scholarly journals Idiomarina homiensis sp. nov., isolated from seashore sand in Korea

2006 ◽  
Vol 56 (9) ◽  
pp. 2229-2233 ◽  
Author(s):  
Soon-Wo Kwon ◽  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Youn-Kyung Baek ◽  
Bon-Sung Koo ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
The Novel ◽  
Light Yellow ◽  
Gene Sequence Analysis ◽  
Curved Rods ◽  
Seashore Sand ◽  
Type Strains

A halophilic, aerobic bacterium, designated PO-M2T, was isolated from seashore sand, from Pohang, Korea and characterized on the basis of physiological and biochemical features. Phylogenetic analysis of 16S rRNA gene sequences revealed a clear affiliation of the novel strain with members of the genus Idiomarina. Sequence similarities between strain PO-M2T and the type strains of species belonging to the genus Idiomarina ranged from 94.3 to 95.5 %. Cells of strain PO-M2T were straight or slightly curved rods and formed light-yellow colonies on marine agar medium. The major isoprenoid quinone was ubiquinone (Q-8) and the predominant cellular fatty acids were C15 : 0 iso (19.3 %), C17 : 1 ω9c iso (11.9 %), C17 : 0 iso (10.9 %), C18 : 1 ω7c (10.4 %), C16 : 0 (9.0 %) and C16 : 1 ω7c and/or C15 : 0 iso 2-OH (7.2 %). The G+C content of the DNA was 45.1 mol%. Based on physiological, biochemical and chemotaxonomic traits and comparative 16S rRNA gene sequence analysis, it is demonstrated that the isolate represents a novel species of the genus Idiomarina, for which the name Idiomarina homiensis sp. nov. is proposed. The type strain is PO-M2T (=KACC 11514T=DSM 17923T).

scholarly journals Glaciecola arctica sp. nov., isolated from Arctic marine sediment

2011 ◽  
Vol 61 (10) ◽  
pp. 2338-2341 ◽  
Author(s):  
Yan-Jiao Zhang ◽  
Xi-Ying Zhang ◽  
Zi-Hao Mi ◽  
Chun-Xiao Chen ◽  
Zhao-Ming Gao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Sediment ◽  
Dna Hybridization ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Gene Sequence Analysis ◽  
Curved Rods ◽  
Type Strains

A Gram-negative, motile, psychrotolerant, oxidase- and catalase-positive bacterium, designated BSs20135T, was isolated from Arctic marine sediment. Cells were straight or slightly curved rods and formed circular, convex and yellowish-brown colonies. Buds and prosthecae could be produced. The strain grew at 4–28 °C (optimum 25 °C) and with 1–5 % (w/v) NaCl (optimum 2 %) and hydrolysed aesculin and DNA, but did not reduce nitrate to nitrite. Phylogenetic analysis of 16S rRNA gene sequences indicated that strain BSs20135T belonged to the genus Glaciecola and shared 93.6–97.7 % sequence similarity with the type strains of known species of the genus Glaciecola. The major cellular fatty acids of strain BSs20135T were summed feature 3 (comprising C16 : 1ω7c and/or iso-C15 : 0 2-OH), C16 : 0, C17 : 1ω8c and C18 : 1ω7c. The genomic DNA G+C content was 40.3 mol%. Based on 16S rRNA gene sequence analysis, DNA–DNA hybridization data and phenotypic and chemotaxonomic characterization, strain BSs20135T represents a novel species, for which the name Glaciecola arctica sp. nov. is proposed. The type strain is BSs20135T ( = CCTCC AB 209161T  = KACC 14537T).

scholarly journals Paenibacillus wooponensis sp. nov., isolated from wetland freshwater

2011 ◽  
Vol 61 (11) ◽  
pp. 2763-2768 ◽  
Author(s):  
Keun Sik Baik ◽  
Han Na Choe ◽  
Seong Chan Park ◽  
Eun Mi Kim ◽  
Chi Nam Seong
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Characteristics ◽  
Gene Sequence Analysis ◽  
Diamino Acid ◽  
Type Strains

A rod-shaped, endospore-forming, Gram-reaction-positive bacterium, designated strain WPCB018T, was isolated from a fresh water sample collected from Woopo wetland, Korea. The isolate was identified as a member of the genus Paenibacillus on the basis of phenotypic characteristics and phylogenetic inference based on 16S rRNA gene sequence analysis. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and unknown aminophospholipids. The diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. The predominant menaquinone was MK-7. The major cellular fatty acids were anteiso-C15 : 0 (32.2 %), C16 : 0 (20.1 %) and C18 : 0 (18.1 %). The DNA G+C content was 56.0 mol%. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain WPCB018T belongs to a cluster comprising species of the genus Paenibacillus, its closest neighbours being Paenibacillus humicus PC-147T (97.5 %) and Paenibcillus pasadenensis SAFN-007T (96.2 %). Genomic DNA–DNA hybridizations performed with strain WPCB018T and type strains of the species P. humicus, P. pinihumi, P. phyllosphaerae, P. pasadenensis and P. tarimensis showed relatedness values of only 10, 17, 18, 19 and 20 %, respectively. On the basis of phenotypic, molecular and genetic evidence, strain WPCB018T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus wooponensis sp. nov. is proposed. The type strain of the novel species is WPCB018T ( = KCTC 13280T  = JCM 16350T).

