scholarly journals Corallibacter vietnamensis gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 569-574 ◽  
Author(s):  
Seung Bum Kim ◽  
Olga I. Nedashkovskaya ◽  
Natalia V. Zhukova ◽  
Andrey D. Kuchlevskiy ◽  
Valery V. Mikhailov
Keyword(s):  
Tween 80 ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Polar Lipid Profile ◽  
Nearest Neighbours ◽  
Dark Orange ◽  
The Family ◽  
Unknown Lipid ◽  
Type Strains

The taxonomic position of two strains of a novel heterotrophic, strictly aerobic, Gram-negative, gliding, dark-orange-pigmented bacterium, designated KMM 6217T and KMM 6332, was determined. The strains grew at 10–40 °C and with 0.5–8.0 % NaCl. They were catalase- and oxidase-positive, produced flexirubin-type pigments and hydrolysed aesculin, gelatin, starch, Tween 80 and DNA. The predominant fatty acids were iso-C15 : 1, iso-C15 : 0, C15 : 0, summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1ω7c) and iso-C17 : 0 3-OH. The polar lipid profile comprised phosphatidylethanolamine as the major component, three unknown aminolipids and one unknown lipid. The DNA G+C content was 34.7–34.8 mol%. Phylogenetic analysis of the 16S rRNA gene sequence showed that the novel isolates could be placed in the family Flavobacteriaceae. The nearest neighbours of strains KMM 6217T and KMM 6332 were members of the genera Bizionia, Formosa, Lacinutrix, Meridianimaribacter, Mesoflavibacter and Winogradskyella, with sequence similarities to the type strains of species of these genera of 92.8–95.2, 93.7–94.5, 94.1–94.7, 94.9, 94.6 and 93.5–94.4 %, respectively. Based on phenotypic, genotypic and phylogenetic data, strains KMM 6217T and KMM 6332 should be classified as representatives of a novel species in a new genus in the family Flavobacteriaceae of the phylum ‘Bacteroidetes’, for which the name Corallibacter vietnamensis gen. nov., sp. nov. is proposed; the type strain is KMM 6217T ( = JCM 17525T = KCTC 23026T).

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).

scholarly journals Fontibacter flavus gen. nov., sp. nov., a member of the family ‘Cyclobacteriaceae’, isolated from a hot spring

2010 ◽  
Vol 60 (9) ◽  
pp. 2066-2070 ◽  
Author(s):  
Peter Kämpfer ◽  
Chiu-Chung Young ◽  
Wen-Ming Chen ◽  
P. D. Rekha ◽  
Kerstin Fallschissel ◽  
...  
Keyword(s):  
Type Strain ◽  
Hot Spring ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
Polar Lipid Profile ◽  
Bright Orange ◽  
The Family ◽  
Southern Taiwan ◽  
Type Strains

The taxonomic position of a bright orange-pigmented bacterial strain, designated CC-GZM-130T, isolated from a water sample of the Guan-zing-ling hot spring, southern Taiwan, was studied. The strain was able to grow on nutrient agar at 25–40 °C and in the presence of 1–3 % (w/v) NaCl. Comparative analyses of the 16S rRNA gene sequence showed that the isolate was grouped in the vicinity of the genus Aquiflexum with the highest sequence similarity of 92.1 % to the type strain of Aquiflexum balticum, followed by sequence similarities of 92.0, 91.6 and 91.5 % to the type strains of Algoriphagus ornithinivorans, Algoriphagus hitonicola and Belliella baltica, respectively. The polyamine pattern showed that the major compound was sym-homospermidine. The quinone system was menaquinone MK-7. The polar lipid profile was composed predominantly of phosphatidylethanolamine, three polar lipids and one aminolipid. Minor amounts of other lipids were also detectable. The main characteristics of the fatty acid profiles of strain CC-GZM-130T, B. baltica and Aquiflexum balticum were similar, with iso-C15 : 0, iso-C17 : 1 ω9c and iso-C17 : 0 3-OH as the major fatty acids, but some qualitative and quantitative differences were observed. The DNA G+C content of the novel strain was 53.2 mol%. The isolate clearly differed genotypically and phenotypically from representatives of the most closely related genera. On the basis of these differences, a novel species in a new genus, Fontibacter flavus gen. nov., sp. nov., is proposed with CC-GZM-130T (=CCUG 57694T=CCM 7650T) as the type strain of the type species.

scholarly journals Tenacibaculum jejuense sp. nov., isolated from coastal seawater

