biochemical tests and chemotaxonomic investigations revealed that strain CAU 348T had the characteristics of the genus Bacillus. Comparative 16S rRNA gene sequence analysis showed that the organism formed a hitherto unknown subline within the genus Bacillus. Sequence divergence values of more than 4.3 % from other described Bacillus species, together with phenotypic differences, showed that the unidentified bacterium represents a previously unrecognized member of this genus. The genotypic and phenotypic data indicated that strain CAU 348T represents a novel species of the genus Bacillus, for which the name Bacillus chungangensis sp. nov. is proposed. The type strain is CAU 348T (=KCTC 13566T =CCUG 57835T).

Bradyrhizobium cytisi sp. nov., isolated from effective nodules of Cytisus villosus

2011 ◽  
Vol 61 (12) ◽  
pp. 2922-2927 ◽  
Author(s):  
Rajaa Chahboune ◽  
Lorena Carro ◽  
Alvaro Peix ◽  
Said Barrijal ◽  
Encarna Velázquez ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Nitrogen Sources ◽  
Housekeeping Genes ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Phenotypic Differences ◽  
Carbon And Nitrogen ◽  
Gene Sequence Analysis

Several strains isolated from Cytisus villosus nodules have been characterized based on their diverse genetic, phenotypic and symbiotic characteristics. According to 16S rRNA gene sequence analysis, the isolates formed a group that was closely related to Bradyrhizobium canariense BTA-1T with 99.4 % similarity. Analysis of three housekeeping genes, recA, atpD and glnII, suggested that the C. villosus strains represent a novel Bradyrhizobium species most closely related to B. canariense BTA-1T with similarities of 94.2, 96.7 and 94.5 %, respectively. All these differences were congruent with DNA–DNA hybridization analysis, which revealed 31 % relatedness between a representative strain (CTAW11T) isolated from C. villosus nodules and B. canariense BTA-1T. Phenotypic differences among the strains isolated from C. villosus and B. canariense were based on assimilation of carbon and nitrogen sources. The nodC and nifH genes of strain CTAW11T were phylogenetically related to those of strains belonging to bv. genistearum and divergent from those of bv. glycinearum and, accordingly, they do not nodulate soybean. Based on the genotypic and phenotypic data obtained in this study, our strains should be classified as representatives of a novel species for which the name Bradyrhizobium cytisi sp. nov. is proposed; the type strain is CTAW11T ( = LMG 25866T = CECT 7749T).

scholarly journals Pseudoclavibacter chungangensis sp. nov., isolated from activated sludge

2010 ◽  
Vol 60 (7) ◽  
pp. 1672-1677 ◽  
Author(s):  
Sung-Lim Cho ◽  
Min Young Jung ◽  
Mi-Hak Park ◽  
Young-Hyo Chang ◽  
Jung-Hoon Yoon ◽  
...  
Keyword(s):  
Activated Sludge ◽  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Divergence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Gene Sequence Analysis

The taxonomic position of a Gram-positive, non-spore-forming strain, designated CAU 59T, from activated sludge was investigated. Colony morphology, biochemical tests and chemotaxonomic investigations revealed that strain CAU 59T possessed the characteristics of the genus Pseudoclavibacter. Comparative 16S rRNA gene sequence analysis showed sequence divergence values between strain CAU 59T and other described Pseudoclavibacter species of more than 3.6 %, and the strain formed a hitherto-unknown subline within the genus Pseudoclavibacter. DNA–DNA hybridization studies showed that strain CAU 59T displayed 20.9 % relatedness to its closest phylogenetic neighbour, Pseudoclavibacter helvolus DSM 20419T. The DNA G+C content was 66.2 mol%. The phenotypic, chemotaxonomic and genotypic data indicated that strain CAU 59T represents a novel species of the genus Pseudoclavibacter, for which the name Pseudoclavibacter chungangensis sp. nov. is proposed. The type strain is CAU 59T (=KCTC 22691T =CCUG 58142T).

scholarly journals Flavobacterium daejeonense sp. nov. and Flavobacterium suncheonense sp. nov., isolated from greenhouse soils in Korea

2006 ◽  
Vol 56 (7) ◽  
pp. 1645-1649 ◽  
Author(s):  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Sylvie Cousin ◽  
Seung-Hee Yoo ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Bacterial Strains ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
Greenhouse Soils ◽  
Sequence Similarities

