Roseovarius marinus sp. nov., isolated from seawater

2011 ◽  
Vol 61 (2) ◽  
pp. 427-432 ◽  
Author(s):  
Yong-Taek Jung ◽  
Jong Suk Lee ◽  
Ki-Hoon Oh ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
The Other ◽  
The Yellow Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence

A Gram-stain-negative, non-motile, ovoid- to rod-shaped bacterium, designated HDW-9T, belonging to the class Alphaproteobacteria, was isolated from seawater of the Yellow Sea, Korea. Strain HDW-9T grew optimally at pH 7.0–8.0, at 30 °C and with 2–3 % (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences showed that strain HDW-9T clustered with Roseovarius crassostreae CV919-312T, with which it exhibited 95.5 % 16S rRNA gene sequence similarity. Strain HDW-9T exhibited 92.5–94.7 % 16S rRNA gene sequence similarity with the other type strains of species of the genus Roseovarius. Strain HDW-9T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c as the major fatty acid. The DNA G+C content was 58.3 mol%. Differential phenotypic properties distinguished strain HDW-9T from the other members of the genus Roseovarius. Strain HDW-9T is considered to represent a novel species of the genus Roseovarius, for which the name Roseovarius marinus sp. nov. is proposed. The type strain is HDW-9T (=KCTC 22805T =CCUG 58403T).

scholarly journals Marinobacterium halophilum sp. nov., a marine bacterium isolated from the Yellow Sea

2007 ◽  
Vol 57 (1) ◽  
pp. 77-80 ◽  
Author(s):  
Ho-Won Chang ◽  
Young-Do Nam ◽  
Hyuk-Yong Kwon ◽  
Ja Ryeong Park ◽  
Jung-Sook Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
The Yellow Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Type Strains

A moderately halophilic, aerobic, Gram-negative bacterium was isolated from a tidal flat area of Dae-Chun, Chung-Nam, Korea. The strain, designated mano11T, comprised rod-shaped cells that were motile by means of polar flagella. It grew with 3–12 % NaCl and at 4–37 °C and pH 5.3–9.3. The predominant menaquinone present in this strain was MK-7 and diaminopimelic acid was not found in the cell-wall peptidoglycan. A phylogenetic analysis based on 16S rRNA gene sequences showed that strain mano11T belongs to the genus Marinobacterium. Strain mano11T exhibited 92.8–98.3 % 16S rRNA gene sequence similarity when compared with the type strains of three other species of the genus Marinobacterium. DNA–DNA hybridization between strain mano11T and Marinobacterium georgiense DSM 11526T, its closest relative in terms of 16S rRNA gene sequence similarity, was 13 %. On the basis of the phenotypic, genetic and phylogenetic data, strain mano11T represents a novel species of the genus Marinobacterium, for which the name Marinobacterium halophilum sp. nov. is proposed. The type strain is mano11T (=KCTC 12240T=DSM 17586T).

scholarly journals Paraperlucidibaca baekdonensis gen. nov., sp. nov., isolated from seawater

2011 ◽  
Vol 61 (6) ◽  
pp. 1382-1385 ◽  
Author(s):  
Ki-Hoon Oh ◽  
Soo-Young Lee ◽  
Mi-Hwa Lee ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Data ◽  
Gene Sequence Analysis

A Gram-negative, non-spore-forming, rod-shaped bacterial strain, RL-2T, was isolated from seawater of the East Sea in Korea and was subjected to a polyphasic taxonomic study. Strain RL-2T grew optimally at pH 7.5–8.0, at 20 °C and in the absence of NaCl. Phylogenetic trees based on 16S rRNA gene sequence analysis showed that strain RL-2T forms a cluster with Perlucidibaca piscinae IMCC1704T and various uncultured and unidentified gammaproteobacteria. Strain RL-2T exhibited 16S rRNA gene sequence similarity values of 96.1 % to Perlucidibaca piscinae IMCC1704T and 93.7–99.7 % to the uncultured bacterial clones belonging to the cluster and an unidentified gammaproteobacterium. The fatty acid profile of strain RL-2T was similar to that of Perlucidibaca piscinae IMCC1704T, but the predominant ubiquinone type (Q-11) of strain RL-2T was different from that (Q-8) of Perlucidibaca piscinae IMCC1704T. The DNA G+C content of strain RL-2T was 61.3 mol%. On the basis of phylogenetic, chemotaxonomic and phenotypic data, strain RL-2T is considered to represent a novel species of a new genus in the family Moraxellaceae, for which the name Paraperlucidibaca baekdonensis gen. nov., sp. nov. is proposed. The type strain of Paraperlucidibaca baekdonensis is RL-2T ( = KCTC 23145T  = CCUG 59307T).

