scholarly journals Tenacibaculum skagerrakense sp. nov., a marine bacterium isolated from the pelagic zone in Skagerrak, Denmark

2004 ◽  
Vol 54 (2) ◽  
pp. 519-524 ◽  
Author(s):  
Lone Frette ◽  
Niels O. G. Jørgensen ◽  
Heidi Irming ◽  
Niels Kroer
Keyword(s):  
Dna Hybridization ◽  
Marine Bacterium ◽  
Sea Water ◽  
Novel Species ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Phenotypic Characteristics ◽  
Dna Base Composition ◽  
Dna Base ◽  
Number Of Bacteria

A number of bacteria were isolated from sea water in Skagerrak, Denmark, at 30 m depth. Two of the isolates, strains D28 and D30T, belonged to the Flavobacteriaceae within the Cytophaga–Flavobacterium–Bacteroides group. Sequencing of 16S rRNA genes of the two strains indicated strongly that they belonged to the genus Tenacibaculum and that they showed greatest similarity to the species Tenacibaculum amylolyticum and Tenacibaculum mesophilum. DNA–DNA hybridization values, DNA base composition and phenotypic characteristics separated the Skagerrak strains from the other species within Tenacibaculum. Thus, it is concluded that the strains belong to a novel species within the genus Tenacibaculum, for which the name Tenacibaculum skagerrakense sp. nov. is proposed, with strain D30T (=ATCC BAA-458T=DSM 14836T) as the type strain.

scholarly journals Jannaschia rubra sp. nov., a red-pigmented bacterium isolated from sea water

2005 ◽  
Vol 55 (2) ◽  
pp. 649-653 ◽  
Author(s):  
M. C. Macián ◽  
D. R. Arahal ◽  
E. Garay ◽  
W. Ludwig ◽  
K. H. Schleifer ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Sea Water ◽  
Novel Species ◽  
Rrna Gene ◽  
Genotypic Differences ◽  
Strictly Aerobic ◽  
Phenotypic Characteristics ◽  
Dna Base Composition ◽  
Solid Media ◽  
Dna Base

A Gram-negative, slightly halophilic, strictly aerobic, chemo-organotrophic bacterium was isolated from Mediterranean sea water near Valencia (Spain). Comparison of the almost complete 16S rRNA gene sequence showed that strain 4SM3T belonged to the Roseobacter group, with Jannaschia helgolandensis as its closest relative, with a similarity of 98·7 %. DNA–DNA hybridization analysis showed that the Mediterranean isolate had a level of relatedness of less than 42 % with J. helgolandensis and therefore that it represented a novel species of the genus Jannaschia. Phenotypic characteristics gave further evidence that the two organisms are not related at the species level. Isolate 4SM3T grows on solid media as irregular pink–red colonies that penetrate into the agar. Cells are rods, motile by a tuft of polar flagella. The DNA base composition is 64·6 mol% G+C. Morphological, physiological and genotypic differences from related species support the description of a novel species, Jannaschia rubra sp. nov., with strain 4SM3T (=CECT 5088T=DSM 16279T) as the type strain.

scholarly journals Haloarcula amylolytica sp. nov., an extremely halophilic archaeon isolated from Aibi salt lake in Xin-Jiang, China

2007 ◽  
Vol 57 (1) ◽  
pp. 103-106 ◽  
Author(s):  
Yong Yang ◽  
Heng-Lin Cui ◽  
Pei-Jin Zhou ◽  
Shuang-Jiang Liu
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Salt Lake ◽  
Taxonomic Status ◽  
Growth Characteristics ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Halophilic Archaeon ◽  
Phenotypic Differences ◽  
Extremely Halophilic Archaeon

A starch-hydrolysing and extremely halophilic archaeon (strain BD-3T), isolated from Aibi salt lake in Xin-Jiang, China, was characterized phenotypically and genotypically in order to determine its taxonomic status. On the basis of its polar lipid composition, nucleotide sequences of its 16S rRNA genes, genomic DNA G+C content (62.4 mol%) and growth characteristics, the organism could be assigned to the genus Haloarcula. Phenotypic differences and low DNA–DNA hybridization values to related Haloarcula species distinguished strain BD-3T from recognized Haloarcula species. It is therefore concluded that strain BD-3T represents a novel species, for which the name Haloarcula amylolytica sp. nov. is proposed. The type strain is BD-3T (=CGMCC 1.5335T=JCM 13557T).

scholarly journals Streptococcus orisuis sp. nov., isolated from the pig oral cavity

2007 ◽  
Vol 57 (6) ◽  
pp. 1272-1275 ◽  
Author(s):  
Kazuko Takada ◽  
Masatomo Hirasawa
Keyword(s):  
16S Rrna ◽  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Mutans Streptococci ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Oral Streptococci ◽  
The Novel ◽  
Bacterial Strains

