scholarly journals Maribius salinus gen. nov., sp. nov., isolated from a solar saltern and Maribius pelagius sp. nov., cultured from the Sargasso Sea, belonging to the Roseobacter clade

2007 ◽  
Vol 57 (2) ◽  
pp. 270-275 ◽  
Author(s):  
Dong H. Choi ◽  
Jang-Cheon Cho ◽  
Brian D. Lanoil ◽  
Stephen J. Giovannoni ◽  
Byung C. Cho
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Sargasso Sea ◽  
The Novel ◽  
Solar Saltern ◽  
The Family

Two strictly aerobic, Gram-negative bacteria, designated strains CL-SP27T and B5-6T, were isolated from the hypersaline water of a solar saltern in Korea and from the surface water of the Sargasso Sea, respectively. The two strains were rod-shaped, non-motile and grew on marine agar 2216 as beige colonies. Phylogenetic analyses of 16S rRNA gene sequences revealed a clear affiliation of the novel strains to the family Rhodobacteraceae. However, the novel strains were only distantly related to members of the Roseobacter clade, forming a distinct lineage. Although the 16S rRNA gene sequence similarity between strains CL-SP27T and B5-6T was very high (99.6 %), DNA–DNA relatedness between the strains was 48.4 %, suggesting that the strains be categorized as two genospecies. Additionally, the two novel strains could be differentiated by DNA G+C contents, fatty acid profiles, carbon source utilization patterns, antibiotic susceptibilities and biochemical characteristics. Based on taxonomic data obtained in this study, strains CL-SP27T and B5-6T represent separate species within a novel genus of the family Rhodobacteraceae, for which the names Maribius salinus gen. nov., sp. nov. (type species) and Maribius pelagius sp. nov. are proposed. The type strains of Maribius salinus and Maribius pelagius are CL-SP27T (=KCCM 42113T=JCM 13037T) and B5-6T (=KCCM 42336T=JCM 14009T), respectively.

scholarly journals Persicivirga ulvanivorans sp. nov., a marine member of the family Flavobacteriaceae that degrades ulvan from green algae

2011 ◽  
Vol 61 (8) ◽  
pp. 1899-1905 ◽  
Author(s):  
Tristan Barbeyron ◽  
Yannick Lerat ◽  
Jean-François Sassi ◽  
Sophie Le Panse ◽  
William Helbert ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Green Algae ◽  
Electron Acceptor ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
The Family ◽  
Gliding Bacterium

A rod shaped, Gram-stain-negative, chemo-organotrophic, heterotrophic, strictly aerobic, non-gliding bacterium, designated strain PLRT, was isolated from faeces of the mollusc Aplysia punctata (Mollusca, Gastropoda) that had been fed with green algae belonging to the genus Ulva. The novel strain was able to degrade ulvan, a polysaccharide extracted from green algae (Chlorophyta, Ulvophyceae). The taxonomic position of strain PLRT was investigated by using a polyphasic approach. Strain PLRT was dark orange, oxidase-positive, catalase-positive and grew optimally at 25 °C, at pH 7.5 and in the presence of 2.5 % (w/v) NaCl with an oxidative metabolism using oxygen as the electron acceptor. Nitrate could not be used as the electron acceptor. Strain PLRT had a Chargaff’s coefficient (DNA G+C content) of 35.3 mol%. Phylogenetic analysis based on the sequence of the 16S rRNA gene placed the novel strain in the family Flavobacteriaceae (phylum ‘Bacteroidetes’), within a clade comprising Stenothermobacter spongiae, Nonlabens tegetincola, Sandarakinotalea sediminis, Persicivirga xylanidelens and Persicivirga dokdonensis. The closest neighbours of strain PLRT were P. xylanidelens and P. dokdonensis, sharing 95.2 and 95.5 % 16S rRNA gene sequence similarity, respectively. Phylogenetic inference and differential phenotypic characteristics demonstrated that strain PLRT represents a novel species of the genus Persicivirga, for which the name Persicivirga ulvanivorans sp. nov. is proposed. The type strain is PLRT ( = CIP 110082T = DSM 22727T).

scholarly journals Spongiibacterium flavum gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from the marine sponge Halichondria oshoro, and emended descriptions of the genera Croceitalea and Flagellimonas