scholarly journals Sphingobacterium yanglingense sp. nov., isolated from the nodule surface of soybean

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3862-3866 ◽  
Author(s):  
Shi Peng ◽  
Dong Dan Hong ◽  
Yang Bing Xin ◽  
Li Ming Jun ◽  
Wei Ge Hong
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Physiological And Biochemical Characteristics ◽  
Gene Sequence Analysis ◽  
Type Strains

A Gram-staining-negative, non-motile, catalase- and oxidase-positive strain, designated CCNWSP36-1T, was isolated from the nodule surface of soybean [Glycine max (L.) Merrill] cultivar Zhonghuang 13. The 16S rRNA gene sequence analysis clearly showed that the isolate represented a member of the genus Sphingobacterium . On the basis of pairwise comparisons of 16S rRNA gene sequences, strain CCNWSP36-1T showed 96.8 % similarity to Sphingobacterium nematocida CCTCC AB 2010390T and less than 95.2 % similarity to other members of the genus Sphingobacterium . Growth of strain CCNWSP36-1T occurred at 10–40 °C and at pH 5.0–9.0. The NaCl range (w/v) for growth was 0–4 %. The predominant isoprenoid quinone was MK-7. The polar lipids were phosphatidylethanolamine and several unidentified polar lipids. Sphingolipid was present. The major fatty acids were iso-C15 : 0 and summed feature 3 (comprising C16 : 1ω6c and/or C16 : 1ω7c). The G+C content of the genomic DNA was 41.1 mol%. As the physiological and biochemical characteristics of strain CCNWSP36-1T and the type strains of its closest phylogenetic neighbours showed clear differences, a novel species, Sphingobacterium yanglingense, is proposed. The type strain is CCNWSP36-1T ( = ACCC 19328T = JCM 30166T).

scholarly journals Nocardia shimofusensis sp. nov., isolated from soil, and Nocardia higoensis sp. nov., isolated from a patient with lung nocardiosis in Japan

2004 ◽  
Vol 54 (6) ◽  
pp. 1927-1931 ◽  
Author(s):  
Akiko Kageyama ◽  
Katsukiyo Yazawa ◽  
Akira Mukai ◽  
Mari Kinoshita ◽  
Nobukatsu Takata ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Novel Species ◽  
Sequence Similarity ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
Morphological Criteria ◽  
Respective Type ◽  
Type Strains

Three actinomycete strains isolated from soils and one strain isolated from a patient with lung nocardiosis in 1999 and 2001 in Japan have been provisionally assigned to the genus Nocardia on the basis of morphological criteria. These isolates were further investigated to determine their specific taxonomic status. Detailed chemotaxonomic characterization and 16S rRNA gene sequence analysis of these isolates confirmed that they belong to the genus Nocardia. The 16S rRNA gene sequences of the four strains were most similar to that of Nocardia farcinica. However, the sequence similarity values between these four strains and N. farcinica were <98·9 %. These four strains were susceptible to 5-fluorouracil, and they have the ability to decompose urea, which is a very characteristic trait. Furthermore, DNA–DNA relatedness data revealed that IFM 10311T, IFM 10312 and IFM 10313 comprise a single novel species of Nocardia, that IFM 10084T represents another novel species of Nocardia and that these two novel species could be distinguished from N. farcinica. The names Nocardia shimofusensis sp. nov. and Nocardia higoensis sp. nov. are proposed, with IFM 10311T (=NBRC 100134T=JCM 12122T=DSM 44733T) and IFM 10084T (=NBRC 100133T=JCM 12121T=DSM 44732T) as the respective type strains.

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 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).

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 Escherichia marmotae sp. nov., isolated from faeces of Marmota himalayana

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2130-2134 ◽  
Author(s):  
Sha Liu ◽  
Dong Jin ◽  
Ruiting Lan ◽  
Yiting Wang ◽  
Qiong Meng ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Group Of Seven ◽  
Faecal Samples ◽  
Type Strains

