scholarly journals Gramella echinicola gen. nov., sp. nov., a novel halophilic bacterium of the family Flavobacteriaceae isolated from the sea urchin Strongylocentrotus intermedius

2005 ◽  
Vol 55 (1) ◽  
pp. 391-394 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Anatoly M. Lysenko ◽  
Galina M. Frolova ◽  
Valery V. Mikhailov ◽  
...  
Keyword(s):  
Sea Urchin ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
The Sea Of Japan ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Strongylocentrotus Intermedius ◽  
Respiratory Quinone ◽  
The Family ◽  
Yellow Orange

A novel marine bacterium, strain KMM 6050T, was isolated from the sea urchin Strongylocentrotus intermedius, which inhabits the Sea of Japan. The strain studied was strictly aerobic, heterotrophic, yellow–orange-pigmented, motile by gliding, Gram-negative and oxidase-, catalase-, β-galactosidase- and alkaline phosphatase-positive. The results of 16S rRNA gene sequence analysis showed that strain KMM 6050T occupies a distinct lineage within the family Flavobacteriaceae and is most closely related to the species Mesonia algae and Salegentibacter salegens (sequence similarity of 92·5–92·6 %). The DNA G+C content of KMM 6050T was 39·6 mol%. The major respiratory quinone was MK-6. The predominant fatty acids were i15 : 0, a15 : 0, 15 : 0, i16 : 1, i16 : 0, i16 : 0 3-OH and i17 : 0 3-OH. On the basis of phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the novel bacterium has been assigned to the genus Gramella gen. nov., as Gramella echinicola sp. nov. The type strain is KMM 6050T (=KCTC 12278T=NBRC 100593T=LMG 22585T).

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).

Flavobacterium chungbukense sp. nov., isolated from soil

2011 ◽  
Vol 61 (11) ◽  
pp. 2734-2739 ◽  
Author(s):  
Chae-Sung Lim ◽  
Yong-Sik Oh ◽  
Jae-Kwan Lee ◽  
A-Rum Park ◽  
Jae-Soo Yoo ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Flavobacterium Johnsoniae ◽  
The Family ◽  
Major Respiratory Quinone ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A yellow-pigmented, Gram-staining-negative, non-motile, strictly aerobic and rod-shaped bacterium, designated CS100T, was isolated from soil in Chungbuk, Korea. Phylogenetic analysis and comparative studies based on the 16S rRNA gene sequence showed that strain CS100T belonged to the genus Flavobacterium in the family Flavobacteriaceae. Strain CS100T showed the highest sequence similarities to Flavobacterium glaciei JCM 13953T (97.6 %) and Flavobacterium johnsoniae KACC 11410T (97.1 %). Sequence similarity to other members of the genus Flavobacterium was 91.5–97.0 %. Growth occurred at 4–30 °C, at pH 5.0–9.0 and in the presence of 0–2 % (w/v) NaCl. Flexirubin-type pigments were produced. Menaquinone-6 (MK-6) was the major respiratory quinone and the major fatty acids were iso-C15 : 0 (17.3 %), summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c, 15.5 %) and C16 : 0 (11.8 %). The DNA G+C content was 36.4 mol%. Strain CS100T hydrolysed skimmed milk and gelatin, but not chitin or pectin, and showed oxidase and catalase activities. DNA–DNA relatedness was 3.0 % with F. glaciei JCM 13953T and 11.5 % with F. johnsoniae KACC 11410T. On the basis of the evidence from this study, strain CS100T represents a novel species of the genus Flavobacterium, for which the name Flavobacterium chungbukense sp. nov. is proposed. The type strain is CS100T ( = KACC 15048T = JCM 17386T).

scholarly journals Sphingobacterium daejeonense sp. nov., isolated from a compost sample

2006 ◽  
Vol 56 (9) ◽  
pp. 2031-2036 ◽  
Author(s):  
Kyoung-Ho Kim ◽  
Leonid N. Ten ◽  
Qing-Mei Liu ◽  
Wan-Taek Im ◽  
Sung-Taik Lee
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
The Family