2012 ◽  
Vol 62 (2) ◽  
pp. 414-419 ◽  
Author(s):  
You-Sung Oh ◽  
Hyung-Yeel Kahng ◽  
Dong-Heon Lee ◽  
Sun Bok Lee
Keyword(s):  
Phylogenetic Analyses ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Major Respiratory Quinone ◽  
Type Strains

A Gram-staining-negative, strictly aerobic and rod-shaped bacterium, designated strain CNURIC013T, was isolated from seawater collected on the coast of Jeju Island, South Korea. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain CNURIC013T belonged to the genus Tenacibaculum, within the family Flavobacteriaceae. Sequence similarities between the novel strain and the type strains of recognized species of the genus Tenacibaculum were 93.6–96.0 %, the highest value being with Tenacibaculum litopenaei B-IT (96 %). The DNA G+C content of the novel strain was 34.5 mol% and the major respiratory quinone was menaquinone-6. The major fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH; 26.0 %), iso-C15 : 0 (24.4 %), iso-C15 : 1 G (18.5 %) and iso-C17 : 0 3-OH (8.1 %). The polar lipids consisted of phosphatidylethanolamine, one unknown aminophospholipid and nine unknown polar lipids. On the basis of the phenotypic, phylogenetic and genotypic data, strain CNURIC013T represents a novel species within the genus Tenacibaculum, for which the name Tenacibaculum jejuense sp. nov. is proposed. The type strain is CNURIC013T ( = KCTC 22618T = JCM 15975T).

scholarly journals Jeotgalibaca dankookensis gen. nov., sp. nov., a member of the family Carnobacteriaceae, isolated from seujeot (Korean traditional food)

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1729-1735 ◽  
Author(s):  
Dong-Geol Lee ◽  
Martha E. Trujillo ◽  
Heecheol Kang ◽  
Tae-Young Ahn
Keyword(s):  
Type Species ◽  
Carbon Sources ◽  
Rrna Gene ◽  
Traditional Food ◽  
The Novel ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A novel, Gram-stain-positive bacterium, designated strain EX-07T, was isolated from seujeot (Korean traditional food). The strain was aerobic, halotolerant and non-motile; it formed cocci that grouped into tetrads and sarcinae or formed irregular conglomerates. Growth occurred at pH 7–9, at 10–37 °C and with up to 9 % NaCl. Isolate EX-07T was catalase- and oxidase-negative and used sugars and organic acids as carbon sources. The 16S rRNA gene sequence of the novel strain showed 94.2–94.5 % similarity with the type strains of Trichococcus pasteurii , Trichococcus patagoniensis , Trichococcus collinsii , Trichococcus flocculiformis and Trichococcus palustris and only 92.2 % with representatives of the genera Bavariicoccus , Carnobacterium and Granulicatella . Sequence similarities based on the groEL gene ranged from 81.3 to 82.8 % between the novel isolate and the type strains of all species of the genus Trichococcus , and only 74.2 and 75.3 % with type strains of members of the genera Bavariicoccus and Granulicatella , respectively. The G+C content of the genomic DNA was 39.6 mol%. The predominant fatty acids were C16 : 1ω9c, C18 : 1ω9c, C16 : 0 and C14 : 0. The polar lipid profile was very complex and included phosphatidylethanolamine and several unidentified aminolipids, glycolipids and phospholipids. Based on the genotypic and phenotypic results obtained in this study, it is proposed that isolate EX-07T represents a novel species of a new genus in the family Carnobacteriaceae for which the name Jeotgalibaca dankookensis gen. nov., sp. nov. is proposed. The type strain of Jeotgalibaca dankookensis is EX-07T ( = KCCM 90229T = JCM 19215T).

scholarly journals Lutibacter holmesii sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from the sea urchin Strongylocentrotus intermedius, and emended description of the genus Lutibacter

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3991-3996 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Stefanie Van Trappen ◽  
Natalia V. Zhukova ◽  
Paul De Vos
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Sea Urchin ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Strongylocentrotus Intermedius ◽  
The Family ◽  
Type Strains