Mucilaginibacter lutimaris sp. nov., isolated from a tidal flat sediment

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 515-519 ◽  
Author(s):  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Yong-Taek Jung ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Strain ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
The Other ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence

A Gram-staining-negative, non-spore-forming, facultatively aerobic, non-motile, rod-shaped bacterial strain, BR-3T, was isolated from a tidal flat on the western coast of Korea, and subjected to a polyphasic study. Strain BR-3T grew optimally at 25 °C, at pH 6.5–7.0 and in the absence of NaCl. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain BR-3T fell within the clade comprising species of the genus Mucilaginibacter, joining the type strain of Mucilaginibacter rigui, with which it exhibited highest 16S rRNA gene sequence similarity (98.2 %). 16S rRNA gene sequence similarity values between strain BR-3T and the type strains of the other species of the genus Mucilaginibacter were in the range 93.8–95.9 %. A mean DNA–DNA relatedness value between strain BR-3T and M. rigui KCTC 12534T was 21 %. Strain BR-3T contained MK-7 as the predominant menaquinone and C16 : 1ω7c and/or iso-C15 : 0 2-OH and iso-C15 : 0 as the major fatty acids. The major polar lipids were phosphatidylethanolamine and an unidentified aminophospholipid. The DNA G+C content was 49.8 mol%. Differential phenotypic properties and phylogenetic and genetic distinctiveness of strain BR-3T demonstrated that this strain is separate from M. rigui as well as the other species of the genus Mucilaginibacter. On the basis of the data presented, strain BR-3T is considered to represent a novel species of the genus Mucilaginibacter, for which the name Mucilaginibacter lutimaris sp. nov. is proposed. The type strain is BR-3T ( = KCTC 23461T  = CCUG 60742T).

scholarly journals Porticoccus litoralis gen. nov., sp. nov., a gammaproteobacterium isolated from the Yellow Sea

2010 ◽  
Vol 60 (4) ◽  
pp. 727-732 ◽  
Author(s):  
Hyun-Myung Oh ◽  
Hana Kim ◽  
Kyung-Mi Kim ◽  
Gi-Sik Min ◽  
Jang-Cheon Cho
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Yellow Sea ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
The Yellow Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Sequence Comparisons

A marine bacterium, designated IMCC2115T, was isolated from coastal seawater (Yellow Sea, Korea) using a high throughput cultivation method based on dilution-to-extinction, and taxonomically investigated. Cells of the strain formed tiny, beige to off-white colonies and were Gram-stain-negative, obligately aerobic, chemoheterotrophic, non-motile cocci. Based on 16S rRNA gene sequence comparisons, the strain was most closely related to the genera Marinimicrobium (92.0–92.4 %) and Microbulbifer (91.6–92.8 %), but phylogenetic trees showed that the strain formed a distinct phyletic line in the class Gammaproteobacteria adjacent to the OM60 and SAR92 clades. The DNA G+C content of the strain was 47.8 mol% and the predominant cellular fatty acids were anteiso-C15 : 0 (67.6 %), anteiso-C17 : 0 (14.4 %) and C16 : 0 (6.9 %). The 16S rRNA gene sequence analyses and phenotypic and chemotaxonomic tests allowed the differentiation of IMCC2115T from other related genera in the class Gammaproteobacteria. Therefore, strain IMCC2115T (=KCCM 42369T =NBRC 102686T) is proposed as the representative of a new genus and species, for which the name Porticoccus litoralis gen. nov., sp. nov. is proposed.