A Gram-negative, strictly aerobic, rod-shaped, non-motile, non-spore-forming bacterial strain, designated TR6-04T, was isolated from compost and characterized taxonomically by using a polyphasic approach. The organism grew optimally at 30 °C and at pH 6.5–7.0. The isolate was positive for catalase and oxidase tests but negative for gelatinase, indole and H2S production. Comparative 16S rRNA gene sequence analysis showed that strain TR6-04T fell within the radiation of the cluster comprising Sphingobacterium species and clustered with Sphingobacterium mizutaii ATCC 33299T (96.7 % sequence similarity); the similarity to sequences of other species within the family Sphingobacteriaceae was less than 92.0 %. The G+C content of the genomic DNA was 38.7 mol%. The predominant respiratory quinone was MK-7. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 4 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c). These chemotaxonomic data supported the affiliation of strain TR6-04T to the genus Sphingobacterium. However, on the basis of its phenotypic properties and phylogenetic distinctiveness, strain TR6-04T (=KCTC 12579T=LMG 23402T=CCUG 52468T) should be classified as the type strain of a novel species, for which the name Sphingobacterium daejeonense sp. nov. is proposed.

scholarly journals Hyunsoonleella jejuensis gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from seawater

2010 ◽  
Vol 60 (2) ◽  
pp. 382-386 ◽  
Author(s):  
Byoung-Jun Yoon ◽  
Dong-Heon Lee ◽  
Bong-Jo Kang ◽  
Hyung-Yeel Kahng ◽  
You-Sung Oh ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Carotenoid Pigment ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Genotypic Characteristics

A novel marine, Gram-staining-negative, yellow-pigmented, rod-shaped bacterial strain, designated CNU004T, was isolated from a seawater sample collected on the coastline of Jeju Island, South Korea. The strain was strictly aerobic, non-flagellated, non-gliding and oxidase- and catalase-positive. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain CNU004T belongs to a distinct lineage in the family Flavobacteriaceae. Strain CNU004T exhibited levels of 16S rRNA gene sequence similarity of 93.8–93.9 % to its nearest phylogenetic neighbours, members of the genera Gaetbulibacter, Yeosuana and Algibacter. The new isolate required sea salts or artificial seawater for growth. The optimum ranges of temperature and pH for growth were 30–35 °C and pH 7.0–8.0. The DNA G+C content of strain CNU004T was 37.7 mol%. The major fatty acids were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH and iso-C15 : 0 3-OH. Menaquinone-6 was the major respiratory quinone. Zeaxanthin was the major carotenoid pigment produced, and flexirubin-type pigments were not produced. Strain CNU004T was able to degrade starch and agar. Based on its phenotypic and genotypic characteristics and on the phylogenetic evidence presented, strain CNU004T is considered to represent a novel species of a new genus in the family Flavobacteriaceae, for which the name Hyunsoonleella jejuensis gen. nov., sp. nov. is proposed. The type strain of Hyunsoonleella jejuensis sp. nov. is CNU004T (=KCTC 22242T =DSM 21035T).

scholarly journals Postechiella marina gen. nov., sp. nov., isolated from seawater

2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1528-1535 ◽  
Author(s):  
Dong-Heon Lee ◽  
Sun Ja Cho ◽  
Suk Min Kim ◽  
Sun Bok Lee
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-staining-negative, strictly aerobic, non-motile, yellow-pigmented bacterium, designated strain M091T, was isolated from seawater at Damupo beach in Pohang, Republic of Korea, and investigated using a polyphasic taxonomic approach. The novel strain grew optimally at 25 °C, pH 7.0–8.0, and in the presence of 3 % (w/v) NaCl. In a phylogenetic analysis based on 16S rRNA gene sequences, strain M091T formed a lineage within the family Flavobacteriaceae that was distinct from the most closely related genera of Flaviramulus (95.1 % sequence similarity), Algibacter (94.9–93.9 %), Mariniflexile (94.8–94.2 %), Winogradskyella (94.8–93.2 %), Lacinutrix (94.7–93.8 %) and Tamlana (94.7–92.9 %). The polar lipid profile of the novel strain comprised phosphatidylethanolamine, two unidentified aminolipids, one unidentified phospholipid and seven unidentified lipids. The predominant cellular fatty acids were iso-C15 : 0 (20.5 %), iso-C17 : 0 3-OH (15.4 %), iso-C15 : 0 3-OH (12.4 %), C15 : 0 (10.9 %) and iso-C15 : 1 G (9.9 %). The genomic DNA G+C content of strain M091T was 34.4 mol% and the major respiratory quinone was MK-6. Based on phenotypic and genotypic data, strain M091T represents a new genus and novel species in the family Flavobacteriaceae , for which the name Postechiella marina gen. nov., sp. nov. is proposed. The type strain of the type species is M091T ( = KCTC 23537T = JCM 17630T).

