scholarly journals Echinicola pacifica gen. nov., sp. nov., a novel flexibacterium isolated from the sea urchin Strongylocentrotus intermedius

2006 ◽  
Vol 56 (5) ◽  
pp. 953-958 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Marc Vancanneyt ◽  
Anatoly M. Lysenko ◽  
Dong Sung Shin ◽  
...  
Keyword(s):  
Sea Urchin ◽  
New Genus ◽  
Gene Sequence ◽  
Gliding Motility ◽  
Rrna Gene ◽  
Strongylocentrotus Intermedius ◽  
Respiratory Quinone ◽  
Nearest Neighbours ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone

The taxonomic position of three novel marine, heterotrophic, pigmented and agarolytic bacteria with gliding motility, isolated from the sea urchin Strongylocentrotus intermedius, was investigated. 16S rRNA gene sequence analysis revealed that strains KMM 6166, KMM 6172T and KMM 6173 are members of the phylum Bacteroidetes; their nearest neighbours were Belliella baltica and Hongiella marincola (similarities of 94.5 and 93.6 %, respectively). The DNA G+C content of the strains was 44–45 mol%. The predominant fatty acids were C15 : 0 iso, C16 : 1 ω5c, C17 : 1 iso ω9c, C17 : 0 iso 3-OH and summed feature 3 (C16 : 1 ω7c and/or C15 : 0 iso 2-OH). The major respiratory quinone was MK-7. Results of molecular experiments supported by phenotypic and chemotaxonomic data enabled the isolates to be classified as representatives of a novel species in a new genus, for which the name Echinicola pacifica gen. nov., sp. nov. is proposed. Echinicola pacifica is the type species of the genus Echinicola, and its type strain is KMM 6172T (=KCTC 12368T=LMG 23350T).

scholarly journals Winogradskyella thalassocola gen. nov., sp. nov., Winogradskyella epiphytica sp. nov. and Winogradskyella eximia sp. nov., marine bacteria of the family Flavobacteriaceae

2005 ◽  
Vol 55 (1) ◽  
pp. 49-55 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Suk Kyun Han ◽  
Cindy Snauwaert ◽  
Marc Vancanneyt ◽  
...  
Keyword(s):  
Type Strain ◽  
New Genus ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Peter The Great ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Major Respiratory Quinone

Three novel heterotrophic, Gram-negative, yellow-pigmented, aerobic, gliding, oxidase- and catalase-positive bacteria were isolated from algae collected in the Gulf of Peter the Great, Sea of Japan. 16S rRNA gene sequence analysis revealed that the strains studied represented members of the family Flavobacteriaceae and showed 93·5–93·8 % similarity with their closest relative, Psychroserpens burtonensis. The DNA G+C content of the strains was 34–37 mol%. The major respiratory quinone was MK-6. The predominant fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1, iso-C16 : 0-3OH and iso-C17 : 0-3OH. On the basis of their phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the newly described bacteria have been assigned to the new genus Winogradskyella gen. nov., as Winogradskyella thalassocola sp. nov. (type strain, KMM 3907T=KCTC 12221T=LMG 22492T=DSM 15363T), Winogradskyella epiphytica sp. nov. (type strain, KMM 3906T=KCTC 12220T=LMG 22491T=CCUG 47091T) and Winogradskyella eximia sp. nov. (type strain, KMM 3944T (=KCTC 12219T=LMG 22474T).

scholarly journals Lysobacter novalis sp. nov., isolated from fallow farmland soil

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 3131-3136 ◽  
Author(s):  
Hina Singh ◽  
Juan Du ◽  
Kyung-Hwa Won ◽  
Jung-Eun Yang ◽  
Shahina Akter ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Gliding Motility ◽  
Rrna Gene ◽  
The Novel ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Farmland Soil ◽  
Major Respiratory Quinone

