Bacillus hwajinpoensis sp. nov. and an unnamed Bacillus genomospecies, novel members of Bacillus rRNA group 6 isolated from sea water of the East Sea and the Yellow Sea in Korea

2004 ◽  
Vol 54 (3) ◽  
pp. 803-808 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
In-Gi Kim ◽  
Kook Hee Kang ◽  
Tae-Kwang Oh ◽  
Yong-Ha Park
Keyword(s):  
16S Rdna ◽  
Yellow Sea ◽  
Sea Water ◽  
Diaminopimelic Acid ◽  
East Sea ◽  
The Yellow Sea ◽  
Phenotypic Properties ◽  
Rdna Sequences ◽  
16S Rdna Sequences ◽  
Group 6

Two Gram-positive or -variable, endospore-forming, slightly halophilic strains (SW-72T and SW-93) were isolated from sea water of the East Sea and the Yellow Sea in Korea, respectively, and subjected to polyphasic taxonomic study. Both strains had cell-wall peptidoglycan that was based on meso-diaminopimelic acid and MK-7 as the predominant menaquinone. The two strains contained large amounts of saturated and branched fatty acids, with anteiso-C15 : 0 as the major fatty acid. The DNA G+C contents of strains SW-72T and SW-93 were 40·9 and 41·0 mol%, respectively. Phylogenetic analysis based on 16S rDNA sequences showed that strains SW-72T and SW-93 fall within the radiation of the cluster that comprises members of the genus Bacillus, particularly Bacillus rRNA group 6. There were five nucleotide differences between the 16S rDNA sequences of strains SW-72T and SW-93. The mean level of DNA–DNA relatedness between strains SW-72T and SW-93 was 21·5 %. Strains SW-72T and SW-93 showed 93·1–95·2 % 16S rDNA sequence similarity to the type strains of Bacillus species that are assigned to rRNA group 6. Strains SW-72T and SW-93 could not be differentiated clearly by using their phenotypic properties. On the basis of phenotypic properties, phylogeny and genomic data, it is proposed that strain SW-72T (=KCCM 41641T=JCM 11807T) should be placed in the genus Bacillus as the type strain of a novel species, Bacillus hwajinpoensis sp. nov., and that strain SW-93 (=KCCM 41640=JCM 11806) should be placed in the genus Bacillus as an unnamed Bacillus genomospecies.

scholarly journals Alteromonas litorea sp. nov., a slightly halophilic bacterium isolated from an intertidal sediment of the Yellow Sea in Korea

2004 ◽  
Vol 54 (4) ◽  
pp. 1197-1201 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Soo-Hwan Yeo ◽  
Tae-Kwang Oh ◽  
Yong-Ha Park
Keyword(s):  
16S Rdna ◽  
Phylogenetic Analyses ◽  
Halophilic Bacterium ◽  
The Yellow Sea ◽  
Intertidal Sediment ◽  
Phenotypic Properties ◽  
Rdna Sequences ◽  
16S Rdna Sequences ◽  
Slightly Halophilic Bacterium ◽  
Type Strains

A Gram-negative, motile, non-spore-forming, rod-shaped bacterium, designated strain TF-22T, was isolated from an intertidal sediment in Korea. This organism grew optimally at 30–37 °C and in the presence of 2–5 % (w/v) NaCl. It did not grow without NaCl or in the presence of more than 14 % (w/v) NaCl. Strain TF-22T was characterized chemotaxonomically as having ubiquinone-8 as the predominant respiratory lipoquinone and C16 : 0, C16 : 1 ω7c and/or iso-C15 : 0 2-OH and C18 : 1 ω7c as the major fatty acids. The DNA G+C content of strain TF-22T was 46·0 mol%. Phylogenetic analyses based on 16S rDNA sequences showed that strain TF-22T falls within the γ-subclass of the Proteobacteria and forms a coherent cluster with Alteromonas macleodii and Alteromonas marina. Levels of 16S rDNA similarity between strain TF-22T and the type strains of two Alteromonas species were in the range 98·1–98·6 %. The level of DNA–DNA relatedness between strain TF-22T and the type strains of two Alteromonas species was 15·7–18·5 %. Therefore, on the basis of phenotypic properties, phylogeny and genomic distinctiveness, strain TF-22T should be placed in the genus Alteromonas as a novel species, for which the name Alteromonas litorea sp. nov. is proposed. The type strain is TF-22T (=KCCM 41775T=JCM 12188T).

scholarly journals Shewanella gaetbuli sp. nov., a slight halophile isolated from a tidal flat in Korea

2004 ◽  
Vol 54 (2) ◽  
pp. 487-491 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Kook Hee Kang ◽  
Tae-Kwang Oh ◽  
Yong-Ha Park
Keyword(s):  
16S Rdna ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Phenotypic Properties ◽  
16S Rdna Sequence ◽  
Rdna Sequences ◽  
16S Rdna Sequences ◽  
Isoprenoid Quinones ◽  
Type Strains