Rhodocytophaga aerolata gen. nov., sp. nov., a new member of the family Cytophagaceae isolated from air

2010 ◽  
Vol 60 (7) ◽  
pp. 1554-1558 ◽  
Author(s):  
Rangasamy Anandham ◽  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
Soon-Wo Kwon
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Major Respiratory Quinone

A strictly aerobic, Gram-staining-negative, oxidase- and catalase-positive, non-motile, rod-shaped bacterium, designated strain 5416T-29T, was isolated from air and was characterized by using a polyphasic approach. Colonies were reddish pink and circular with entire margins. Flexirubin-type pigments were absent. The strain formed a distinct phylogenetic lineage within the family Cytophagaceae of the phylum Bacteroidetes. Strain 5416T-29T did not show more than 88 % 16S rRNA gene sequence similarity to the type strain of any recognized species. The major cellular fatty acids were C16 : 1 ω5c, iso-C17 : 0 3-OH and iso-C15 : 0. The polar lipids were phosphatidylethanolamine, one unknown amino lipid and several unknown polar lipids. Menaquinone-7 (MK-7) was the major respiratory quinone. The G+C content of the DNA of strain 5416T-29T was 45.5 mol%. Results of phenotypic and phylogenetic analyses clearly indicate that strain 5416T-29T represents a novel species of a new genus in the family Cytophagaceae, for which the name Rhodocytophaga aerolata gen. nov., sp. nov. is proposed. The type strain of Rhodocytophaga aerolata is 5416T-29T (=KACC 12507T =DSM 22190T).

Limimonas halophila gen. nov., sp. nov., an extremely halophilic bacterium in the family Rhodospirillaceae

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1562-1567 ◽  
Author(s):  
Mohammad Ali Amoozegar ◽  
Ali Makhdoumi-Kakhki ◽  
Mohadaseh Ramezani ◽  
Mahdi Moshtaghi Nikou ◽  
Seyed Abolhassan Shahzadeh Fazeli ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
Hypersaline Lake ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel, Gram-staining-negative, non-pigmented, rod-shaped, strictly aerobic, extremely halophilic bacterium, designated strain IA16T, was isolated from the mud of the hypersaline Lake Aran-Bidgol, in Iran. Cells of strain IA16T were not motile. Growth occurred with 2.5–5.2 M NaCl (optimum 3.4 M), at pH 6.0–8.0 (optimum pH 7.0) and at 30–50 °C (optimum 40 °C). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain IA16T belonged in the family Rhodospirillaceae and that its closest relatives were Rhodovibrio sodomensis DSM 9895T (91.6 % sequence similarity), Rhodovibrio salinarum NCIMB 2243T (91.2 %), Pelagibius litoralis CL-UU02T (88.9 %) and Fodinicurvata sediminis YIM D82T (88.7 %). The novel strain’s major cellular fatty acids were C19 : 0 cyclo ω7c and C18 : 0 and its polar lipid profile comprised phosphatidylglycerol, diphosphatidylglycerol, four unidentified phospholipids, three unidentified aminolipids and two other unidentified lipids. The cells of strain IA16T contained the ubiquinone Q-10. The G+C content of the novel strain’s genomic DNA was 67.0 mol%. The physiological, biochemical and phylogenetic differences between strain IA16T and other previously described taxa indicate that the strain represents a novel species in a new genus within the family Rhodospirillaceae , for which the name Limimonas halophila gen. nov., sp. nov. is proposed. The type strain of Limimonas halophila is IA16T ( = IBRC-M 10018T  = DSM 25584T).

scholarly journals Formosa spongicola sp. nov., isolated from the marine sponge Hymeniacidon flavia

2011 ◽  
Vol 61 (2) ◽  
pp. 330-333 ◽  
Author(s):  
Byoung-Jun Yoon ◽  
Duck-Chul Oh
Keyword(s):  
Phylogenetic Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Sponge ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
The Family ◽  
Major Respiratory Quinone