scholarly journals Roseovarius antarcticus sp. nov., isolated from a decayed whale bone

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2326-2333 ◽  
Author(s):  
Sangsang Deng ◽  
Fan Jiang ◽  
Xulu Chang ◽  
Zhihao Qu ◽  
Lvzhi Ren ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Eastern Coast ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Minimum Evolution

A pale yellow, ovoid- to rod-shaped and budding bacterium, designated strain M-S13-148T, was isolated from a decayed bone of whale from the eastern coast of King George Island, South Shetlands, Antarctica. Strain M-S13-148T exhibited motility, aerobic growth and was Gram-stain-negative. Strain M-S13-148T was positive for catalase and oxidase. Growth was observed at pH 6.0–9.0, at 4–42 °C and with 0–14 % (w/v) NaCl. The novel strain contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and an unknown phospholipid as the major polar lipids. The dominant cellular fatty acids were summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), (58.8 %) and C16 : 0 (11.7 %). The respiratory quinone was Q-10 and the DNA G+C content was 60.9 mol%. Neighbour-joining, maximum-likelihood and minimum-evolution phylogenetic trees, based on 16S rRNA gene sequences, indicated that strain M-S13-148T belonged to the genus Roseovarius and was most closely related to Roseovarius nanhaiticus CCTCC AB 208317T (93.72 % 16S rRNA gene sequence similarity). The 16S rRNA gene sequence similarity with respect to members of the genus Roseovarius ranged from 91.81 to 93.94 %. On the basis of phenotypic, molecular and chemotaxonomic characteristics, strain M-S13-148 is considered to represent a novel species of the genus Roseovarius, for which the name Roseovarius antarcticus sp. nov., is proposed. The type strain is M-S13-148T ( = CCTCC AB2014072T = LMG 28420T).

Virgibacillus byunsanensis sp. nov., isolated from a marine solar saltern

2010 ◽  
Vol 60 (2) ◽  
pp. 291-295 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Yong-Taek Jung ◽  
Keun Chul Lee ◽  
Hyun Woo Oh ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Solar Saltern ◽  
Rrna Gene Sequence ◽  
Marine Solar Saltern

A Gram-variable, motile, endospore-forming and rod-shaped bacterial strain, ISL-24T, was isolated from a marine solar saltern of the Yellow Sea, Korea, and its taxonomic position was investigated by a polyphasic study. Strain ISL-24T grew optimally at pH 7.0–8.0, at 30–37 °C and in the presence of 8 % (w/v) NaCl. It contained MK-7 as the predominant menaquinone and anteiso-C15 : 0 as the predominant fatty acid. The DNA G+C content was 37.6 mol%. A phylogenetic analysis based on 16S rRNA gene sequences showed that strain ISL-24T fell within the genus Virgibacillus, clustering with Virgibacillus carmonensis LMG 20964T and Virgibacillus necropolis LMG 19488T, with a bootstrap resampling value of 92.3 %, and exhibiting 97.3 and 97.4 % 16S rRNA gene sequence similarity, respectively, to these strains. Strain ISL-24T exhibited 94.8–96.8 % 16S rRNA gene sequence similarity to the type strains of the other Virgibacillus species. Mean DNA–DNA relatedness values between strain ISL-24T and V. carmonensis DSM 14868T and V. necropolis DSM 14866T were 11 and 19 %, respectively. Differential phenotypic properties of strain ISL-24T, together with the phylogenetic and genetic distinctiveness, revealed that this strain is different from recognized Virgibacillus species. On the basis of phenotypic, phylogenetic and genetic data, strain ISL-24T represents a novel species of the genus Virgibacillus, for which the name Virgibacillus byunsanensis sp. nov. is proposed. The type strain is ISL-24T (=KCTC 13259T =CCUG 56754T).

scholarly journals Streptomyces tacrolimicus sp. nov., a low producer of the immunosuppressant tacrolimus (FK506)