A novel bacterial strain, designated THG-PC7T, was isolated from fallow farmland soil in Yongin, South Korea. Cells of strain THG-PC7T were Gram-stain-negative, dark yellow, aerobic, rod-shaped and had gliding motility. Strain THG-PC7T grew optimally at 25–35 °C, at pH 7 and in the absence of NaCl. Comparative 16S rRNA gene sequence analysis identified strain THG-PC7T as belonging to the genus Lysobacter, exhibiting highest sequence similarity with Lysobacter ximonensis KCTC 22336T (98.7 %) followed by Lysobacter niastensis KACC 11588T (95.7 %). In DNA–DNA hybridization tests, DNA relatedness between strain THG-PC7T and its closest phylogenetic neighbour L. ximonensis was below 25 %. The DNA G+C content of the novel isolate was determined to be 62.5 mol%. Flexirubin-type pigments were found to be present. The major cellular fatty acids were determined to be iso-C15 : 0, iso-C16 : 0, anteiso-C15 : 0 and iso-C17 : 1ω9c. The major respiratory quinone was identified as ubiquonone-8 (Q8). The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminophospolipid. On the basis of results from DNA–DNA hybridization and the polyphasic data, strain THG-PC7T represents a novel species of the genus Lysobacter, for which the name Lysobacter novalis sp. nov. is proposed. The type strain is THG-PC7T( = KACC 18276T = CCTCC AB 2014319T).

scholarly journals Flavobacterium algicola sp. nov., isolated from marine algae

2010 ◽  
Vol 60 (2) ◽  
pp. 344-348 ◽  
Author(s):  
Mika Miyashita ◽  
Shuki Fujimura ◽  
Yasuyoshi Nakagawa ◽  
Makoto Nishizawa ◽  
Noboru Tomizuka ◽  
...  
Keyword(s):  
Marine Algae ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone ◽  
Type Strains ◽  
Sequence Similarities

A rod-shaped Gram-staining-negative, non-motile, aerobic and fucoidan-digesting strain, designated TC2T, was isolated from marine algae collected from the coast of the Sea of Okhotsk at Abashiri, Hokkaido, Japan. The bacterium formed yellow, translucent, circular and convex colonies. Comparative 16S rRNA gene sequence analysis indicated that the strain belonged to the genus Flavobacterium, with the highest sequence similarities of 97.1 to 97.3 % to the type strains of Flavobacterium frigidarium, Flavobacterium frigoris, Flavobacterium limicola and Flavobacterium psychrolimnae. DNA–DNA relatedness values between strain TC2T and the above-mentioned species were lower than 28 %. The genomic DNA G+C content was 33.9 mol%. The major respiratory quinone was menaquinone-6 and the predominant fatty acids were iso-C15 : 1 G, iso-C15 : 0, iso-C15 : 0 3-OH and summed feature 3 (which comprises iso-C15 : 0 2-OH and/or C16 : 1 ω7c). Strain TC2T could be differentiated from related species by several phenotypic characteristics. Thus, on the basis of these results, strain TC2T represents a novel species of the genus Flavobacterium, for which the name Flavobacterium algicola sp. nov. is proposed. The type strain is TC2T (=NBRC 102673T =CIP 109574T).

scholarly journals Larkinella bovis sp. nov., isolated from fermented bovine products, and emended descriptions of the genus Larkinella and of Larkinella insperata Vancanneyt et al. 2006

2011 ◽  
Vol 61 (1) ◽  
pp. 30-34 ◽  
Author(s):  
Rangasamy Anandham ◽  
Soon-Wo Kwon ◽  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone ◽  
Motile By Gliding

