scholarly journals Sphingopyxis bauzanensis sp. nov., a psychrophilic bacterium isolated from soil

2010 ◽  
Vol 60 (11) ◽  
pp. 2618-2622 ◽  
Author(s):  
De-Chao Zhang ◽  
Hong-Can Liu ◽  
Yu-Hua Xin ◽  
Yu-Guang Zhou ◽  
Franz Schinner ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Psychrophilic Bacterium ◽  
Phenotypic Characteristics ◽  
The Family ◽  
Type Strains ◽  
Sequence Similarities

Strain BZ30T was isolated from hydrocarbon-contaminated soil. The Gram-negative, aerobic bacterium was psychrophilic and able to grow at temperatures ranging from 1 to 30 °C. The predominant cellular fatty acids of strain BZ30T were summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) (37.4 %), C18 : 1 ω7c (19.6 %), C16 : 0 (8.2 %), C14 : 0 2-OH (8.0 %) and C16 : 0 2-OH (5.0 %). The predominant ubiquinone was Q-10. Major polar lipids were sphingoglycolipids, diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phosphatidylcholine. Spermidine was the major polyamine. The genomic DNA G+C content was 64.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequence similarity showed that strain BZ30T belonged to the family Sphingomonadaceae of the α-4 group of the phylum Proteobacteria, and was related to the members of the genus Sphingopyxis, sharing the highest sequence similarities with the type strains of Sphingopyxis chilensis (98.3 %), S. witflariensis (98.2 %), S. taejonensis (97.4 %) and S. ginsengisoli (97.2 %). On the basis of the phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness data, strain BZ30T represents a novel species of the genus Sphingopyxis, for which the name Sphingopyxis bauzanensis is proposed. The type strain is BZ30T (=DSM 22271T =CGMCC 1.8959T =CIP 110136T).

scholarly journals Gramella gaetbulicola sp. nov., a member of the family Flavobacteriaceae isolated from foreshore soil

2011 ◽  
Vol 61 (11) ◽  
pp. 2654-2658 ◽  
Author(s):  
Sung-Heun Cho ◽  
Song-Hee Chae ◽  
Myoungho Cho ◽  
Tae-Ui Kim ◽  
Seri Choi ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Phenotypic Characteristics ◽  
The Family ◽  
Type Strains ◽  
Sequence Similarities

A Gram-reaction-negative, yellow-pigmented, gliding, rod-shaped, aerobic bacterium (RA5-111T) was isolated from foreshore soil. The taxonomic status of the novel isolate was determined using a polyphasic approach. On the basis of 16S rRNA gene sequence similarities, strain RA5-111T could be assigned to the genus Gramella, with sequence similarities of 97.7, 97.3 and 96.2 % to the type strains of Gramella echinicola, Gramella portivictoriae and Gramella marina, respectively. Chemotaxonomic and phenotypic characteristics also supported the affiliation of strain RA5-111T with the genus Gramella. The genomic DNA G+C content was 39.1 mol%. The isolate contained MK-6 as the predominant menaquinone, iso-C15 : 0, iso-C17 : 0 3-OH and a summed feature (iso-C15 : 0 2-OH and/or C16 : 1ω7c) as major fatty acids, and phosphatidylethanolamine and unknown phospholipids as the polar lipids. DNA–DNA relatedness, phenotypic, genotypic and chemotaxonomic data clearly indicate that the isolate represents a novel species of the genus Gramella, for which the name Gramella gaetbulicola sp. nov. is proposed. The type strain is RA5-111T ( = KCTC 23022T  = JCM 16528T  = NBRC 106272T).

scholarly journals Arthrobacter alpinus sp. nov., a psychrophilic bacterium isolated from alpine soil

2010 ◽  
Vol 60 (9) ◽  
pp. 2149-2153 ◽  
Author(s):  
De-Chao Zhang ◽  
Peter Schumann ◽  
Hong-Can Liu ◽  
Yu-Hua Xin ◽  
Yu-Guang Zhou ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Cell Wall ◽  
Growth Cycle ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Psychrophilic Bacterium ◽  
Phenotypic Characteristics ◽  
Alpine Soil ◽  
Type Strains ◽  
Sequence Similarities

An aerobic, Gram-reaction-positive, non-motile, psychrophilic bacterium, designated strain S6-3T, was isolated from alpine soil. Cells exhibited a rod–coccus growth cycle and produced a yellow pigment. Growth occurred at 1–25 °C. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain S6-3T was related to members of the genus Arthrobacter, sharing highest sequence similarities with the type strains of Arthrobacter psychrolactophilus (97.9 %) and Arthrobacter stackebrandtii (97.6 %). Strain S6-3T had MK-9(H2) as the major menaquinone and anteiso-C15 : 0 as the major fatty acid. The cell-wall peptidoglycan was of type A3α l-Lys–l-Thr–Ala3. The predominant cell-wall sugars were galactose and rhamnose. The genomic DNA G+C content of strain S6-3T was 61.9 mol%. On the basis of phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness data, strain S6-3T is considered to represent a novel species of the genus Arthrobacter, for which the name Arthrobacter alpinus sp. nov. is proposed. The type strain is S6-3T (=DSM 22274T =CGMCC 1.8950T).

