scholarly journals Hongiella marincola sp. nov., isolated from sea water of the East Sea in Korea

2004 ◽  
Vol 54 (5) ◽  
pp. 1845-1848 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Soo-Hwan Yeo ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sea Water ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
East Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence

Two Gram-negative, non-motile, non-spore-forming, rod-shaped strains, SW-2T and SW-26, were isolated from sea water of the East Sea in Korea. These organisms grew optimally at 37 °C and in the presence of 2–3 % (w/v) NaCl. They did not grow without NaCl or in the presence of >9 % (w/v) NaCl. Strains SW-2T and SW-26 were characterized chemotaxonomically as having MK-7 as the predominant isoprenoid quinone and iso-C15 : 0 as the major fatty acid. The DNA G+C content of strains SW-2T and SW-26 was 43 mol%. A neighbour-joining tree based on 16S rRNA gene sequences showed that strains SW-2T and SW-26 fell within the Cytophaga–Flavobacterium–Bacteroides group and formed a coherent cluster with Hongiella species. Strains SW-2T and SW-26 showed a 16S rRNA gene sequence similarity value of 99·9 % and a mean DNA–DNA relatedness level of 87 % to each other. Levels of 16S rRNA gene sequence similarity between strains SW-2T and SW-26 and the type strains of two Hongiella species ranged from 94·2 to 96·6 %. On the basis of phenotypic and chemotaxonomic properties and phylogenetic distinctiveness, strains SW-2T and SW-26 should be placed in the genus Hongiella as members of a novel species, for which the name Hongiella marincola sp. nov. is proposed. The type strain is SW-2T (=KCTC 12180T=DSM 16067T).

Gaetbulicola byunsanensis gen. nov., sp. nov., isolated from tidal flat sediment

2010 ◽  
Vol 60 (1) ◽  
pp. 196-199 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Yong-Taek Jung ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences

A Gram-negative, non-motile and pleomorphic bacterial strain, SMK-114T, which belongs to the class Alphaproteobacteria, was isolated from a tidal flat sample collected in Byunsan, Korea. Strain SMK-114T grew optimally at pH 7.0–8.0 and 25–30 °C and in the presence of 2 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain SMK-114T formed a cluster with Octadecabacter species, with which it exhibited 16S rRNA gene sequence similarity values of 95.2–95.4 %. This cluster was part of the clade comprising Thalassobius species with a bootstrap resampling value of 76.3 %. Strain SMK-114T exhibited 16S rRNA gene sequence similarity values of 95.1–96.3 % to members of the genus Thalassobius. It contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c as the major fatty acid. The DNA G+C content was 60.0 mol%. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain SMK-114T is considered to represent a novel species in a new genus for which the name Gaetbulicola byunsanensis gen. nov., sp. nov. is proposed. The type strain of Gaetbulicola byunsanensis is SMK-114T (=KCTC 22632T =CCUG 57612T).

scholarly journals Pseudonocardia adelaidensis sp. nov., an endophytic actinobacterium isolated from the surface-sterilized stem of a grey box tree (Eucalyptus microcarpa)

2010 ◽  
Vol 60 (12) ◽  
pp. 2818-2822 ◽  
Author(s):  
Onuma Kaewkla ◽  
Christopher M. M. Franco
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Endophytic Actinobacterium

An aerobic, actinobacterial strain with rod-shaped spores, EUM 221T, which was isolated from the surface-sterilized stem of a grey box tree (Eucalyptus microcarpa), is described. Phylogenetic evaluation based on 16S rRNA gene sequence similarity showed that this isolate belongs to the family Pseudonocardiaceae, with the closest neighbour being Pseudonocardia zijingensis 6330T (98.7 %). The level of 16S rRNA gene sequence similarity between the isolate and species of the genus Pseudonocardia with validly published names ranged from 95 to 98 %. Chemotaxonomic data (meso-diaminopimelic acid; major menaquinone MK-8(H4); major fatty acid iso-C16 : 0) confirmed the affiliation of strain EUM 221T to the genus Pseudonocardia. The results of the phylogenetic analysis, including physiological and biochemical studies in combination with DNA–DNA hybridization, allowed the genotypic and phenotypic differentiation of strain EUM 221T from the closest described species. Therefore, this strain represented a novel species and the name proposed is Pseudonocardia adelaidensis sp. nov. The type strain is EUM 221T (=DSM 45352T =ACM 5286T).

scholarly journals Oceanisphaera donghaensis sp. nov., a halophilic bacterium from the East Sea, Korea

2006 ◽  
Vol 56 (4) ◽  
pp. 895-898 ◽  
Author(s):  
Soo-Je Park ◽  
Cheol-Hee Kang ◽  
Young-Do Nam ◽  
Jin-Woo Bae ◽  
Yong-Ha Park ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Halophilic Bacterium ◽  
Biochemical Properties ◽  
East Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence

A taxonomic study was carried out on two isolates, strains BL1T and BL11, from marine sediment collected from the East Sea, Korea. Comparative 16S rRNA gene sequence studies showed that these isolates clearly affiliated with the Gammaproteobacteria. BL1T and BL11 were most closely related to Oceanisphaera litoralis KMM 3654T (97·6 and 97·7 % 16S rRNA gene sequence similarity, respectively). The level of 16S rRNA gene sequence similarity between strains BL1T and BL11 was 99·7 %. The two isolates were Gram-negative, aerobic, moderately halophilic, and grew in 0·5–8·0 % NaCl and at 4–42 °C. Strains BL1T and BL11 shared some physiological and biochemical properties with O. litoralis KMM 3654T, although they differed in that BL1T and BL11 were able to utilize ethanol, proline and alanine. The G+C contents of the genomic DNA of strains BL1T and BL11 were 56·6 and 57·1 mol%, respectively. Both strains possessed C16 : 1 ω7c and/or iso-C15 : 0 2-OH, C16 : 0 and C18 : 1 ω7c as the major fatty acids. DNA–DNA relatedness data indicated that strains BL1T and BL11 represent a genomic species that is separate from O. litoralis KMM 3654T. On the basis of polyphasic evidence, it is proposed that strain BL1T (=KCTC 12522T=DSM 17589T) represents the type strain of a novel species, Oceanisphaera donghaensis sp. nov.

scholarly journals Marinobacter maritimus sp. nov., a psychrotolerant strain isolated from sea water off the subantarctic Kerguelen islands

2005 ◽  
Vol 55 (4) ◽  
pp. 1453-1456 ◽  
Author(s):  
S. Shivaji ◽  
Pratima Gupta ◽  
Preeti Chaturvedi ◽  
K. Suresh ◽  
Daniel Delille
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sea Water ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Maximum Temperature ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Kerguelen Islands

A psychrotolerant, Gram-negative, motile bacterium, designated CK 47T, was isolated from sea water off the subantarctic Kerguelen islands (50° 40′ S 68° 25′ E). The isolate grew optimally at 22 °C and minimum and maximum temperature of growth were 4 and 37 °C, respectively. It required Na+ for growth and exhibited optimum growth at pH 8·5 and 4 % NaCl. It utilized hexane, heptane and petroleum ether as sole sources of carbon. Strain CK 47T had Q9 as the major respiratory quinone and C16 : 0 (21·7 %), C17 : 0 (21·3 %), C18 : 0 (5·7 %), C18 : 1 ω7c (9·0 %) and C18 : 1 ω9c (31·4 %) as predominant fatty acids. The G+C content of the DNA was 58 mol%. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that CK 47T formed a coherent cluster within the genus Marinobacter. It exhibited highest 16S rRNA gene sequence similarity of 96·8 % with Marinobacter lipolyticus. However, the level of DNA–DNA relatedness between strain CK47T and M. lipolyticus was only 55 %. On the basis of phenotypic characteristics, and phylogenetic and genotypic distinctiveness, strain CK 47T is considered to represent a novel species of the genus Marinobacter. The name Marinobacter maritimus sp. nov. is proposed, with CK 47T (=JCM 12521T=MTCC 6519T) as the type strain.

Marinomonas dokdonensis sp. nov., isolated from sea water

2005 ◽  
Vol 55 (6) ◽  
pp. 2303-2307 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sea Water ◽  
Sequence Similarity ◽  
Halophilic Bacteria ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Dna Relatedness

Two Gram-negative, motile, non-spore-forming, slightly halophilic bacteria (strains DSW10-10T and DSW10-19) were isolated from sea water and subjected to a polyphasic taxonomic study. They grew optimally at 30 °C and in the presence of 2–3 % (w/v) NaCl. Strains DSW10-10T and DSW10-19 were characterized chemotaxonomically as containing Q-8 as the predominant ubiquinone and C18 : 1 ω7c, C16 : 0 and C16 : 1 ω7c and/or iso-C15 : 0 2-OH as the major fatty acids. Their DNA G+C contents were 45·3–45·7 mol%. Strains DSW10-10T and DSW10-19 exhibited a 16S rRNA gene sequence similarity value of 100 % and possessed a mean DNA–DNA relatedness level of 85 %. Phylogenetic analyses based on 16S rRNA gene sequences showed that strains DSW10-10T and DSW10-19 fell within the radiation of the cluster encompassed by the genus Marinomonas. Strains DSW10-10T and DSW10-19 had 16S rRNA gene sequence similarity levels of 95·7–97·7 % with respect to the type strains of Marinomonas species with validly published names. Levels of DNA–DNA relatedness were low enough to indicate that the two strains constitute a distinct Marinomonas species. On the basis of phenotypic data and phylogenetic and genetic distinctiveness, strains DSW10-10T (=KCTC 12394T=DSM 17202T) and DSW10-19 were placed in the genus Marinomonas as members of a novel species, Marinomonas dokdonensis sp. nov.