2011 ◽  
Vol 61 (5) ◽  
pp. 1084-1088 ◽  
Author(s):  
Miriam Martínez-Castro ◽  
Carlos Barreiro ◽  
Francisco Romero ◽  
Rosa Isabel Fernández-Chimeno ◽  
Juan F. Martín
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Strain Atcc ◽  
Rrna Gene Sequence ◽  
Physiological Tests

The number of tacrolimus (FK506)-producing isolates has increased remarkably because of the clinical importance of tacrolimus as an immunosuppressant. However, the taxonomy of several of these isolates has not been studied. The taxonomic status of strain ATCC 55098T, a tacrolimus-producing strain, was determined in this study. The genotypic, phenotypic and chemotaxonomic properties were consistent with the inclusion of strain ATCC 55098T in the genus Streptomyces. The 16S rRNA gene sequence of strain ATCC 55098T was determined and used to generate phylogenetic trees with corresponding sequences of the most closely related type strains (≥98 % 16S rRNA gene sequence similarity) of species of the genus Streptomyces. Strain ATCC 55098T formed a distinct phylogenetic branch adjacent to a cluster comprising Streptomyces fulvissimus NBRC 13482T and Streptomyces flavofungini NBRC 13371T. However, morphological and physiological tests and DNA–DNA relatedness distinguished strain ATCC 55098T from its closest phylogenetic neighbours. On the basis of these results, strain ATCC 55098T represents a novel species of the genus Streptomyces, for which the name Streptomyces tacrolimicus sp. nov. is proposed. The type strain is ATCC 55098T ( = CECT 7664T).

scholarly journals Streptomonospora litoralis sp. nov., a halophilic thiopeptides producer isolated from sand collected at Cuxhaven beach

2021 ◽  
Author(s):  
Shadi Khodamoradi ◽  
Richard L. Hahnke ◽  
Yvonne Mast ◽  
Peter Schumann ◽  
Peter Kämpfer ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Bioinformatic Analysis ◽  
Biosynthetic Gene Cluster ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Polar Lipid Profile

AbstractStrain M2T was isolated from the beach of Cuxhaven, Wadden Sea, Germany, in course of a program to attain new producers of bioactive natural products. Strain M2T produces litoralimycin and sulfomycin-type thiopeptides. Bioinformatic analysis revealed a potential biosynthetic gene cluster encoding for the M2T thiopeptides. The strain is Gram-stain-positive, rod shaped, non-motile, spore forming, showing a yellow colony color and forms extensively branched substrate mycelium and aerial hyphae. Inferred from the 16S rRNA gene phylogeny strain M2T affiliates with the genus Streptomonospora. It shows 96.6% 16S rRNA gene sequence similarity to the type species Streptomonospora salina DSM 44593 T and forms a distinct branch with Streptomonospora sediminis DSM 45723 T with 97.0% 16S rRNA gene sequence similarity. Genome-based phylogenetic analysis revealed that M2T is closely related to Streptomonospora alba YIM 90003 T with a digital DNA-DNA hybridisation (dDDH) value of 26.6%. The predominant menaquinones of M2T are MK-10(H6), MK-10(H8), and MK-11(H6) (> 10%). Major cellular fatty acids are iso-C16:0, anteiso C17:0 and C18:0 10-methyl. The polar lipid profile consisted of diphosphatidylglycerol phosphatidyl glycerol, phosphatidylinositol, phosphatidylcholine, phosphatidylethanolamine, three glycolipids, two unknown phospholipids, and two unknown lipids. The genome size of type strain M2T is 5,878,427 bp with 72.1 mol % G + C content. Based on the results obtained from phylogenetic and chemotaxonomic studies, strain M2T (= DSM 106425 T = NCCB 100650 T) is considered to represent a novel species within the genus Streptomonospora for which the name Streptomonospora litoralis sp. nov. is proposed.

scholarly journals Faecalicoccus acidiformans gen. nov., sp. nov., isolated from the chicken caecum, and reclassification of Streptococcus pleomorphus (Barnes et al. 1977), Eubacterium biforme (Eggerth 1935) and Eubacterium cylindroides (Cato et al. 1974) as Faecalicoccus pleomorphus comb. nov., Holdemanella biformis gen. nov., comb. nov. and Faecalitalea cylindroides gen. nov., comb. nov., respectively, within the family Erysipelotrichaceae