A Gram-negative, yellow-pigmented, rod-shaped, strictly aerobic, non-flagellated, oxidase- and catalase-positive, marine bacterium, designated A2T, was isolated from a marine sponge, Hymeniacidon flavia, collected from the coast of Jeju Island, South Korea. Phylogenetic analysis based on nearly complete 16S rRNA gene sequences revealed that strain A2T was a member of the family Flavobacteriaceae. Its closest relatives were Formosa agariphila KMM 3901T and Formosa algae KMM 3553T (96.99 and 96.98 % 16S rRNA gene sequence similarity, respectively). DNA–DNA relatedness between strain A2T and F. agariphila KMM 3901T and F. algae KMM 3553T was 14.1 and 26.8 %, respectively. The dominant fatty acids (>5 %) of strain A2T were iso-C15 : 0 (33.9 %), iso-C17 : 0 3-OH (20.8 %), iso-C15 : 1 G (10.5 %) and iso-C15 : 0 3-OH (6.1 %). The DNA G+C content of strain A2T was 36.0 mol% and the major respiratory quinone was MK-6. On the basis of phenotypic and phylogenetic analysis, strain A2T represents a novel species of the genus Formosa, for which the name Formosa spongicola sp. nov. is proposed. The type strain is A2T (=KCTC 22662T =DSM 22637T).

scholarly journals Pontimicrobium aquaticum gen. nov., sp. nov., a bacterium in the family Flavobacteriaceae isolated from seawater

2020 ◽  
Vol 70 (8) ◽  
pp. 4562-4568 ◽  
Author(s):  
Thidarat Janthra ◽  
Jihye Baek ◽  
Jong-Hwa Kim ◽  
Jung-Hoon Yoon ◽  
Ampaitip Sukhoom ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
A Genome ◽  
The Family ◽  
Distinct Lineage

A Gram-stain-negative, yellow-pigmented, non-spore-forming, non-motile, rod-shaped, catalase-positive, strictly aerobic bacterial strain, designated CAU 1491T, was isolated from seawater and its taxonomic position was examined using a polyphasic approach. Cells of strain CAU 1491T grew optimally at 30 °C, pH 7.5 and in 2.0 % (w/v) NaCl. Phylogenetic analysis based on the 16S rRNA gene sequence of CAU 1491T showed that it formed a distinct lineage within the family Flavobacteriaceae as a separate deep branch, with 97.0 % or lower sequence similarity to representatives of the genera Lacinutrix , Gaetbulibacter and Aquibacter . The major cellular fatty acids of strain CAU 1491T were iso-C15 : 0, iso-C15 : 1 G, iso-C17 : 0 3-OH and summed feature 3. The polar lipid pattern consisted of diphosphatidylglycerol, phosphatidylserine, phosphatidylethanolamine and an unidentified phospholipid. The strain contained MK-6 as the sole respiratory quinone. Genome sequencing revealed that strain CAU 1491T has a genome size of 3.13 Mbp and a G+C content of 32.4 mol%. On the basis of the phenotypic, chemotaxonomic and genomic data, strain CAU 1491T represents a new genus and species in the family Flavobacteriaceae for which the name Pontimicrobium aquaticum gen. nov., sp. nov. is proposed. The type strain of Pontimicrobium aquaticum is CAU 1491T (=KCTC 72003T=NBRC 113695T).

scholarly journals Arenibacter echinorum sp. nov., isolated from the sea urchin Strongylocentrotus intermedius

2007 ◽  
Vol 57 (11) ◽  
pp. 2655-2659 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Anatoly M. Lysenko ◽  
Kang Hyun Lee ◽  
Kyung Sook Bae ◽  
...  
Keyword(s):  
Sea Urchin ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Strongylocentrotus Intermedius ◽  
Phenotypic Data ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Distinct Branch ◽  
The 16S Rrna Gene

Two marine, heterotrophic, aerobic, pigmented and gliding bacteria, isolated from the sea urchin Strongylocentrotus intermedius were subjected to a polyphasic taxonomy study. The 16S rRNA gene sequence analysis revealed that strains KMM 6032T and KMM 6047 formed a distinct branch within the genus Arenibacter, a member of the family Flavobacteriaceae. The level of sequence similarity between the novel isolates and members of the genus Arenibacter was 94.5–98.9 %. The DNA G+C content was 39–40 mol%. The dominant fatty acids were iso-C15 : 1, iso-C15 : 0, C15 : 0, C15 : 1 ω6c, iso-C15 : 0 3-OH, iso-C17 : 1 ω9c, iso-C17 : 0 3-OH and summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1 ω7c). The results of DNA–DNA hybridization experiments supported by phenotypic data indicated that the isolates represent a novel species within the genus Arenibacter, for which the name Arenibacter echinorum sp. nov. is proposed. The type strain is KMM 6032T (=KCTC 22013T=LMG 22574T).

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