scholarly journals Porphyrobacter dokdonensis sp. nov., isolated from sea water

2006 ◽  
Vol 56 (5) ◽  
pp. 1079-1083 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Mi-Hwa Lee ◽  
Hyun Woo Oh ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sea Water ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties

A Gram-negative, non-motile, non-spore-forming, slightly halophilic bacterial strain, DSW-74T, was isolated from sea water off the island of Dokdo, Korea, and its taxonomic position was investigated by a polyphasic study. Strain DSW-74T grew optimally at 37 °C and in the presence of 2 % (w/v) NaCl. It contained Q-10 as the predominant ubiquinone and C17 : 1 ω6c and C18 : 1 ω7c as the major fatty acids. Its DNA G+C content was 65.8 mol%. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DSW-74T was most closely related to Porphyrobacter species. Similarity values between the 16S rRNA gene sequence of strain DSW-74T and those of the type strains of recognized Porphyrobacter species and of Erythromicrobium ramosum were in the range 97.4–98.7 %. Strain DSW-74T exhibited 16S rRNA gene sequence similarity values of <97.5 % to recognized Erythrobacter species and the other species used in the phylogenetic analysis. DNA–DNA relatedness levels and differential phenotypic properties made it possible to categorize strain DSW-74T as representing a novel Porphyrobacter species. On the basis of the taxonomic data presented, it is proposed that DSW-74T (=KCTC 12395T=DSM 17193T) should be classified in the genus Porphyrobacter as the type strain of a novel species, Porphyrobacter dokdonensis sp. nov.

scholarly journals Glaciecola agarilytica sp. nov., an agar-digesting marine bacterium from the East Sea, Korea

2007 ◽  
Vol 57 (5) ◽  
pp. 951-953 ◽  
Author(s):  
Jeong-Joong Yong ◽  
Soo-Je Park ◽  
Hyeon-Ju Kim ◽  
Sung-Keun Rhee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Distinct Species ◽  
Biochemical Properties ◽  
East Sea ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence

A taxonomic study was carried out on an isolate, strain NO2T, from marine sediment collected from the East Sea, Korea. Comparative 16S rRNA gene sequence studies showed that this strain belonged to the Gammaproteobacteria and was most closely related to Glaciecola mesophila KMM 241T and Glaciecola polaris LMG 21857T (98.6 and 98.0 % 16S rRNA gene sequence similarity, respectively). The isolate was Gram-negative, aerobic and slightly halophilic and grew in 2–8 % NaCl and at 7–30 °C. Strain NO2T shared some physiological and biochemical properties with G. mesophila KMM 241T and G. polaris LMG 21857T. The G+C content of the genomic DNA of strain NO2T was 45 mol%. Strain NO2T possessed C16 : 0, summed feature 4 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) and summed feature 7 (C18 : 1 ω9c/ω12t/ω7c) as the major cellular fatty acids. DNA–DNA relatedness data indicated that strain NO2T represents a distinct species that is separate from G. mesophila and G. polaris. On the basis of polyphasic evidence, it is proposed that strain NO2T (=KCTC 12755T=LMG 23762T) represents the type strain of a novel species, Glaciecola agarilytica sp. nov.

scholarly journals Luteimicrobium subarcticum gen. nov., sp. nov., a new member of the suborder Micrococcineae

2010 ◽  
Vol 60 (4) ◽  
pp. 796-800 ◽  
Author(s):  
Moriyuki Hamada ◽  
Misa Otoguro ◽  
Hideki Yamamura ◽  
Tomohiko Tamura ◽  
Ken-ichiro Suzuki ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Sequence Comparisons ◽  
Novel Genus And Species

A novel Gram-stain-positive bacterium, designated R19-04T, was isolated from a soil sample from Rishiri Island, Japan, and its taxonomic position was investigated by a polyphasic approach. Cells of strain R19-04T exhibited a rod–coccus cycle. The peptidoglycan type of the isolate was A4α; lysine was the diagnostic diamino acid. The predominant menaquinone was MK-8(H2) and the major fatty acid was anteiso-C15 : 0. The polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The DNA G+C content was 72.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that strain R19-04T represented a novel member of the suborder Micrococcineae. Its nearest phylogenetic neighbours were the members of the genus Oerskovia, with 16S rRNA gene sequence similarity of 97.0–97.1 %. However, strain R19-04T was clearly distinguishable from members of the genus Oerskovia and phylogenetically related genera in terms of chemotaxonomic characteristics. On the basis of the chemotaxonomic and phylogenetic characteristics, a novel genus and species are proposed, Luteimicrobium subarcticum gen. nov., sp. nov. The type strain of Luteimicrobium subarcticum is R19-04T (=NBRC 105647T =DSM 22413T).

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.

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