Seven Gram-staining-negative, strictly aerobic, pale-yellow-pigmented, rod-shaped and non-motile strains were isolated from the sea urchin Strongylocentrotus intermedius collected from Troitsa Bay, Sea of Japan. Phylogenetic analyses based on 16S rRNA gene sequences showed that these isolates were affiliated with the family Flavobacteriaceae. The novel isolates showed 99.9–100 % 16S rRNA gene sequence similarity to each other and were closely related to the type strains of the recognized members of the genus Lutibacter with sequence similarities of 95.8–98.4 %. The G+C content of the genomic DNA was 35–36 mol%. DNA–DNA relatedness among the sea urchin isolates was 95–99 % and between strain KMM 6277T and its most closely related type strains, Lutibacter agarilyticus KCTC 23842T and Lutibacter litoralis JCM 13034T, was 38 and 27 %, respectively. The prevalent fatty acids were iso-C15 : 0, anteiso-C15 : 0, summed feature 3 (comprising iso-C15 : 0 2-OH and/or C16 : 1 ω7c fatty acids), iso-C15 : 1 and C15 : 0. The polar lipid profile was composed of the phosphatidylethanolamine, one unknown aminolipid and one unknown lipid. The main respiratory isoprenoid quinone was MK-6.The results of phylogenetic, phenotypic and genotypic analyses indicated that the novel strains represent a novel species within the genus Lutibacter, for which the name Lutibacter holmesii sp. nov. is proposed. The type strain is KMM 6277T ( = CCUG 62221T = LMG 26737T).

scholarly journals Nocardioides panacihumi sp. nov., isolated from soil of a ginseng field

2007 ◽  
Vol 57 (9) ◽  
pp. 2143-2146 ◽  
Author(s):  
Dong-Shan An ◽  
Wan-Taek Im ◽  
Sung-Taik Lee ◽  
Min-Ho Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Biochemical Tests ◽  
Phenotypic Differentiation ◽  
The Family ◽  
Established Species ◽  
Type Strains

A novel bacterial strain designated Gsoil 616T was isolated from a soil sample of a ginseng field in Pocheon province (South Korea) and was characterized taxonomically by using a polyphasic approach. The isolate was Gram-positive, strictly aerobic, non-motile, non-spore-forming and rod- or coccoid-shaped. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the isolate belongs to the genus Nocardioides in the family Nocardioidaceae but was clearly separated from established species of this genus. The 16S rRNA gene sequence similarities between strain Gsoil 616T and the type strains of Nocardioides species with validly published names ranged from 91.8 to 96.1 %. The G+C content of the genomic DNA was 73 mol%. Phenotypic and chemotaxonomic data [major menaquinone MK-8(H4) and major fatty acid iso-C16 : 0] supported the affiliation of strain Gsoil 616T to the genus Nocardioides. However, the results of physiological and biochemical tests allowed phenotypic differentiation of the isolate from other Nocardioides species. Therefore, strain Gsoil 616T represented a novel species within the genus Nocardioides, for which the name Nocardioides panacihumi sp. nov. is proposed. The type strain is Gsoil 616T (=KCTC 19187T =DSM 18660T).

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 Nine novel psychrotolerant species of the genus Pedobacter isolated from Arctic soil with potential antioxidant activities

2020 ◽  
Vol 70 (4) ◽  
pp. 2537-2553 ◽  
Author(s):  
Ram Hari Dahal ◽  
Dhiraj Kumar Chaudhary ◽  
Dong-Uk Kim ◽  
Jaisoo Kim
Keyword(s):  
Type Strain ◽  
Antioxidant Activities ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Arctic Soil ◽  
Type Strains

Fifteen isolates of the genus Pedobacter were obtained from Arctic soil samples. All isolates were Gram-stain-negative and rod-shaped. Cells were strictly aerobic, psychrotolerant and grew optimally at 15–20 °C. Phylogenetic analysis based on 16S rRNA gene sequences revealed that all the isolated strains formed a lineage within the family Sphingobacteriaceae and clustered as members of the genus Pedobacter . The sole respiratory quinone was MK-7 and the major polar lipid was phosphatidylethanolamine. The major cellular fatty acids were summed feature 3 (iso-C15 : 02-OH/C16 : 1ω7c/ω6c), iso-C15 : 0 and iso-C17 : 0 3-OH. The DNA G+C content of the novel strains was 33.9–41.8 mol%. In addition, the average nucleotide identity and in silico DNA–DNA hybridization relatedness values between the novel type strains and phylogenetically related type strains were below the threshold values used for species delineation. Based on genomic, chemotaxonomic, phenotypic, phylogenetic and phylogenomic analyses, the isolated strains represent novel species in the genus Pedobacter , for which the names Pedobacter cryotolerans sp. nov. (type strain AR-2-6T=KEMB 9005-717T=KACC 19998T=NBRC 113826T), Pedobacter cryophilus sp. nov. (type strain AR-3-17T=KEMB 9005-718T=KACC 19999T=NBRC 113827T), Pedobacter frigiditerrae sp. nov. (type strain RP-1-13T=KEMB 9005-720T=KACC 21147T=NBRC 113829T), Pedobacter psychroterrae sp. nov. (type strain RP-1-14T=KEMB 9005-721T=KACC 21148T=NBRC 113830T), Pedobacter hiemivivus sp. nov. (type strain RP-3-8T=KEMB 9005-724T=KACC 21152T=NBRC 113833T), Pedobacter frigidisoli sp. nov. (type strain RP-3-11T=KEMB 9005-725T=KACC 21153T=NBRC 113927T), Pedobacter frigoris sp. nov. (type strain RP-3-15T=KEMB 9005-726T=KACC 21154T=NBRC 113834T), Pedobacter psychrodurus sp. nov. (type strain RP-3-21T=KEMB 9005-728T=KACC 21156T=NBRC 113835T) and Pedobacter polaris sp. nov. (type strain RP-3-22T=KEMB 9005-729T=KACC 21157T=NBRC 113836T) are proposed.

