scholarly journals Cohnella thailandensis sp. nov., a xylanolytic bacterium from Thai soil

2010 ◽  
Vol 60 (10) ◽  
pp. 2284-2287 ◽  
Author(s):  
Saowapar Khianngam ◽  
Somboon Tanasupawat ◽  
Ancharida Akaracharanya ◽  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Physiological And Biochemical Characteristics ◽  
Bacterium Strain ◽  
Physiological And Biochemical

A xylanolytic bacterium, strain S1-3T, was isolated from soil collected in Nan province, Thailand. It was characterized taxonomically based on phenotypic characteristics and 16S rRNA gene sequence comparison. The strain was a Gram-stain-positive, facultatively anaerobic, spore-forming, rod-shaped bacterium. It contained meso-diaminopimelic acid in the cell-wall peptidoglycan. The major menaquinone was MK-7. Iso-C16 : 0 (39.5 %) and anteiso-C15 : 0 (26.8 %) were predominant cellular fatty acids. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and lysyl-phosphatidylglycerol were the major polar lipids. The DNA G+C content was 53.3 mol%. Phylogenetic analysis using 16S rRNA gene sequences showed that strain S1-3T was affiliated to the genus Cohnella, and was closely related to Cohnella ginsengisoli GR21-5T and Cohnella thermotolerans CCUG 47242T with 95.7 and 95.3 % sequence similarity, respectively. Strain S1-3T could be clearly distinguished from related species of the genus Cohnella by its physiological and biochemical characteristics as well as by its phylogenetic position. Therefore, the strain represents a novel species of the genus Cohnella, for which the name Cohnella thailandensis sp. nov. is proposed. The type strain is S1-3T (=KCTC 22296T =TISTR 1890T =PCU 306T).

Proposal of Motilibacteraceae fam. nov., with the description of Motilibacter rhizosphaerae sp. nov.

2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3818-3822 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
16S Rrna Sequence ◽  
16S Rrna Gene Analysis ◽  
Content Type ◽  
Link Type

A rod-shaped actinobacterium, designated strain RS-16T, was isolated from a rhizosphere soil and its taxonomic position was determined by a polyphasic taxonomic approach. Comparative 16S rRNA gene sequence analysis indicated that strain RS-16T was most closely related to the type strain of Motilibacter peucedani (98.3 % sequence similarity). The cell-wall peptidoglycan contained ll-diaminopimelic acid as the diagnostic diamino acid and N-glycolylated murein. The major whole-cell sugars were glucose, galactose and mannose. The predominant menaquinone was MK-9(H4). The major fatty acids were C18 : 1ω9c and C16 : 0. The DNA G+C content was 73.1 mol%. The phenotypic and DNA–DNA hybridization data showed that strain RS-16T ( = KACC 16209T = DSM 45622T) represents a novel species of the genus Motilibacter , for which Motilibacter rhizosphaerae sp. nov. is proposed. Based on the phylogenetic position determined by 16S rRNA gene analysis and the signature nucleotide set of the 16S rRNA sequence, the genus Motilibacter represents a novel family of the suborder Frankineae , for which the name Motilibacteraceae fam. nov. is proposed.

scholarly journals Bacillus salarius sp. nov., a halophilic, spore-forming bacterium isolated from a salt lake in China

2006 ◽  
Vol 56 (2) ◽  
pp. 373-377 ◽  
Author(s):  
Jee-Min Lim ◽  
Che Ok Jeon ◽  
Sang-Mi Lee ◽  
Jae-Chan Lee ◽  
Li-Hua Xu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Moderately Halophilic Bacterium ◽  
Bacterium Strain

A moderately halophilic bacterium, strain BH169T, capable of growing at salinities of 3–20 % (w/v) NaCl was isolated from a saline lake in China. Strain BH169T was strictly aerobic, short-rod-shaped and non-motile (non-flagellated). Its major cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0, iso-C15 : 0 and iso-C16 : 0. The genomic DNA G+C content was about 43 mol% and the predominant quinone was MK-7. The cell-wall peptidoglycan was of the A1γ type, containing meso-diaminopimelic acid as the diagnostic diamino acid. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolate formed a distinct phylogenetic line within the spore-forming rods of the genus Bacillus. The levels of 16S rRNA gene sequence similarity to the type strains of Bacillus species were below 93 %. On the basis of phenotypic and molecular properties, strain BH169T (=KCTC 3912T=DSM 16461T) represents the type strain of a novel species within the genus Bacillus, for which the name Bacillus salarius sp. nov. is proposed.