Five bacterial strains, designated as NUM 1001T, NUM 1002, NUM 1003, NUM 1004 and NUM 1005, were isolated from the oral cavities of pigs. Colonies grown on mitis salivarius agar were similar in morphology to those of mutans streptococci. The novel isolates were analysed biochemically using the Rapid ID 32 Strep microsystem, subjected to DNA–DNA hybridization with oral streptococci and had their 16S rRNA genes sequenced. On the basis of the phylogenetic and phenotypic evidence obtained, the strains represent a novel species of the genus Streptococcus, for which the name Streptococcus orisuis sp. nov. is proposed. The type strain is NUM 1001T (=JCM 14035T=DSM 18307T).

scholarly journals МОНГОЛ ОРНЫ ХӨРСНӨӨС ЯЛГАСАН АКТИНОМИЦЕТИЙН АНГИЛАЛЗҮЙН СУДАЛГААНЫ ДҮНГЭЭС

2016 ◽  
pp. 66-72
Author(s):  
Б Пагмадулам ◽  
Мониша Канна ◽  
Д Цэрэндулам ◽  
Ц Рэнцэнханд
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
Dna Hybridization ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Phenotypic Characteristics ◽  
Genus Streptomyces ◽  
Streptomyces Ghanaensis ◽  
Preliminary Study ◽  
Type Strains

Soil samples were collected from Khentii and Tuv provinces in Mongolia. Two strains (N11, N22) were selected for polyphasic approach which including morphological, physiological and phylogenetic analysis. Phylogenetic analysis revealed that the strain N22 has highest the 16S rRNA similarity of 99.39% with Streptomyces ghanaensis NBRC 15414(T). The 16S rRNA genes sequence of 1418 nucleotides was generated for N11 and compared to the validly described species of genus Streptomyces as closest neighbors. Phylogenetic analysis revealed that the strain N11 has highest the 16S rRNA similarity of 98.51% with Streptomyces yerevanensis NBRC 12517(T). Also some phenotypic characteristics were different from type strains. Preliminary study shows that strain N11 might be new actinomycete species. However, need to determine the genetic distance between two microorganisms by using DNA-DNA hybridization methods.

scholarly journals Alcanivorax gelatiniphagus sp. nov., a marine bacterium isolated from tidal flat sediments enriched with crude oil

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2204-2208 ◽  
Author(s):  
Kae Kyoung Kwon ◽  
Ji Hye Oh ◽  
Sung-Hyun Yang ◽  
Hyun-Seok Seo ◽  
Jung-Hyun Lee
Keyword(s):  
Dna Hybridization ◽  
Marine Bacterium ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Characteristics ◽  
Gene Sequence Analysis ◽  
Optimum Ph ◽  
Tidal Flat Sediments

A Gram-reaction-negative, rod-shaped marine bacterium, designated MEBiC08158T, was isolated from sediments collected from Taean County, Korea, near the Hebei Spirit tanker oil spill accident. 16S rRNA gene sequence analysis revealed that strain MEBiC08158T was closely related to Alcanivorax marinus R8-12T (99.5 % similarity) but was distinguishable from other members of the genus Alcanivorax (93.7–97.1 %). The DNA–DNA hybridization value between strain MEBiC08158T and A. marinus R8-12T was 58.4 %. Growth of strain MEBiC08158T was observed at 15–43 °C (optimum 37–40 °C), at pH 6.0–9.5 (optimum pH 7.0–8.0) and with 0.5–16 % NaCl (optimum 1.5–3.0 %). The dominant fatty acids were C16 : 0, C19 : 0 cyclo ω8c, C12 : 0, C18 : 1ω7c, C12 : 0 3-OH and summed feature 3 (comprising C15 : 0 2-OH and/or C16 : 1ω7c). Several phenotypic characteristics differentiate strain MEBiC08158T from phylogenetically close members of the genus Alcanivorax. Therefore, strain MEBiC08158T should be classified as representing a novel species of the genus Alcanivorax, for which the name Alcanivorax gelatiniphagus sp. nov. is proposed. The type strain is MEBiC08158T ( = KCCM 42990T = JCM 18425T).

Phenotypic and molecular characterization of chickpea rhizobia isolated from different areas of Tunisia

2007 ◽  
Vol 53 (3) ◽  
pp. 427-434 ◽  
Author(s):  
Boulbaba L’taief ◽  
Bouaziz Sifi ◽  
Maher Gtari ◽  
Mainassara Zaman-Allah ◽  
Mokhtar Lachaâl
Keyword(s):  
Rflp Analysis ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Phenotypic Characteristics ◽  
Cicer Arietinum L ◽  
Mesorhizobium Ciceri ◽  
Length Polymorphisms ◽  
Reference Strains ◽  
Tolerance To Salinity