2012 ◽  
Vol 62 (Pt_5) ◽  
pp. 1158-1164 ◽  
Author(s):  
Byoung-Jun Yoon ◽  
Duck-Chul Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Sponge ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-negative, strictly aerobic, non-flagellated, non-gliding, oxidase- and catalase-positive, yellow-pigmented rod, designated A11T, was isolated from a marine sponge, Halichondria oshoro, collected on the coastline of Jeju Island, Republic of Korea. Phylogenetic analysis based on nearly complete 16S rRNA gene sequences revealed that strain A11T was a member of the family Flavobacteriaceae . Its closest relatives were members of the genera Muricauda , Flagellimonas and Croceitalea (94.4–94.8 % 16S rRNA gene sequence similarity). The only polar lipid detected in strain A11T was phosphatidylethanolamine. The dominant fatty acids were iso-C15 : 0 (30.4 %), iso-C15 : 1 G (26.7 %), iso-C17 : 0 3-OH (12.4 %) and iso-C15 : 0 3-OH (7.3 %). The DNA G+C content of strain A11T was 41.7 mol% and its major respiratory quinone was MK-6. On the basis of combined data from phenotypic and phylogenetic analyses, strain A11T represents a novel genus and species within the family Flavobacteriaceae , for which the name Spongiibacterium flavum gen. nov., sp. nov. is proposed. The type strain of the type species is A11T ( = KCTC 22665T = DSM 22638T). Emended descriptions of the genera Croceitalea and Flagellimonas are also given.

scholarly journals Mucilaginibacter vulcanisilvae sp. nov., isolated from a volcanic forest

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2036-2041 ◽  
Author(s):  
Kyunghwa Baek ◽  
Che Ok Jeon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Strictly Aerobic ◽  
Pale Pink ◽  
The Family ◽  
Optimum Ph

A Gram-stain-negative, strictly aerobic, pale-pink-pigmented bacterium, designated strain G27T, was isolated from a volcanic forest of Jeju Island, South Korea. Cells were catalase- and oxidase-positive, non-motile rods producing exopolysaccharide and flexirubin-type and pale pink pigments. Growth of strain G27T was observed at 4–30 °C (optimum, 25 °C) and pH 5.0–8.0 (optimum, pH 7.0). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain G27T formed a phyletic lineage within the genus Mucilaginibacter of the family Sphingobacteriaceae. Strain G27T was related most closely to Mucilaginibacter gossypii Gh-67T at 96.5 % 16S rRNA gene sequence similarity. Strain G27T contained menaquinone 7 (MK-7) as the sole isoprenoid quinone and summed feature 3 (comprising C16: 1ω7c/C16: 1ω6c), iso-C15: 0, C16: 0, C16: 1ω5c and C16: 1ω5c as the major cellular fatty acids. Phosphatidylethanolamine was identified as the major polar lipid. The G+C content of the genomic DNA was 46.5 mol%. On the basis of phenotypic, chemotaxonomic and molecular properties, strain G27T represents a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter vulcanisilvae sp. nov. is proposed. The type strain is G27T ( = KACC 18231T = JCM 30363T).

scholarly journals Maritimibacter alkaliphilus gen. nov., sp. nov., a genome-sequenced marine bacterium of the Roseobacter clade in the order Rhodobacterales

2007 ◽  
Vol 57 (7) ◽  
pp. 1653-1658 ◽  
Author(s):  
Kiyoung Lee ◽  
Yoe-Jin Choo ◽  
Stephen J. Giovannoni ◽  
Jang-Cheon Cho
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Bacterium ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Sargasso Sea ◽  
A Genome ◽  
Novel Genus And Species

A Gram-negative, chemoheterotrophic, strictly aerobic, alkaliphilic, rod-shaped marine bacterium, designated HTCC2654T, was isolated from the western Sargasso Sea by using a dilution-to-extinction culturing method. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain HTCC2654T belonged to the Roseobacter clade of the order Rhodobacterales. The 16S rRNA gene sequence similarity of the strain with respect to other members of the Roseobacter clade ranged from 90.4 to 95.1 %. In the phylogenetic analyses, the strain formed an independent phyletic line and could not be assigned to any other known genera of the Rhodobacterales. The DNA G+C content of strain HTCC2654T was 61.7 mol% by HPLC and 64.1 mol% from genome sequences. The predominant constituents of the cellular fatty acids were C16 : 0 2-OH (27.3 %), 11-methyl C18 : 1 ω7c (19.6 %) and C18 : 1 ω7c (17.3 %), and the major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and phosphatidylcholine, which served to differentiate the strain from other members of the Roseobacter clade. On the basis of the taxonomic data obtained in this study, strain HTCC2654T represents a novel genus and species, for which the name Maritimibacter alkaliphilus gen. nov., sp. nov. is proposed. The type strain is HTCC2654T (=KCCM 42376T=NBRC 102057T).

scholarly journals Thalassocola ureilytica gen. nov., sp. nov., of the family Phyllobacteriaceae isolated from seawater

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 4100-4106 ◽  
Author(s):  
Shih-Yao Lin ◽  
Asif Hameed ◽  
Chiu-Chung Young ◽  
You-Cheng Liu ◽  
Yi-Han Hsu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Polar Lipid ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
The Novel ◽  
Polar Lipid Profile ◽  
The Family ◽  
Ubiquinone 10