Two yellow-pigmented, Gram-negative, rod-shaped bacterial strains, GH1-10T and GH29-5T, were isolated from greenhouse soils in Korea. 16S rRNA gene sequence analysis indicated that these strains were related to members of the genus Flavobacterium. Strain GH1-10T was most closely related to Flavobacterium psychrolimnae and Flavobacterium denitrificans, with sequence similarities of 95.9 and 95.2 %, respectively. Strain GH29-5T was most closely related to ‘Flavobacterium saliodium’, F. denitrificans and Flavobacterium frigoris, with sequence similarities of 94.3, 92.5 and 92.5 %, respectively. The major cellular fatty acids of GH1-10T were iso-C15 : 0, summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c) and iso-C17 : 0 3-OH, and those of GH29-5T were iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 1 G and iso-C15 : 0 3-OH. Both strains contained menaquinone with six isoprene units (MK-6) as the sole quinone. The DNA G+C contents of GH1-10T and GH29-5T were 35 and 39 mol%, respectively. Based on the phylogenetic and phenotypic data presented, it is concluded that the two bacteria represent two separate novel species of the genus Flavobacterium. The names proposed to accommodate these organisms are Flavobacterium daejeonense sp. nov., with type strain GH1-10T (=KACC 11422T=DSM 17708T), and Flavobacterium suncheonense sp. nov., with type strain GH29-5T (=KACC 11423T=DSM 17707T).

scholarly journals Sphingopyxis panaciterrulae sp. nov., isolated from soil of a ginseng field

2010 ◽  
Vol 60 (10) ◽  
pp. 2358-2363 ◽  
Author(s):  
Sathiyaraj Srinivasan ◽  
Myung Kyum Kim ◽  
Gayathri Sathiyaraj ◽  
Vaidyanathan Veena ◽  
Muthusamy Mahalakshmi ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Separate Species ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Physiological And Biochemical

A Gram-negative, rod-shaped, motile bacterium was isolated from the soil of a ginseng field in Daejeon, South Korea, and characterized in order to determine its taxonomic position. Phylogenetic analysis based on 16S rRNA gene sequence analysis revealed that strain DCY34T belonged to the family Sphingomonadaceae, and the highest degree of sequence similarity was found with Sphingopyxis witflariensis W-50T (97.1 %), Sphingopyxis ginsengisoli Gsoil 250T (97.0 %), Sphingopyxis chilensis S37T (96.9 %), Sphingopyxis macrogoltabida IFO 15033T (96.8 %), Sphingopyxis alaskensis RB2256T (96.7 %) and Sphingopyxis taejonensis JSS54T (96.7 %). Chemotaxonomic data revealed that strain DCY34T possessed ubiquinone Q-10 as the predominant respiratory lipoquinone, which is common to members of the genus Sphingopyxis. The predominant fatty acids were C18 : 1 ω7c (27.5 %), summed feature 4 (C16 : 1 ω7c and/or C15 : 0 iso 2-OH; 18.6 %), C16 : 0 (15.6 %) and summed feature 8 (C19 : 1 ω6c and/or unknown 18.864; 15.4 %). The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, sphingoglycolipid and an unknown polar lipid. The results of physiological and biochemical tests clearly demonstrated that strain DCY34T represented a separate species and supported its affiliation to the genus Sphingopyxis. Based on these data, the new isolate represents a novel species, for which the name Sphingopyxis panaciterrulae sp. nov. is proposed. The type strain is DCY34T (=KCTC 22112T=JCM 14844T).

scholarly journals Stenotrophomonas ginsengisoli sp. nov., isolated from a ginseng field

2010 ◽  
Vol 60 (7) ◽  
pp. 1522-1526 ◽  
Author(s):  
Ho-Bin Kim ◽  
Sathiyaraj Srinivasan ◽  
Gayathri Sathiyaraj ◽  
Lin-Hu Quan ◽  
Se-Hwa Kim ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Biochemical Tests ◽  
Gene Sequence Analysis ◽  
Stenotrophomonas Nitritireducens ◽  
Physiological And Biochemical