Several phenotypic markers were used in this study to determine the biodiversity of rhizobial strains nodulating Cicer arietinum L. in various areas of Tunisia. They include symbiotic traits, the use of 21 biochemical substrates, and tolerance to salinity and pH. In addition, restriction fragment length polymorphisms (RFLPs) of PCR-amplified 16S rDNA were compared with those of reference strains. Numeric analysis of the phenotypic characteristics showed that the 48 strains studied fell into three distinct groups. This heterogeneity was highly supported by the RFLP analysis of 16S rRNA genes, and two ribotypes were identified. Chickpea rhizobia isolated from Tunisian soils are both phenotypically and genetically diverse. Results showed that 40 and 8 isolates were assigned, respectively, to Mesorhizobium ciceri and Mesorhizobium mediterraneum .

scholarly journals Alkalibacterium psychrotolerans sp. nov., a psychrotolerant obligate alkaliphile that reduces an indigo dye

2004 ◽  
Vol 54 (6) ◽  
pp. 2379-2383 ◽  
Author(s):  
Isao Yumoto ◽  
Kikue Hirota ◽  
Yoshinobu Nodasaka ◽  
Yuji Yokota ◽  
Tamotsu Hoshino ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Sequence Data ◽  
Novel Species ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Polygonum Tinctorium ◽  
Indigo Dye ◽  
Alkaliphilic Bacterium ◽  
Straight Rod

A psychrotolerant, obligately alkaliphilic bacterium, IDR2-2T, which is able to reduce indigo dye was isolated from a fermented polygonum indigo (Polygonum tinctorium Lour.) produced in Date, Hokkaido, using a traditional Japanese method. The isolate grew at pH 9–12 but not at pH 7–8. It was a Gram-positive, facultatively anaerobic, straight rod-shaped bacterium with peritrichous flagella. The isolate grew in 0–17 % (w/v) NaCl but not at NaCl concentrations higher than 18 % (w/v). Its major cellular fatty acids were C14 : 0, C16 : 0, C16 : 19c and C18 : 19c, and its DNA G+C content was 40·6 mol%. dl-lactic acid was the major end-product from d-glucose. No quinones could be detected. The peptidoglycan type was A4β, Orn–d-Glu. A phylogenetic analysis based on 16S rRNA gene sequence data indicated that strain IDR2-2T is a member of the genus Alkalibacterium. DNA–DNA hybridization revealed low relatedness (less than 25 %) between the isolate and two phylogenetically related strains, Alkalibacterium olivapovliticus and Marinilactibacillus psychrotolerans. On the basis of phenotypic characteristics, phylogenetic data and DNA–DNA relatedness data, the isolate merits classification as a novel species, for which the name Alkalibacterium psychrotolerans sp. nov. is proposed. The type strain is IDR2-2T (=JCM 12281T=NCIMB 13981T).

DNA reassociation and electrokaryotype study of some Candida species and synonymy of Candida terebra, Candida entomaea, and Candida veronae

1993 ◽  
Vol 39 (9) ◽  
pp. 864-867 ◽  
Author(s):  
Ching-Fu Lee ◽  
Fwu-Ling Lee ◽  
Wen-Haw Hsu ◽  
Wen Hwei Hsu
Keyword(s):  
Candida Species ◽  
Base Composition ◽  
Phenotypic Characteristics ◽  
Dna Base Composition ◽  
Dna Relatedness ◽  
Dna Base ◽  
Dna Reassociation

Some Candida species that were similar in phenotypic characteristics were studied by molecular taxonomic comparisons including electrophoretic karyotypes, DNA base composition, and DNA relatedness. Among the species studied, Candida terebra, Candida entomaea, and Candida veronae showed similar electrophoretic karyotypes and a G + C range from 39.7 to 40.2 mol% in DNA base composition, and demonstrated 85–104% DNA similarity on the basis of flourometric hybridization in microdilution wells. As C. terebra has priority, we suggest that C. entomaea and C. veronae should be synonyms of C. terebra. Other species in this study, Candida dendronema, Candida diddensiae, Candida naeodendra, and Candida atmospherica, had low DNA relatedness. Thus, these species should be maintained in their original separate taxa.Key words: DNA reassociation, electrokaryotype, Candida species, synonym.

scholarly journals Flammeovirga kamogawensis sp. nov., isolated from coastal seawater in Japan

2007 ◽  
Vol 57 (6) ◽  
pp. 1327-1330 ◽  
Author(s):  
Shoichi Hosoya ◽  
Akira Yokota
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Threshold Values ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Coastal Seawater ◽  
Definition Of ◽  
Type Strains

Two strains of gliding, agarolytic bacteria, strains YS10T and YML5, were isolated from coastal seawater off Kamogawa, Japan. Phylogenetic analysis based on 16S rRNA gene sequences showed that the novel isolates represent a separate lineage within the genus Flammeovirga. DNA–DNA hybridization values between these isolates and the type strains of species of the genus Flammeovirga were significantly lower than those accepted as threshold values for the phylogenetic definition of a species. Furthermore, some of the phenotypic characteristics indicate that the isolates differ from other Flammeovirga species. Based on these differences, it is suggested that the isolates represent a novel species, for which the name Flammeovirga kamogawensis sp. nov. is proposed. The type strain is YS10T (=IAM 15451T=NCIMB 14281T).

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