A Gram-stain-negative, aerobic, rod-shaped, non-flagellated marine bacterium, designated strain LS-861T, was isolated from seawater of the South China Sea (Taiwan). Strain LS-861T grew optimally at pH 7.0 and 30 °C in the presence of 3 % (w/v) NaCl. The novel strain shared highest 16S rRNA gene sequence similarity (91.5 % each) with ‘Nitratireductor shengliensis’ CGMCC 1.12519 and Hoeflea halophila JG120-1T and lower sequence similarity ( < 91.5 %) with other species. Phylogenetic analyses based on 16S rRNA gene sequences revealed a distinct taxonomic position attained by strain LS-861T within the clade that accommodated members of the family Phyllobacteriaceae. The major fatty acids were C16 : 0, iso-C17 : 1ω10c, C18 : 0 3-OH and C18 : 1ω7c/C18 : 1ω6c. The polar lipid profile was relatively simple as compared with other representatives of Phyllobacteriaceae, by having major amounts of diphosphatidylglycerol, phosphatidylglycerol and an unidentified glycolipid, and moderate amounts of three unidentified phospholipids and an unidentified aminolipid. The DNA G+C content was 61.2 mol%. The predominant quinone system was ubiquinone-10 (Q-10). The data in general and phylogenetic and polar lipid data in particular clearly distinguish the novel strain from related species at the genus level. Thus, strain LS-861T is suggested to represent a novel species of a new genus of the family Phyllobacteriaceae, for which the name Thalassocola ureilytica gen. nov., sp. nov. is proposed. The type strain of Thalassocola ureilytica is LS-861T ( = BCRC 80818T = JCM 30682T).

scholarly journals Emticicia oligotrophica gen. nov., sp. nov., a new member of the family ‘Flexibacteraceae’, phylum Bacteroidetes

2006 ◽  
Vol 56 (5) ◽  
pp. 991-995 ◽  
Author(s):  
P. Saha ◽  
T. Chakrabarti
Keyword(s):  
Fatty Acid ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Luria Bertani ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Culturable Bacteria ◽  
The Family

An aquatic bacterium, strain GPTSA100-15T, was isolated on nutritionally poor medium TSBA100 (tryptic soy broth diluted 100 times and solidified with 1.5 % agarose) and characterized using a polyphasic approach. The isolate was unable to grow on commonly used nutritionally rich media such as tryptic soy agar, nutrient agar and Luria–Bertani agar. Phylogenetic analysis based on 16S rRNA gene sequences revealed that the isolate was affiliated with the family ‘Flexibacteraceae’ in the phylum Bacteroidetes. Phylogenetically, it showed closest similarity (94.0 %) with an uncultured bacterial clone, HP1A92, detected in a sludge microbial community. Among the culturable bacteria, the isolate had highest 16S rRNA gene sequence similarity with Leadbetterella byssophila 4M15T (87.8 %). Sequence similarities with other members of the phylum Bacteroidetes were less than 85 %. The fatty acid profile of the isolate grown on TSBA100 indicated that the major fatty acid was iso-C15 : 0, which is also present in many members of the family ‘Flexibacteraceae’. Cells of strain GPTSA100-15T are Gram-negative, strictly aerobic rods. The DNA G+C content of the isolate is 36.9 mol%. Results of phenotypic, chemotaxonomic and phylogenetic analyses clearly indicate that strain GPTSA100-15T represents a new genus within the family ‘Flexibacteraceae’; the name Emticicia gen. nov. is proposed for the genus, with Emticicia oligotrophica sp. nov. as the type species. The type strain of Emticicia oligotrophica is GPTSA100-15T (=MTCC 6937T=DSM 17448T).

Namhaeicola litoreus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2163-2168 ◽  
Author(s):  
Yong-Taek Jung ◽  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-staining-negative, non-flagellated, non-gliding and pleomorphic bacterial strain, designated DPG-25T, was isolated from seawater in a seaweed farm in the South Sea in Korea and its taxonomic position was investigated by using a polyphasic approach. Strain DPG-25T grew optimally at 25 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. Flexirubin-type pigments were not produced. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DPG-25T formed a cluster with the type strains of Actibacter sediminis , Aestuariicola saemankumensis and Lutimonas vermicola . Strain DPG-25T exhibited 16S rRNA gene sequence similarity values of 95.3, 93.1 and 93.6 % to the type strains of Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola , respectively. Strain DPG-25T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids detected in strain DPG-25T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content was 39.9 mol%. Differential phenotypic properties and the phylogenetic distinctiveness of strain DPG-25T demonstrated that this strain is distinguishable from Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola . On the basis of the data presented here, strain DPG-25T represents a novel species in a novel genus of the family Flavobacteriaceae , for which the name Namhaeicola litoreus gen. nov., sp. nov. is proposed. The type strain of Namhaeicola litoreus is DPG-25T ( = KCTC 23702T  = CCUG 61485T).