A Gram-negative, non-spore-forming, rod-shaped bacterium, designated strain DCY01T, was isolated from soil from a ginseng field in South Korea and was characterized in order to determine its taxonomic position. 16S rRNA gene sequence analysis revealed that strain DCY01T belonged to the Gammaproteobacteria and was most closely related to Stenotrophomonas koreensis KCTC 12211T (98.4 % similarity), Stenotrophomonas humi R-32729T (97.2 %), Stenotrophomonas terrae R-32768 (97.1 %), Stenotrophomonas maltophilia DSM 50170T (96.9 %) and Stenotrophomonas nitritireducens DSM 12575T (96.8 %). Chemotaxonomic analyses revealed that strain DCY01T possessed a quinone system with Q-8 as the predominant compound, and iso-C15 : 0 (28.2 %), C16 : 0 10-methyl (13.2 %), iso-C15 : 1 F (10.8 %) and C15 : 0 (7.5 %) as major fatty acids, corroborating assignment of strain DCY01T to the genus Stenotrophomonas. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The results of DNA–DNA hybridization and physiological and biochemical tests clearly demonstrated that strain DCY01T represents a species distinct from recognized Stenotrophomonas species. Based on these data, DCY01T (=KCTC 12539T=NBRC 101154T) should be classified as the type strain of a novel species of the genus Stenotrophomonas, for which the name Stenotrophomonas ginsengisoli sp. nov. is proposed.

Pseudomonas peli sp. nov. and Pseudomonas borbori sp. nov., isolated from a nitrifying inoculum

2006 ◽  
Vol 56 (8) ◽  
pp. 1875-1881 ◽  
Author(s):  
Bram Vanparys ◽  
Kim Heylen ◽  
Liesbeth Lebbe ◽  
Paul De Vos
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Banding Patterns ◽  
Gene Sequence Analysis ◽  
Species Analysis ◽  
Sds Page ◽  
Type Strains ◽  
Physiological And Biochemical

Sixteen Gram-negative, rod-shaped, non-spore-forming isolates were obtained from a nitrifying inoculum. Analysis of repetitive sequence-based PCR and SDS-PAGE banding patterns, 16S rRNA gene sequence analysis and DNA–DNA hybridizations showed that the isolates belonged to various groups within the genus Pseudomonas. One group of isolates could be assigned to Pseudomonas migulae and a second to Pseudomonas veronii. Two groups could be differentiated genotypically from each other and from all other currently known Pseudomonas species. Analysis of the fatty acid composition and physiological and biochemical tests allowed differentiation of these groups from their closest phylogenetic neighbours and they therefore represent two novel species within the genus Pseudomonas, for which the names Pseudomonas peli sp. nov. and Pseudomonas borbori sp. nov. are proposed, with strains LMG 23201T (=DSM 17833T=R-20805T) and LMG 23199T (=DSM 17834T=R-20821T), respectively, as the type strains.

scholarly journals Devosia soli sp. nov., isolated from greenhouse soil in Korea

2006 ◽  
Vol 56 (11) ◽  
pp. 2689-2692 ◽  
Author(s):  
Seung-Hee Yoo ◽  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Seung-Beom Hong ◽  
Soon-Wo Kwon ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Greenhouse Soil ◽  
Gene Sequence Analysis ◽  
Physiological And Biochemical ◽  
Sequence Similarities

A Gram-negative, obligately aerobic, rod-shaped bacterium was isolated from greenhouse soil used to cultivate lettuce. The strain, GH2-10T, was characterized on the basis of phenotypic and genotypic data. 16S rRNA gene sequence analysis revealed that the isolate belonged to the genus Devosia, with highest sequence similarity (98.5 %) to Devosia riboflavina IFO 13584T. Sequence similarities with other strains tested were below 97.0 %. Strain GH2-10T had Q-10 as the predominant ubiquinone and C18 : 1 ω7c and C16 : 0 as the major fatty acids. The G+C content of the genomic DNA was 59.5 mol%. The results of DNA–DNA hybridization experiments (47 % relatedness between D. riboflavina DSM 7230T and strain GH2-10T) and physiological and biochemical tests suggested that strain GH2-10T represents a novel species of the genus Devosia, for which the name Devosia soli sp. nov. is proposed. The type strain is GH2-10T (=KACC 11509T=DSM 17780T).

scholarly journals Castellaniella gen. nov., to accommodate the phylogenetic lineage of Alcaligenes defragrans, and proposal of Castellaniella defragrans gen. nov., comb. nov. and Castellaniella denitrificans sp. nov.