scholarly journals Bacillus nanhaiensis sp. nov., isolated from an oyster

2011 ◽  
Vol 61 (4) ◽  
pp. 888-893 ◽  
Author(s):  
Yi-Guang Chen ◽  
Li Zhang ◽  
Yu-Qin Zhang ◽  
Jian-Wu He ◽  
Hans-Peter Klenk ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Phenotypic Characteristics ◽  
Sequence Comparisons ◽  
Respiratory Quinone ◽  
Optimum Ph ◽  
Type Strains

A novel Gram-stain-positive, slightly halophilic, facultatively alkaliphilic, catalase-positive, oxidase-negative, endospore-forming, motile, rod-shaped, aerobic bacterium, designated strain JSM 082006T, was isolated from an oyster collected from Naozhou Island in the South China Sea. The isolate grew in 0–18 % (w/v) NaCl (optimum, 0.5–4.0 %), at pH 6.0–10.5 (optimum, pH 8.0) and at 15–45 °C (optimum, 30 °C). meso-Diaminopimelic acid was present in the cell-wall peptidoglycan. The major cellular fatty acids were anteiso-C15 : 0, iso-C15 : 0 and C16 : 0. Strain JSM 082006T contained MK-7 as the predominant respiratory quinone and diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine as the major polar lipids. The genomic DNA G+C content was 40.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that strain JSM 082006T should be assigned to the genus Bacillus and that it was most closely related to the type strains of Bacillus barbaricus (sequence similarity 99.1 %) and Bacillus arsenicus (97.5 %), followed by those of Bacillus rigui (96.6 %) and Bacillus solisalsi (96.1 %). Phylogenetic analysis, DNA–DNA relatedness values, phenotypic characteristics and chemotaxonomic data support the view that strain JSM 082006T represents a novel species of the genus Bacillus, for which the name Bacillus nanhaiensis sp. nov. is proposed; the type strain is JSM 082006T ( = DSM 23009T  = KCTC 13712T).

scholarly journals Flavobacterium glaciei sp. nov., a novel psychrophilic bacterium isolated from the China No.1 glacier

2006 ◽  
Vol 56 (12) ◽  
pp. 2921-2925 ◽  
Author(s):  
De-Chao Zhang ◽  
He-Xiang Wang ◽  
Hong-Can Liu ◽  
Xiu-Zhu Dong ◽  
Pei-Jin Zhou
Keyword(s):  
Phylogenetic Analysis ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Psychrophilic Bacterium ◽  
Obligate Aerobic ◽  
Bacterium Strain ◽  
The Common ◽  
Sequence Similarities

A novel psychrophilic, yellow-pigmented and obligate aerobic bacterium, strain 0499T, was isolated from the China No.1 glacier. Strain 0499T displayed the common phenotypic and chemotaxonomic features of the genus Flavobacterium, containing menaquinone-6 (MK-6) as the major quinone and C15 : 0, iso-C15 : 0, C17 : 1 ω6c and summed feature 3 (C16 : 1 ω7c/iso-C15 : 0 2-OH) as the major fatty acids. Optimal growth occurred at 21 °C. The genomic DNA G+C content was 36.5 mol%. Phylogenetic analysis based on 16S rRNA gene sequence similarity showed that strain 0499T was related to members of the genus Flavobacterium, sharing the highest sequence similarities with Flavobacterium succinicans (97.9 %), Flavobacterium granuli (97.4 %) and Flavobacterium hydatis (97.2 %). On the basis of phenotypic characteristics, phylogenetic analysis and DNA–DNA relatedness data, a novel species Flavobacterium glaciei is proposed with strain 0499T (=CGMCC 1.5380T=JCM 13953T) as the type strain.