scholarly journals Marinobacter salicampi sp. nov., isolated from a marine solar saltern in Korea

2007 ◽  
Vol 57 (9) ◽  
pp. 2102-2105 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Mi-Hwa Lee ◽  
So-Jung Kang ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
The Novel ◽  
Solar Saltern ◽  
Marine Solar Saltern ◽  
Phenotypic Properties ◽  
Type Strains

A Gram-negative, motile, rod-shaped, Marinobacter-like bacterial strain, ISL-40T, was isolated from a marine solar saltern of the Yellow Sea in Korea. The taxonomic position of the novel strain was investigated using a polyphasic approach. Strain ISL-40T grew optimally at pH 7.0–8.0 and at 30 °C. It contained Q-9 as the predominant ubiquinone. The major fatty acids were C16 : 0, C16 : 1 ω7c and/or iso-C15 : 0 2-OH and 10-methyl C16 : 0. The DNA G+C content was 58.1 mol%. A phylogenetic analysis based on 16S rRNA gene sequences showed that strain ISL-40T belongs to the genus Marinobacter. Strain ISL-40T exhibited 16S rRNA gene sequence similarity values of 93.5–96.4 % to the type strains of recognized Marinobacter species. The differential phenotypic properties and phylogenetic distinctiveness of strain ISL-40T revealed that it is separate from recognized Marinobacter species. On the basis of phenotypic, phylogenetic and genetic data, therefore, strain ISL-40T represents a novel species of the genus Marinobacter, for which the name Marinobacter salicampi sp. nov. is proposed. The type strain is ISL-40T (=KCTC 12972T=CCUG 54357T).

scholarly journals Chryseobacterium caeni sp. nov., isolated from bioreactor sludge

2007 ◽  
Vol 57 (1) ◽  
pp. 141-145 ◽  
Author(s):  
Zhe-Xue Quan ◽  
Kwang Kyu Kim ◽  
Myung-Kyum Kim ◽  
Long Jin ◽  
Sung-Taik Lee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
The Family ◽  
Bacterium Strain

A Gram-negative, non-spore-forming, yellow-pigmented bacterium, strain N4T, was isolated from a nickel-complexed cyanide-degrading bioreactor and subjected to a polyphasic taxonomic study. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain N4T is affiliated to the genus Chryseobacterium of the family Flavobacteriaceae. The levels of 16S rRNA gene sequence similarity between strain N4T and the type strains of all known Chryseobacterium species were 93.2–95.8 %, suggesting that strain N4T represents a novel species within the genus Chryseobacterium. The strain contained iso-C15 : 0 and summed feature 4 as the major fatty acids and menaquinone MK-6 as the predominant respiratory quinone. The G+C content of the genomic DNA was 38.2 mol%. On the basis of its phenotypic properties and phylogenetic distinctiveness, strain N4T represents a novel species of the genus Chryseobacterium, for which the name Chryseobacterium caeni sp. nov. is proposed. The type strain is N4T (=KCTC 12506T=CCBAU 10201T=DSM 17710T).

scholarly journals Blastococcus jejuensis sp. nov., an actinomycete from beach sediment, and emended description of the genus Blastococcus Ahrens and Moll 1970

2006 ◽  
Vol 56 (10) ◽  
pp. 2391-2396 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
The Novel ◽  
Separate Species ◽  
Beach Sediment ◽  
Actinomycete Strain ◽  
Type Strains

A novel actinomycete, strain KST3-10T, was isolated from sand sediment of a beach in Jeju, Korea, and was subjected to polyphasic taxonomic characterization. The organism produced circular, smooth, translucent, apricot-coloured colonies comprising coccoid- or rod-shaped cells. Phylogenetic analyses based on 16S rRNA gene sequences showed that the organism belonged to the family Geodermatophilaceae and consistently formed a distinct sub-branch outside the radiation of the genus Blastococcus. The organism showed 16S rRNA gene sequence similarity values of 98.2 % with respect to Blastococcus aggregatus DSM 4725T and 98.1 % with respect to Blastococcus saxobsidens BC444T. The type strains of the two Blastococcus species shared 98.2 % sequence similarity with respect to each other, whereas the levels of sequence similarity between the novel organism and the type strains of the less closely related neighbours, Modestobacter multiseptatus and Geodermatophilus obscurus, were in the range 96.2–96.9 %. The physiological, biochemical and chemotaxonomic data revealed that the novel organism can be readily differentiated from members of the genus Blastococcus and that it merits separate species status. On the basis of the phenotypic and genotypic evidence, strain KST3-10T represents a novel species of the genus Blastococcus, for which the name Blastococcus jejuensis sp. nov. is proposed. The type strain is KST3-10T (=NRRL B-24440T=KCCM 42251T).

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