2006 ◽  
Vol 56 (4) ◽  
pp. 815-819 ◽  
Author(s):  
P. Kämpfer ◽  
K. Denger ◽  
A. M. Cook ◽  
S.-T. Lee ◽  
U. Jäckel ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Alcaligenes Faecalis ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
Distinct Genus

Comparative 16S rRNA gene sequence analysis indicates that two distinct sublineages exist within the genus Alcaligenes: the Alcaligenes faecalis lineage, comprising Alcaligenes aquatilis and A. faecalis (with the three subspecies A. faecalis subsp. faecalis, A. faecalis subsp. parafaecalis and A. faecalis subsp. phenolicus), and the Alcaligenes defragrans lineage, comprising A. defragrans. This phylogenetic discrimination is supported by phenotypic and chemotaxonomic differences. It is proposed that the A. defragrans lineage constitutes a distinct genus, for which the name Castellaniella gen. nov. is proposed. The type strain for Castellaniella defragrans gen. nov., comb. nov. is 54PinT (=CCUG 39790T=CIP 105602T=DSM 12141T). Finally, on the basis of data from the literature and new DNA–DNA hybridization and phenotypic data, the novel species Castellaniella denitrificans sp. nov. (type strain NKNTAUT=DSM 11046T=CCUG 39541T) is proposed for two strains previously identified as strains of A. defragrans.

scholarly journals Nocardia concava sp. nov., isolated from Japanese patients

2005 ◽  
Vol 55 (5) ◽  
pp. 2081-2083 ◽  
Author(s):  
Akiko Kageyama ◽  
Katsukiyo Yazawa ◽  
Hiroko Taniguchi ◽  
Hiroji Chibana ◽  
Kazuko Nishimura ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Japanese Patients ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Phenotypic Differences ◽  
Gene Sequence Analysis ◽  
Nocardia Otitidiscaviarum ◽  
Nocardia Seriolae

Two actinomycete strains, IFM 0354T and IFM 0576, isolated from Japanese patients, were found to have morphological, biochemical and chemotaxonomic properties consistent with their classification in the genus Nocardia. The strains resembled Nocardia otitidiscaviarum and Nocardia uniformis in their phenotypic properties. Comparative 16S rRNA gene sequence analysis showed that the strains are closely related to Nocardia seriolae. DNA–DNA relatedness values and phenotypic differences from N. seriolae indicated that the strains belong to a novel species of Nocardia, for which the name Nocardia concava sp. nov. is proposed. The type strain is IFM 0354T (=NBRC 100430T=JCM 12351T=DSM 44804T).

scholarly journals Endozoicomonas montiporae sp. nov., isolated from the encrusting pore coral Montipora aequituberculata

2010 ◽  
Vol 60 (5) ◽  
pp. 1158-1162 ◽  
Author(s):  
Cho-Song Yang ◽  
Ming-Hui Chen ◽  
A. B. Arun ◽  
Chaolun Allen Chen ◽  
Jih-Terng Wang ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Optimal Growth ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
Gene Sequence Analysis ◽  
Southern Taiwan ◽  
Physiological And Biochemical

A Gram-negative, aerobic, rod-shaped bacterium, designated strain CL-33T, was isolated from the encrusting pore coral Montipora aequituberculata collected from seawater off the coast of southern Taiwan. 16S rRNA gene sequence analysis showed that the strain clustered closely with Endozoicomonas elysicola MKT110T (96.7 % similarity). The novel strain required NaCl for growth and exhibited optimal growth at 25 °C and in the presence of 2–3 % NaCl. Predominant cellular fatty acids were summed feature 3 (C16 : 1 ω7c and/or C16 : 1 ω6c; 39.6 %), summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c; 32.8 %) and C16 : 0 (12.0 %). The DNA G+C content of strain CL-33T was 50.0 mol%. The results of physiological and biochemical tests allowed the clear phenotypic differentiation of this isolate from E. elysicola. It is evident from the genotypic, phenotypic and chemotaxonomic data presented that strain CL-33T represents a novel species of the genus Endozoicomonas, for which the name Endozoicomonas montiporae sp. nov. is proposed. The type strain is CL-33T (=LMG 24815T =BCRC 17933T).

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