The taxonomic position of a group of seven closely related lactose-negative enterobacterial strains, which were isolated from fresh faecal samples of Marmota himalayana collected from the Qinghai-Tibetan plateau, China, was determined by using a polyphasic approach. Cells were Gram-reaction-negative, non-sporulating, non-motile, short rods (0.5–1 × 1–2.5 μm). By 16S rRNA gene sequences, the representative strain, HT073016T, showed highest similarity values with Escherichia fergusonii ATCC 35469T at 99.3 %, Escherichia coli ATCC 11775T at 99.2 %, Escherichia albertii LMG 20976T at 98.9 %, Escherichia hermannii CIP 103176T at 98.4 %, and Escherichia vulneris ATCC 33821T at 97.7 %. Phylogenetic analysis based on the 16S rRNA gene sequences showed that the seven strains formed a monophyletic group with five other species of the genus Escherichia. Digital DNA–DNA hybridization studies between strain HT073016T and five other species of the genus Escherichia showed that it shared less than 70 % DNA–DNA relatedness with all known species of the genus Escherichia, supporting the novel species status of the strain. The DNA G+C content of strain HT073016T was 53.8 mol%. On the basis of phenotypic and phylogenetic characteristics, strain HT073016T and the six other HT073016T-like strains were clearly distinct from the type strains of other recognized species of the genus Escherichia and represent a novel species of the genus Escherichia, for which the name Escherichia marmotae sp. nov. is proposed, with HT073016T ( = CGMCC 1.12862T = DSM 28771T) as the type strain.

scholarly journals Arenimonas donghaensis gen. nov., sp. nov., isolated from seashore sand

2007 ◽  
Vol 57 (5) ◽  
pp. 954-958 ◽  
Author(s):  
Soon-Wo Kwon ◽  
Byung-Yong Kim ◽  
Hang-Yeon Weon ◽  
Youn-Kyung Baek ◽  
Seung-Joo Go
Keyword(s):  
16S Rrna ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Aerobic Bacterium ◽  
16S Rrna Sequence ◽  
16S Rrna Sequence Analysis ◽  
Curved Rods ◽  
Taxonomic Approach ◽  
Seashore Sand ◽  
Sequence Similarities

A Gram-negative, aerobic bacterium, designated strain HO3-R19T, which was isolated from seashore sand in Pohang city, Korea, was characterized on the basis of a polyphasic taxonomic approach. Phylogenetic analyses of 16S rRNA gene sequences revealed that strain HO3-R19T represents a new lineage within the Gammaproteobacteria; sequence similarities between strain HO3-R19T and members of other related genera were less than 93.5 %. Strain HO3-R19T was also distinguished from related genera based on differences in several phenotypic characteristics. Cells were straight or slightly curved rods and formed white colonies on R2A agar. The major isoprenoid quinone was ubiquinone 8 (Q-8), and predominant cellular fatty acids were iso-C16 : 0, iso-C15 : 0 and iso-C17 : 1 ω9c. The DNA G+C content of strain HO3-R19T was 65.0 mol%. Based on physiological, biochemical and chemotaxonomic traits together with results of comparative 16S rRNA sequence analysis, strain HO3-R19T is considered to represent a novel species in a new genus, for which the name Arenimonas donghaensis gen. nov., sp. nov. is proposed. The type strain of Arenimonas donghaensis is HO3-R19T (=KACC 11381T=DSM 18148T).

scholarly journals Flagellimonas eckloniae gen. nov., sp. nov., a mesophilic marine bacterium of the family Flavobacteriaceae, isolated from the rhizosphere of Ecklonia kurome

2007 ◽  
Vol 57 (5) ◽  
pp. 1050-1054 ◽  
Author(s):  
Seung Seob Bae ◽  
Kae Kyoung Kwon ◽  
Sung Hyun Yang ◽  
Hee-Soon Lee ◽  
Sang-Jin Kim ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Bacterium ◽  
Optimal Growth ◽  
Rrna Gene ◽  
The Novel ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Major Respiratory Quinone

A marine bacterium, DOKDO 007T, was isolated from the rhizosphere of the marine alga Ecklonia kurome collected from Dokdo Island, Korea, in October 2004. The strain produced orange-coloured colonies on marine agar 2216. 16S rRNA gene sequence analysis indicated that the novel isolate belonged to the family Flavobacteriaceae and showed relatively high sequence similarities with members of the genus Muricauda (92.0–94.0 %). Phylogenetic analysis based on nearly complete 16S rRNA gene sequences revealed that the novel isolate shared a lineage with members of the genera Muricauda and Costertonia. Cells were aerobic, Gram-negative rods producing non-diffusible carotenoid pigments. In contrast to all other members of the family Flavobacteriaceae, cells of DOKDO 007T were motile by means of a polar flagellum. Optimal growth occurred in the presence of 3.5–4 % (w/v) sea salts (corresponding to 2.7–3.1 % NaCl), at pH 8 and at temperatures of 26–29 °C. The novel strain required Ca2+ ions in addition to NaCl for growth. The dominant fatty acids were iso-15 : 0, iso-15 : 1ω10c and 10-methyl-16 : 0. The major respiratory quinone was MK-6. The DNA G+C content was 56.3 mol%, an unusually high value for members of the family Flavobacteriaceae. On the basis of these polyphasic taxonomic data, strain DOKDO 007T should be classified as representing a new genus and novel species in the family Flavobacteriaceae, for which the name Flagellimonas eckloniae gen. nov., sp. nov. is proposed. The type strain is DOKDO 007T (=KCCM 42307T=JCM 13831T).

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