scholarly journals Maribacter gen. nov., a new member of the family Flavobacteriaceae, isolated from marine habitats, containing the species Maribacter sedimenticola sp. nov., Maribacter aquivivus sp. nov., Maribacter orientalis sp. nov. and Maribacter ulvicola sp. nov.

2004 ◽  
Vol 54 (4) ◽  
pp. 1017-1023 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Suk Kyun Han ◽  
Anatoly M. Lysenko ◽  
Manfred Rohde ◽  
...  
Keyword(s):  
Sea Water ◽  
Rrna Gene ◽  
The Novel ◽  
Peter The Great ◽  
Marine Habitats ◽  
Ulva Fenestrata ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Novel Bacteria ◽  
Type Strains

Six novel gliding, heterotrophic, Gram-negative, yellow-pigmented, aerobic, oxidase- and catalase-positive bacteria were isolated from the green alga Ulva fenestrata, sea water and a bottom sediment sample collected in the Gulf of Peter the Great, Sea of Japan. 16S rRNA gene sequence analysis revealed that the strains studied were members of the family Flavobacteriaceae. On the basis of their phenotypic, chemotaxonomic, genotypic and phylogenetic characteristics, the novel bacteria have been assigned to the new genus Maribacter gen. nov., as Maribacter sedimenticola sp. nov., Maribacter orientalis sp. nov., Maribacter aquivivus sp. nov. and Maribacter ulvicola sp. nov., with the type strains KMM 3903T (=KCTC 12966T=CCUG 47098T), KMM 3947T (=KCTC 12967T=CCUG 48008T), KMM 3949T (=KCTC 12968T=CCUG 48009T) and KMM 3951T (=KCTC 12969T=DSM 15366T), respectively.

scholarly journals Aeromicrobium panaciterrae sp. nov., isolated from soil of a ginseng field in South Korea

2007 ◽  
Vol 57 (4) ◽  
pp. 687-691 ◽  
Author(s):  
Ying-Shun Cui ◽  
Wan-Taek Im ◽  
Cheng-Ri Yin ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
...  
Keyword(s):  
South Korea ◽  
Type Strain ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Biochemical Tests ◽  
The Family

A Gram-positive, rod-shaped, non-spore-forming and strictly aerobic bacterium (Gsoil 161T) was isolated from soil of a ginseng field in Pocheon Province, South Korea. The novel isolate was characterized using a polyphasic approach in order to determine its taxonomic position. On the basis of 16S rRNA gene sequence similarity, strain Gsoil 161T was shown to belong to the family Nocardioidaceae and was related to Aeromicrobium marinum (98.0 % similarity to the type strain), Aeromicrobium alkaliterrae (97.6 %), Aeromicrobium fastidiosum (97.0 %) and Aeromicrobium erythreum (96.7 %); the sequence similarity with other species within the family was less than 94.4 %. It was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in the cell-wall peptidoglycan, MK-9(H4) as the predominant menaquinone and C16 : 0, 10-methyl C18 : 0 (tuberculostearic acid), C16 : 0 2-OH, 10-methyl C17 : 0 and 10-methyl-C16 : 0 as the major fatty acids. The G+C content of the genomic DNA was 65.5 mol%. These chemotaxonomic properties and phenotypic characteristics support the affiliation of strain Gsoil 161T to the genus Aeromicrobium. Results of physiological and biochemical tests enabled strain Gsoil 161T to be differentiated genotypically and phenotypically from currently known Aeromicrobium species. Therefore, strain Gsoil 161T represents a novel species, for which the name Aeromicrobium panaciterrae sp. nov. is proposed. The type strain is strain Gsoil 161T (=KCTC 19131T=DSM 17939T=CCUG 52476T).

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