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

2007 ◽  
Vol 57 (5) ◽  
pp. 947-950 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Jung-Sook Lee ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Type Strains

A Gram-negative, rod-shaped, Flavobacterium-like bacterial strain, DS-20T, was isolated from soil from the island of Dokdo, Korea, and subjected to a polyphasic taxonomic study. Strain DS-20T grew optimally at pH 6.5–7.0 and 25 °C. It contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C17 : 0 3-OH and iso-C17 : 1 ω9c as the major fatty acids. The DNA G+C content was 38.2 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain DS-20T belonged to the genus Flavobacterium. Levels of 16S rRNA gene sequence similarity between strain DS-20T and the type strains of recognized Flavobacterium species were below 94.9 %. Strain DS-20T differed from phylogenetically related Flavobacterium species in several phenotypic characteristics. On the basis of its phenotypic and phylogenetic distinctiveness, strain DS-20T was classified in the genus Flavobacterium as representing a novel species, for which the name Flavobacterium terrigena sp. nov. is proposed. The type strain is DS-20T (=KCTC 12761T=DSM 17934T).

scholarly journals Novosphingobium gossypii sp. nov., isolated from Gossypium hirsutum

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2831-2837 ◽  
Author(s):  
Peter Kämpfer ◽  
Karin Martin ◽  
John A. McInroy ◽  
Stefanie P. Glaeser
Keyword(s):  
Gossypium Hirsutum ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
High Sequence Similarity ◽  
Polar Lipid Profile ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Type Strains ◽  
Sequence Similarities

A Gram-stain-negative, rod-shaped, non-spore-forming bacterium (strain JM-1396T) producing a yellow pigment, was isolated from the healthy internal stem tissue of post-harvest cotton (Gossypium hirsutum, cultivar ‘DES-119’) grown at the Plant Breeding Unit at the E. V. Smith Research Center in Tallassee (Macon county), AL, USA. 16S rRNA gene sequence analysis of strain JM-1396T showed high sequence similarity values to the type strains of Novosphingobium mathurense, Novosphingobium panipatense (both 98.6 %) and Novosphingobium barchaimii (98.5 %); sequence similarities to all other type strains of species of the genus Novosphingobium were below 98.3 %. DNA–DNA pairing experiments of the DNA of strain JM-1396T and N. mathurense SM117T, N. panipatense SM16T and N. barchaimii DSM 25411T showed low relatedness values of 8 % (reciprocal 7 %), 24 % (reciprocal 26 %) and 19 % (reciprocal 25 %), respectively. Ubiquinone Q-10 was detected as the dominant quinone; the fatty acids C18 : 1ω7c (71.0 %) and the typical 2-hydroxy fatty acid, C14 : 0 2-OH (11.7 %), were detected as typical components. The polar lipid profile contained the diagnostic lipids diphosphatidylglycerol, phosphatidylethanolamine, sphingoglycolipid and phosphatidylcholine. The polyamine pattern contained the major compound spermidine and only minor amounts of other polyamines. All these data revealed that strain JM-1396T represents a novel species of the genus Novosphingobium. For this reason we propose the name Novosphingobium gossypii sp. nov. with the type strain JM-1396T ( = LMG 28605T = CCM 8569T = CIP 110884T).

scholarly journals Paenibacillus panacisoli sp. nov., a xylanolytic bacterium isolated from soil in a ginseng field in South Korea

2006 ◽  
Vol 56 (11) ◽  
pp. 2677-2681 ◽  
Author(s):  
Leonid N. Ten ◽  
Sang-Hoon Baek ◽  
Wan-Taek Im ◽  
Myungjin Lee ◽  
Hyun Woo Oh ◽  
...  
Keyword(s):  
South Korea ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
The Family ◽  
Paenibacillus Illinoisensis ◽  
Signature Sequences ◽  
Type Strains

A Gram-positive, facultatively anaerobic, motile, spore-forming bacterium, designated Gsoil 1411T, was isolated from soil of a ginseng field in Pocheon Province (South Korea) and was characterized using a polyphasic approach. Comparative analysis of 16S rRNA gene sequences revealed that strain Gsoil 1411T belongs to the family Paenibacillaceae, with closest sequence similarity to the type strains of Paenibacillus xylanilyticus (95.7 %), Paenibacillus illinoisensis (95.2 %) and Paenibacillus pabuli (94.8 %). Strain Gsoil 1411T showed less than 94 % sequence similarity to the type strains of other recognized members of the genus Paenibacillus. In addition, the presence of MK-7 as the major menaquinone, anteiso-C15 : 0 as a major fatty acid (44.8 %) and the presence of PAEN513F and PAEN862F signature sequences suggest that it is affiliated to the genus Paenibacillus. The G+C content of the genomic DNA was 53.9 mol%. On the basis of its phenotypic characteristics and phylogenetic distinctiveness, strain Gsoil 1411T is suggested to represent a novel species within the genus Paenibacillus, for which the name Paenibacillus panacisoli sp. nov. is proposed. The type strain is Gsoil 1411T (=KCTC 13020T=LMG 23405T).