scholarly journals Lentibacillus lacisalsi sp. nov., a moderately halophilic bacterium isolated from a saline lake in China

2005 ◽  
Vol 55 (5) ◽  
pp. 1805-1809 ◽  
Author(s):  
Jee-Min Lim ◽  
Che Ok Jeon ◽  
Sung-Min Song ◽  
Jae-Chan Lee ◽  
Yoon Jung Ju ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Salt Lake ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Moderately Halophilic ◽  
Moderately Halophilic Bacterium ◽  
Bacterium Strain

An aerobic, spore-forming, moderately halophilic bacterium, strain BH260T, was isolated from a salt lake in China. Cells of this strain were found to be motile rods with flagella. The organism grew optimally at 30–32 °C and pH 8·0 in the presence of 12–15 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolate formed a clade with the type strains of the genus Lentibacillus. The levels of 16S rRNA gene sequence similarity for strain BH260T with respect to Lentibacillus salsus KCTC 3911T, Lentibacillus juripiscarius JCM 12147T and Lentibacillus salicampi KCCM 41560T were 96·0, 95·5 and 95·3 %, respectively. Chemotaxonomic data (a DNA G+C content of 44 mol%; MK-7 as the major isoprenoid quinone; A1γ-meso-diaminopimelic acid as the cell-wall type; phosphatidylglycerol and diphosphatidylglycerol as the major polar lipids; anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0 as the major fatty acids) also supported assignment of the isolate to the genus Lentibacillus. On the basis of physiological and molecular properties, the isolate represents a novel species within the genus Lentibacillus, for which the name Lentibacillus lacisalsi sp. nov. is proposed. The type strain is BH260T (=KCTC 3915T=DSM 16462T).

scholarly journals Nocardioides terrigena sp. nov., isolated from soil

2007 ◽  
Vol 57 (11) ◽  
pp. 2472-2475 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Soo-Young Lee ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Type Strains

A Gram-positive, rod- or coccoid-shaped bacterial strain, DS-17T, was isolated from a soil in Dokdo, Korea, and its taxonomic position was investigated by using a polyphasic approach. Strain DS-17T grew optimally at around pH 8.0 and 30 °C in the presence of 0.5–1.0 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain DS-17T belonged to the genus Nocardioides. The chemotaxonomic properties of strain DS-17T were consistent with those of the genus Nocardioides: the cell-wall peptidoglycan type was based on ll-2,6-diaminopimelic acid, MK-8(H4) was the predominant menaquinone and iso-C16 : 0, C17 : 1 ω8c and C17 : 0 were the major fatty acids. The DNA G+C content was 71.5 mol%. Strain DS-17T exhibited 16S rRNA gene sequence similarity values of 94.5–96.9 % to the type strains of recognized Nocardioides species. Strain DS-17T could be distinguished from recognized Nocardioides species by differences in phenotypic characteristics. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain DS-17T is considered to represent a novel species of the genus Nocardioides, for which the name Nocardioides terrigena sp. nov. is proposed. The type strain is DS-17T (=KCTC 19217T=JCM 14582T).

scholarly journals Rhizobium helianthi sp. nov., isolated from the rhizosphere of sunflower

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4455-4460 ◽  
Author(s):  
Xuexin Wei ◽  
Shouwei Yan ◽  
Dai Li ◽  
Huancheng Pang ◽  
Yuyi Li ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Dna Hybridization ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Gene Sequences ◽  
Physiological And Biochemical Characteristics ◽  
Physiological And Biochemical

A Gram-stain-negative, non-spore-forming, rod-shaped and aerobic bacterium, designated Xi19T, was isolated from a soil sample collected from the rhizosphere of sunflower (Helianthus annuus) in Wuyuan county of Inner Mongolia, China and was characterized taxonomically by using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the novel isolate was related to species of the genus Rhizobium, sharing the greatest 16S rRNA gene sequence similarity with Rhizobium rhizoryzae J3-AN59T (98.4 %), followed by Rhizobium pseudoryzae J3-A127T (97.4 %). There were low similarities ( < 91 %) between the atpD, recA and glnII gene sequences of the novel strain and those of members of the genus Rhizobium. DNA–DNA hybridization values between strain Xi19T and the most related strain Rhizobium rhizoryzae J3-AN59T were low. The major cellular fatty acids of strain Xi19T were C16 : 0, summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) and C19 : 0 cyclo ω8c. Q-10 was identified as the predominant ubiquinone and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine. The DNA G+C content of strain Xi19T was 60.2 mol%. On the basis of physiological and biochemical characteristics, coupled with genotypic data obtained in this work, strain Xi19T represents a novel species of the genus Rhizobium, for which the name Rhizobium helianthi is proposed. The type strain is Xi19T ( = CGMCC 1.12192T = KCTC 23879T).