A novel bacterial strain, designated M2T2B15T, was isolated from fermented bovine products and was characterized by using a polyphasic approach. Colonies were reddish pink and circular with entire margins. Cells were strictly aerobic, Gram-reaction-negative, oxidase- and catalase-positive rods that lacked flagella and were motile by gliding. Flexirubin-type pigments were absent. 16S rRNA gene sequence analysis indicated that strain M2T2B15T was related most closely to Larkinella insperata LMG 22510T (94.4 % similarity) but shared <87 % similarity with other members of the phylum Bacteroidetes. The major cellular fatty acids were C16 : 1 ω5c, iso-C15 : 0 and iso-C17 : 0 3-OH. The polar lipids were phosphatidylethanolamine, phosphatidylserine, two unidentified aminophospholipids and two unidentified polar lipids. Menaquinone 7 (MK-7) was the major respiratory quinone. The G+C content of the DNA of strain M2T2B15T was 52 mol%. The phenotypic, genotypic and phylogenetic data presented clearly indicate that strain M2T2B15T represents a novel species of the genus Larkinella, for which the name Larkinella bovis sp. nov. is proposed. The type strain is M2T2B15T (=KACC 14040T =NBRC 106324T). Emended descriptions of the genus Larkinella and of Larkinella insperata Vancanneyt et al. 2006 are also proposed.

Salegentibacter mishustinae sp. nov., isolated from the sea urchin Strongylocentrotus intermedius

2005 ◽  
Vol 55 (1) ◽  
pp. 235-238 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Anatoly M. Lysenko ◽  
Valery V. Mikhailov ◽  
Kyung Sook Bae ◽  
...  
Keyword(s):  
Sea Urchin ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
The Sea Of Japan ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Strongylocentrotus Intermedius ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis

A bacterial strain, designated KMM 6049T, was isolated from the sea urchin Strongylocentrotus intermedius inhabiting the Sea of Japan. The bacterium studied was strictly aerobic, heterotrophic, yellow-pigmented, non-motile, Gram-negative and oxidase-, catalase-, β-galactosidase- and alkaline phosphatase-positive. 16S rRNA gene sequence analysis indicated that strain KMM 3524T was closely related to Salegentibacter holothuriorum and Salegentibacter salegens (sharing 97·7 and 98 % sequence similarity, respectively). DNA–DNA relatedness levels between strains KMM 6049T and S. holothuriorum KMM 3524T and S. salegens DSM 5424T were 24 and 45 %, respectively, indicating that KMM 6049T belongs to a novel species of the genus Salegentibacter, for which the name Salegentibacter mishustinae sp. nov. is proposed. The type strain is KMM 6049T (=KCTC 12263T=LMG 22584T=NBRC 100592T).

scholarly journals Lysobacter caeni sp. nov., isolated from the sludge of a pesticide manufacturing factory

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 845-850 ◽  
Author(s):  
Xiao-Mei Ye ◽  
Cui-Wei Chu ◽  
Chao Shi ◽  
Jian-Chun Zhu ◽  
Qin He ◽  
...  
Keyword(s):  
Type Species ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone

Strain BUT-8T, a Gram-stain-negative, non-motile and rod-shaped aerobic bacterium, was isolated from the activated sludge of a herbicide-manufacturing wastewater treatment facility. Comparative 16S rRNA gene sequence analysis revealed that strain BUT-8T clustered with species of the genus Lysobacter and was closely related to Lysobacter ruishenii DSM 22393T (98.3 %) and Lysobacter daejeonensis KACC 11406T (98.7 %). The DNA G+C content of the genomic DNA was 70.6 mol%. The major respiratory quinone was ubiquinone-8, and the major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an aminolipid. The major cellular fatty acids were iso-C15 : 0, iso-C16 : 0, iso-C17 : 0, iso-C11 : 0, iso-C11 : 0 3OH and summed feature 9 (comprising iso-C17 : 1ω9c and/or C16 : 010-methyl). The DNA–DNA relatedness between strain BUT-8T and its closest phylogenetic neighbours was below 70 %. Phylogenetic, chemotaxonomic and phenotypic results clearly demonstrated that strain BUT-8T belongs to the genus Lysobacter and represents a novel species for which the name Lysobacter caeni sp. nov. is proposed. The type strain is BUT-8T ( = CCTCC AB 2013087T = KACC 17141T).