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3877-3884 ◽  
Author(s):  
Celine De Maesschalck ◽  
Filip Van Immerseel ◽  
Venessa Eeckhaut ◽  
Siegrid De Baere ◽  
Margo Cnockaert ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type

Strains LMG 27428T and LMG 27427 were isolated from the caecal content of a chicken and produced butyric, lactic and formic acids as major metabolic end products. The genomic DNA G+C contents of strains LMG 27428T and LMG 27427 were 40.4 and 38.8 mol%. On the basis of 16S rRNA gene sequence similarity, both strains were most closely related to the generically misclassified Streptococcus pleomorphus ATCC 29734T. Strain LMG 27428T could be distinguished from S. pleomorphus ATCC 29734T based on production of more lactic acid and less formic acid in M2GSC medium, a higher DNA G+C content and the absence of activities of acid phosphatase and leucine, arginine, leucyl glycine, pyroglutamic acid, glycine and histidine arylamidases, while strain LMG 27428 was biochemically indistinguishable from S. pleomorphus ATCC 29734T. The novel genus Faecalicoccus gen. nov. within the family Erysipelotrichaceae is proposed to accommodate strains LMG 27428T and LMG 27427. Strain LMG 27428T ( = DSM 26963T) is the type strain of Faecalicoccus acidiformans sp. nov., and strain LMG 27427 ( = DSM 26962) is a strain of Faecalicoccus pleomorphus comb. nov. (type strain LMG 17756T = ATCC 29734T = DSM 20574T). Furthermore, the nearest phylogenetic neighbours of the genus Faecalicoccus are the generically misclassified Eubacterium cylindroides DSM 3983T (94.4 % 16S rRNA gene sequence similarity to strain LMG 27428T) and Eubacterium biforme DSM 3989T (92.7 % 16S rRNA gene sequence similarity to strain LMG 27428T). We present genotypic and phenotypic data that allow the differentiation of each of these taxa and propose to reclassify these generically misnamed species of the genus Eubacterium formally as Faecalitalea cylindroides gen. nov., comb. nov. and Holdemanella biformis gen. nov., comb. nov., respectively. The type strain of Faecalitalea cylindroides is DSM 3983T = ATCC 27803T = JCM 10261T and that of Holdemanella biformis is DSM 3989T = ATCC 27806T = CCUG 28091T.

scholarly journals Paenibacillus xinjiangensis sp. nov., isolated from Xinjiang province in China

2006 ◽  
Vol 56 (11) ◽  
pp. 2579-2582 ◽  
Author(s):  
Jee-Min Lim ◽  
Che Ok Jeon ◽  
Dong-Jin Park ◽  
Li-Hua Xu ◽  
Cheng-Lin Jiang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Sequence Similarities

Strain B538T is a Gram-positive, motile, rod-shaped bacterium, which was isolated from Xinjiang province in China. This organism grew optimally at 30–35 °C and pH 8.0–8.5. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain B538T belonged to the genus Paenibacillus and chemotaxonomic data (DNA G+C content, 47.0 mol%; major isoprenoid quinone, MK-7; cell wall type, A1γ meso-diaminopimelic acid; major fatty acids, anteiso-C15 : 0 and C16 : 0) supported affiliation of the isolate with the genus Paenibacillus. Comparative 16S rRNA gene sequence analyses showed that the isolate was most closely related to Paenibacillus glycanilyticus DS-1T, with 16S rRNA gene sequence similarity of 98.1 %; sequence similarities to other members of the genus Paenibacillus used in the phylogenetic tree were less than 96.5 %. The DNA–DNA relatedness between strain B538T and P. glycanilyticus DS-1T was about 8.0 %. On the basis of physiological and molecular properties, strain B538T (=KCTC 3952T=DSM 16970T) is proposed as the type strain of a novel species within the genus Paenibacillus, for which the name Paenibacillus xinjiangensis sp. nov. is proposed.

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