scholarly journals Paenibacillus tianmuensis sp. nov., isolated from soil

2011 ◽  
Vol 61 (5) ◽  
pp. 1133-1137 ◽  
Author(s):  
Xuechang Wu ◽  
Haihuan Fang ◽  
Chaodong Qian ◽  
Yanping Wen ◽  
Xiaobo Shen ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Natural Reserve ◽  
Paenibacillus Ehimensis ◽  
Produce Acid

Two closely related, Gram-stain-negative, rod-shaped, spore-forming strains, B27T and F6-B70, were isolated from soil samples of Tianmu Mountain National Natural Reserve in Zhejiang, China. Phylogenetic analysis based on 16S rRNA gene and rpoB sequences indicated that the isolates were members of the genus Paenibacillus. Both isolates were closely related to Paenibacillus ehimensis IFO 15659T, Paenibacillus elgii SD17T and Paenibacillus koreensis YC300T (≥95.2 % 16S rRNA gene sequence similarity). DNA–DNA relatedness between strain B27T and P. ehimensis DSM 11029T, P. elgii NBRC 100335T and P. koreensis KCTC 2393T was 21.2, 28.6 and 16.8 %, respectively. The major cellular fatty acids of strains B27T and F6-B70 were anteiso-C15 : 0 and iso-C15 : 0. The cell wall contained meso-diaminopimelic acid. The two isolates differed from their closest neighbours in terms of phenotypic characteristics and cellular fatty acid profiles (such as variable for oxidase, negative for methyl red test, unable to produce acid from d-fructose and glycogen and relatively higher amounts of iso-C15 : 0 and lower amounts of C16 : 0 and iso-C16 : 0). Strains B27T and F6-B70 represent a novel species of the genus Paenibacillus, for which the name Paenibacillus tianmuensis sp. nov. is proposed. The type strain is B27T ( = DSM 22342T  = CGMCC 1.8946T).

scholarly journals Nocardioides lianchengensis sp. nov., an actinomycete isolated from soil

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2698-2702 ◽  
Author(s):  
Jian Zhang ◽  
Yuchao Ma ◽  
Huimin Yu
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Content Type ◽  
Link Type ◽  
Pr China

A novel Gram-stain-positive, aerobic, rod-shaped bacterium, designated strain D94-1T, was isolated from soil collected in Liancheng county, Fujian province, PR China. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain D94-1T was a member of the genus Nocardioides and was most closely related to Nocardioides salarius DSM 18239T (98.54 % 16S rRNA gene sequence similarity), Nocardioides marinisabuli DSM 18965T (98.30 %), Nocardioides basaltis KCTC 19365T (98.10 %) and Nocardioides dokdonensis KCTC 19309T (97.76 %). Phenotypic characteristics and DNA–DNA relatedness data served to distinguish strain D94-1T from N. salarius , N. marinisabuli , N. basaltis and N. dokdonensis . The chemotaxonomic properties of strain D94-1T were consistent with those of the genus Nocardioides : the cell-wall peptidoglycan type was based on ll-diaminopimelic acid, the predominant menaquinone was MK-8(H4) and the major fatty acids were iso-C16 : 0 (29.15 %) and anteiso-C17 : 0 (21.0 %). The DNA G+C content was 71.8 mol%. On the basis of the evidence presented in this study, strain D94-1T represents a novel species of the genus Nocardioides , for which the name Nocardioides lianchengensis sp. nov. is proposed. The type strain is D94-1T ( = DSM 24663T = CGMCC 4.6858T).

scholarly journals Dactylosporangium tropicum sp. nov., isolated from soil

2011 ◽  
Vol 61 (10) ◽  
pp. 2358-2362 ◽  
Author(s):  
Chitti Thawai ◽  
Somboon Tanasupawat ◽  
Takuji Kudo
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Biochemical Properties ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Mycolic Acids ◽  
Physiological And Biochemical ◽  
Physiological And Biochemical Properties