scholarly journals Owenweeksia hongkongensis gen. nov., sp. nov., a novel marine bacterium of the phylum ‘Bacteroidetes’

2005 ◽  
Vol 55 (3) ◽  
pp. 1051-1057 ◽  
Author(s):  
Ken W. K. Lau ◽  
Connie Y. M. Ng ◽  
Jianping Ren ◽  
Simon C. L. Lau ◽  
Pei-Yuan Qian ◽  
...  
Keyword(s):  
Fatty Acids ◽  
Marine Bacterium ◽  
New Genus ◽  
Gene Sequence ◽  
Sea Water ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
The Family ◽  
Major Respiratory Quinone

An aerobic, Gram-negative, non-fermentative, rod-shaped, motile, orange-pigmented bacterium, UST20020801T, was isolated from sea-water samples collected from Port Shelter, Hong Kong, S.A.R., China, in August 2002. The full 16S rRNA gene sequence of this strain shared only 87·5 % similarity with its nearest relative, Crocinitomix catalasitica, a species of the family Cryomorphaceae. However, strain UST20020801T possessed menaquinone-6, a major respiratory quinone of members of the family Flavobacteriaceae. This strain contains unique fatty acids such as i15 : 1G, i17 : 1ω9c, 2-OH 15 : 0, 15 : 1ω6c and three unknown fatty acids of equivalent chain-length of 11·543, 13·565 and 16·582. Further analysis of its ecophysiology and biochemistry suggests that this strain represents a new genus in the phylum ‘Bacteroidetes’. The name Owenweeksia hongkongensis gen. nov., sp. nov. is proposed. The type strain is UST20020801T (=NRRL B-23963T=JCM 12287T).

scholarly journals Amphritea spongicola sp. nov., isolated from a marine sponge, and emended description of the genus Amphritea

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1866-1870 ◽  
Author(s):  
Hani Jang ◽  
Sung-Hyun Yang ◽  
Hyun-Seok Seo ◽  
Jung-Hyun Lee ◽  
Sang-Jin Kim ◽  
...  
Keyword(s):  
Marine Sponge ◽  
Marine Bacterium ◽  
Gene Sequence ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Positive Growth ◽  
Optimum Ph ◽  
Emended Description ◽  
Major Respiratory Quinone

A Gram-stain-negative, rod-shaped (1.2–2.1 μm × 0.8–0.9 μm), flagellated and motile marine bacterium, designated MEBiC05461T, was isolated from a marine sponge inhabiting Micronesia. Strain MEBiC05461T was oxidase-negative and catalase-positive. Growth was observed at 8.0–35.6 °C (optimum 30.0 °C), at pH 5.0–9.0 (optimum pH 7.0) and with 1.5–6.0 % (w/v, optimum 2.0–2.5 %) NaCl. 16S rRNA gene sequence analysis revealed that strain MEBiC05461T showed high similarity to members of the genus Amphritea (96.4–96.6 %). The predominant cellular fatty acids were C16:0 (23.9 %), summed feature 3 (C16:1ω7c and/or C16:1ω6c; 39.7 %) and summed feature 8 (C18:1ω7c and/or C18:1ω6c; 22.0 %). The DNA G+C content was 48.5 mol%. The major respiratory quinone was Q-8.Phosphatidylethanolamine, phosphatidylglycerol, one unidentified glycolipid, one unidentified aminolipid, one unidentified glycophospholipid and two unidentified lipids were detected as the major polar lipids. On the basis of the data from this polyphasic taxonomic study, strain MEBiC05461T should be classified as a representative of a novel species in the genus Amphritea, and the name proposed is Amphritea spongicola sp. nov. The type strain is MEBiC05461T ( = KCCM 42943T = JCM 16668T). Emendations of the genus Amphritea and species Amphritea atlantica Gärtner et al. 2008 and Amphritea balenae Miyazaki et al. 2008 are were also given.