Paracoccus caeni sp. nov., isolated from sludge

2011 ◽  
Vol 61 (8) ◽  
pp. 1968-1972 ◽  
Author(s):  
Myungjin Lee ◽  
Song-Geun Woo ◽  
Giho Park ◽  
Myung Kyum Kim
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Type Strains ◽  
Sequence Similarities

A Gram-negative, non-motile bacterium, designated MJ17T, was isolated from sludge at the Daejeon sewage disposal plant in South Korea. Comparative 16S rRNA gene sequence analysis showed that strain MJ17T belonged to the genus Paracoccus in the family Rhodobacteraceae of the class Alphaproteobacteria. 16S rRNA gene sequence similarities between strain MJ17T and type strains of species of the genus Paracoccus were 94.1–97.4 %. The highest similarities were between strain MJ17T and Paracoccus homiensis DD-R11T, Paracoccus zeaxanthinifaciens ATCC 21588T and Paracoccus alcaliphilus JCM 7364T (97.4, 97.2 and 96.3 %, respectively). Strain MJ17T exhibited <22 % DNA–DNA relatedness with P. homiensis KACC 11518T and P. zeaxanthinifaciens JCM 21774T. The G+C content of the genomic DNA was 58.7 mol%. Strain MJ17T contained ubiquinone Q-10. The major fatty acids were C18 : 0 (11.3 %), C16 : 0 (10.2 %) and summed feature 7 (containing one or more of C18 : 1ω7c, C18 : 1ω9c and C18 : 1ω12t; 54.3 %). Poly-β-hydroxybutyrate granules are formed. On the basis of phenotypic and genotypic properties and phylogenetic distinctiveness, strain MJ17T should be classified in a novel species of the genus Paracoccus, for which the name Paracoccus caeni sp. nov. is proposed. The type strain is MJ17T ( = KCTC 22480T  = JCM 16385T  = KEMB 9004-001T).

scholarly journals Paenibacillus massiliensis sp. nov., Paenibacillus sanguinis sp. nov. and Paenibacillus timonensis sp. nov., isolated from blood cultures

2004 ◽  
Vol 54 (4) ◽  
pp. 1049-1054 ◽  
Author(s):  
Véronique Roux ◽  
Didier Raoult
Keyword(s):  
Gene Sequence ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Major Fatty Acid ◽  
Blood Cultures ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Characteristics ◽  
Phenotypic Data ◽  
Type Strains

Gram-positive, spore-forming rods were isolated from blood cultures of three different patients. Based on phylogenetic analyses, these strains were placed within the Paenibacillus cluster and specific phenotypic characteristics for each strain were described. Levels of 16S rRNA gene sequence similarity between existing Paenibacillus species and the three novel strains 2301065T, 2301032T and 2301083T were 87·6–94·4, 88·5–95·4 and 87·5–96·0 %, respectively, and anteiso-branched C15 : 0 was the major fatty acid. On the basis of phenotypic data and phylogenetic inference, it is proposed that these strains should be designated Paenibacillus massiliensis sp. nov., Paenibacillus sanguinis sp. nov. and Paenibacillus timonensis sp. nov. The type strains are respectively strain 2301065T (=CIP 107939T=CCUG 48215T), strain 2301083T (=CIP 107938T=CCUG 48214T) and strain 2301032T (=CIP 108005T=CCUG 48216T).

scholarly journals Pseudomonas pohangensis sp. nov., isolated from seashore sand in Korea

2006 ◽  
Vol 56 (9) ◽  
pp. 2153-2156 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Seung-Hee Yoo ◽  
Youn-Kyung Baek ◽  
Seon-Young Lee ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Novel Bacterium ◽  
Gene Sequence Analysis ◽  
Seashore Sand ◽  
Type Strains ◽  
Sequence Similarities

A novel bacterium, designated strain H3-R18T, was isolated from seashore sand collected from Homi cape, Pohang city, Korea. Cells were Gram-negative, aerobic, non-motile, cream-coloured, mesophilic and slightly halotolerant. 16S rRNA gene sequence analysis indicated that the organism was a member of the genus Pseudomonas, but the sequence showed ⩽96.3 % sequence similarity to that of the type strains of all recognized Pseudomonas species. Highest sequence similarities were to Pseudomonas brenneri CFML 97-391T (96.3 %) and Pseudomonas migulae CIP 105470T (96.3 %). The major fatty acids were summed feature 3 and C16 : 0, with lesser amounts of C12 : 0, C12 : 0 3-OH, C18 : 1ω7c and C14 : 0. The major isoprenoid quinone was Q-9. The DNA G+C content was 64.0 mol%. The phylogenetic, phenotypic and genetic properties of strain H3-R18T suggest that it represents a novel species, for which the name Pseudomonas pohangensis sp. nov. is proposed. The type strain is H3-R18T (=KACC 11517T=DSM 17875T).

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