Two novel actinomycete strains, designated KB2-4T and KB9-2, were isolated from soil samples. Both isolates formed finger-shaped sporangia on short sporangiophores that emerged directly from substrate hyphae. The cell-wall peptidoglycan contained glutamic acid, glycine, alanine and meso-diaminopimelic acid; the whole-cell sugars were galactose, glucose, mannose, rhamnose, ribose and xylose. The diagnostic phospholipid was phosphatidylethanolamine. The predominant menaquinones were MK-9(H8) and MK-9(H6). Mycolic acids were not detected. The predominant cellular fatty acids (>20 %) were iso-C16 : 0 and anteiso-C17 : 0. For both strains, the G+C content of the genomic DNA was about 72 mol%. The morphological and chemotaxonomic characteristics of the two strains were typical of members of the genus Dactylosporangium. Phylogenetic analysis using 16S rRNA gene sequences also indicated that these strains should be classified in the genus Dactylosporangium and showed that the closest relative was Dactylosporangium salmoneum NRRL B-16294T (99.1 % 16S rRNA gene sequence similarity). DNA–DNA relatedness and some physiological and biochemical properties indicated that the isolates could be readily distinguished from their closest phylogenetic relatives. On the basis of these phenotypic and genotypic data, the isolates represent a novel species, for which the name Dactylosporangium tropicum sp. nov. is proposed. The type strain is strain KB2-4T ( = BCC 34760T  = JCM 15673T).

scholarly journals Streptomyces vietnamensis sp. nov., a streptomycete with violet–blue diffusible pigment isolated from soil in Vietnam

2007 ◽  
Vol 57 (8) ◽  
pp. 1770-1774 ◽  
Author(s):  
Hong-hui Zhu ◽  
Jun Guo ◽  
Qing Yao ◽  
Song-zhen Yang ◽  
Ming-rong Deng ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Physiological And Biochemical Characteristics ◽  
Physiological And Biochemical

An actinomycete, designated strain GIMV4.0001T, was isolated from a forest soil sample in Vietnam. It produced white aerial mycelium and violet–blue diffusible pigment on Gause's synthetic agar. The substrate mycelium colour was not sensitive to pH. Micoscopic observations revealed that strain GIMV4.0001T produced long, straight chains of cylindrical spores, and chemotaxonomic data confirmed that it belongs to the genus Streptomyces. Melanin was produced, but no antibacterial activity was evident against Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, Candida albicans or Penicillium citrinum. Analysis of the 16S rRNA gene sequence of strain GIMV4.0001T revealed that the highest similarity (99.4 %) was to Streptomyces bikiniensis ATCC 11062T. However, the DNA–DNA relatedness between strain GIMV4.0001T and S. bikiniensis ATCC 11062T was found to be 50.3 %. Strain GIMV4.0001T could also be differentiated from S. bikiniensis ATCC 11062T and other Streptomyces species showing high 16S rRNA gene sequence similarity (98–99 %) based on morphological, physiological and biochemical characteristics. On the basis of its physiological and molecular properties, it is evident that strain GIMV4.0001T represents a novel species of the genus Streptomyces, for which the name Streptomyces vietnamensis sp. nov. is proposed. The type strain is GIMV4.0001T (=CCTCC M 205143T=IAM 15340T).

Nocardioides marinisabuli sp. nov., a novel actinobacterium isolated from beach sand

2007 ◽  
Vol 57 (12) ◽  
pp. 2960-2963 ◽  
Author(s):  
Dong Wan Lee ◽  
Chang-Gu Hyun ◽  
Soon Dong Lee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Beach Sand ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Physiological Properties

The taxonomic position of a novel actinobacterium (designated SBS-12T), which was isolated from beach sand on Jeju Island, Republic of Korea, was determined following a polyphasic taxonomic characterization. Cells of the organism were Gram-positive, catalase-positive, oxidase-negative and non-motile rods. The organism contained ll-diaminopimelic acid in the cell-wall peptidoglycan and MK-8(H4) as predominant menaquinone, and had a polar lipid profile containing phosphatidylglycerol and phosphatidylinositol, iso-C16 : 0 as the major fatty acid and a DNA G+C content of 73.1 mol%. A neighbour-joining tree based on 16S rRNA gene sequences showed that the organism occupies a distinct phylogenetic position within the radiation including representatives of the family Nocardioidaceae. High levels of 16S rRNA gene sequence similarity were found with Nocardioides kribbensis (97.2 %), Nocardioides aquiterrae (96.9 %), Nocardioides pyridinolyticus (96.6 %) and Nocardioides aquaticus (96.3 %). The combination of morphological and chemotaxonomic characteristics was consistent with classification in the genus Nocardioides, but the isolate can be differentiated from all Nocardioides species with validly published names by a range of physiological properties. The name Nocardioides marinisabuli sp. nov. is proposed for this novel organism, with the type strain SBS-12T (=JBRI 2003T=KCCM 42681T=DSM 18965T).

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