Sunxiuqinia elliptica gen. nov., sp. nov., a member of the phylum Bacteroidetes isolated from sediment in a sea cucumber farm

2011 ◽  
Vol 61 (12) ◽  
pp. 2885-2889 ◽  
Author(s):  
Lingyun Qu ◽  
Fengling Zhu ◽  
Xuguang Hong ◽  
Wei Gao ◽  
Junhui Chen ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Sea Cucumber ◽  
New Genus ◽  
Sequence Similarity ◽  
Single Species ◽  
Phylogenetic Position ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone

Three novel aerobic, elliptic bacteria, designated DQHS4T, DQHS8 and DQHS15, were isolated from sediment of a seashore pond for sea cucumber culture in Jimo, Qingdao, on the east coast of China. Cells were Gram-, oxidase- and catalase-negative. All three strains grew at 15–42 °C, pH 5–9 and NaCl concentrations between 0.5 and 10 %. DNA–DNA hybridization experiments revealed high (>85 %) relatedness among the three novel isolates and suggested that the strains constitute a single species. Comparative 16S rRNA gene sequence analysis indicated that these bacteria had less than 90 % similarity to all described species of the phylum Bacteroidetes; the closest relative of the three isolates was Prolixibacter bellariivorans F2T, sharing only 89.6 % sequence similarity. The major cellular fatty acids were iso-C17 : 0 3-OH (19.8–20.0 %), iso-C15 : 0 (16.9–17.3 %), anteiso-C17 : 1 B and/or iso-C17 : 1 I (7.4–8.7 %), C17 : 0 2-OH (8.4 %), anteiso-C15 : 0 (8.2–8.6 %) and C17 : 1ω6c (5.6–6.0 %). The major respiratory quinone was menaquinone-7 (MK-7) and the DNA G+C content was 41.8–43.5 mol%. Based on the distinct phylogenetic position and the combination of genotypic, phenotypic and chemotaxonomic characteristics, these three strains were considered to represent a novel species of a new genus in the phylum Bacteroidetes, for which the name Sunxiuqinia elliptica gen. nov., sp. nov. is proposed. The type strain of Sunxiuqinia elliptica is DQHS4T ( = CGMCC 1.9156T  = NCCB 100301T  = LMG 25367T).

scholarly journals Paenibacillus ripae sp. nov., isolated from bank side soil

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4757-4762 ◽  
Author(s):  
Ying Sun ◽  
Zhaohui Guo ◽  
Qi Zhao ◽  
Qiyu Gao ◽  
QinJian Xie ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Optimum Ph ◽  
Pr China ◽  
Diamino Acid

A Gram-stain-variable, rod-shaped, non-motile and endospore-forming bacterium, designated strain HZ1T, was isolated from a sample of bank side soil from Hangzhou city, Zhejiang province, PR China. On the basis of 16S rRNA gene sequence analysis, strain HZ1T was closely related to members of the genus Paenibacillus, sharing the highest levels of sequence similarity with Paenibacillus agarexedens DSM 1327T (94.4 %), Paenibacillus sputi KIT00200-70066-1T (94.4 %). Growth occurred at 15–42 °C (optimum 30–37 °C), pH 5.0–9.5 (optimum pH 7.0–8.0) and NaCl concentrations of up to 6.0 % (w/v) were tolerated (optimum 0.5 %). The dominant respiratory quinone was MK-7 and the DNA G+C content was 40.1 mol%. The major fatty acids were anteiso-C15 : 0 and iso-C16 : 0. The major polar lipids of strain HZ1T were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and several unknown lipids. The diagnostic diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on its phenotypic and chemotaxonomic characteristics and phylogenetic data, strain HZ1T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus ripae sp. nov. (type strain HZ1T = CCTCC AB 2014276T = LMG 28639T) is proposed.

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