A Gram-negative, motile, non-spore-forming, rod-shaped strain, TF-27T (=KCCM 41648T=JCM 11814T), was isolated from a tidal flat in Korea. This organism grew well at 25–35 °C, with optimum growth at 30 °C. Strain TF-27T grew optimally in the presence of 2 % NaCl; it did not grow without NaCl or in the presence of >8 % NaCl. Strain TF-27T simultaneously contained both menaquinones and ubiquinones as isoprenoid quinones. The predominant menaquinone was MK-7 and the predominant ubiquinones were Q-7 and Q-8. The major fatty acids in strain TF-27T were iso-C15 : 0 (20·6 %) and iso-C15 : 0 2-OH and/or C16 : 1 ω7c (21·1 %). The DNA G+C content of strain TF-27T was 42 mol%. Phylogenetic analyses based on 16S rDNA sequences showed that strain TF-27T falls within the radiation of the cluster that is encompassed by the genus Shewanella. Levels of 16S rDNA sequence similarity between strain TF-27T and the type strains of Shewanella species were 93·2–96·8 %. On the basis of phenotypic properties and phylogenetic data, strain TF-27T should be placed in the genus Shewanella as a novel species, for which the name Shewanella gaetbuli sp. nov. is proposed.

scholarly journals Nocardioides aquiterrae sp. nov., isolated from groundwater in Korea

2004 ◽  
Vol 54 (1) ◽  
pp. 71-75 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
In-Gi Kim ◽  
Kook Hee Kang ◽  
Tae-Kwang Oh ◽  
Yong-Ha Park
Keyword(s):  
Fatty Acid ◽  
16S Rdna ◽  
Type Strain ◽  
Cellular Fatty Acid ◽  
Major Fatty Acid ◽  
Diaminopimelic Acid ◽  
Phenotypic Characterization ◽  
Rdna Sequences ◽  
16S Rdna Sequences ◽  
Diamino Acid

A bacterial strain, GW-9T, which was isolated from groundwater in Korea, was subjected to a polyphasic taxonomic study using phenotypic characterization and phylogenetic and genetic methods. Phylogenetic analysis based on 16S rDNA sequences showed that strain GW-9T forms an evolutionary lineage within the radiation enclosing Nocardioides species and, in particular, a coherent cluster with Nocardioides pyridinolyticus. The cell-wall peptidoglycan type of strain GW-9T was based on ll-diaminopimelic acid as the diamino acid, indicating wall chemotype I. The predominant menaquinone was MK-8(H4). Strain GW-9T had a cellular fatty acid profile containing straight-chain, branched, unsaturated and 10-methyl fatty acids. The major fatty acid was iso-C16 : 0. The DNA G+C content of strain GW-9T was 73 mol%. The 16S rDNA of strain GW-9T was 99·2 % similar to that of the type strain of Nocardioides pyridinolyticus and 94·9–96·0 % similar to sequences of the type strains of other Nocardioides species. Differences in phenotypic characteristics and genetic distinctiveness indicate that strain GW-9T is separate from previously described Nocardioides species. Therefore, on the basis of the data presented, a novel species of the genus Nocardioides, Nocardioides aquiterrae sp. nov., is proposed. The type strain is strain GW-9T (=KCCM 41647T=JCM 11813T).

scholarly journals Sphingopyxis baekryungensis sp. nov., an orange-pigmented bacterium isolated from sea water of the Yellow Sea in Korea

2005 ◽  
Vol 55 (3) ◽  
pp. 1223-1227 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Choong-Hwan Lee ◽  
Soo-Hwan Yeo ◽  
Tae-Kwang Oh
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Yellow Sea ◽  
Sea Water ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Orange Pigment ◽  
Taxonomic Approach

A Gram-negative, motile, slightly halophilic bacterial strain, SW-150T, was isolated from sea water of the Yellow Sea, Korea, and was characterized by a polyphasic taxonomic approach. Strain SW-150T grew optimally at 25–30 °C and in the presence of 2 % (w/v) NaCl. The isolate could be distinguished from other Sphingopyxis species in producing an orange pigment. It contained ubiquinone-10 as the predominant respiratory lipoquinone and C18 : 1 ω7c and C17 : 1 ω6c as the major fatty acids. No 3-hydroxy fatty acids were detected. Major polar lipids were sphingoglycolipid, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content was 63 mol%. Comparative 16S rRNA gene sequence analyses showed that strain SW-150T was phylogenetically affiliated to the genus Sphingopyxis of the family Sphingomonadaceae. Similarity values between the 16S rRNA gene sequences of strain SW-150T and the type strains of Sphingopyxis species ranged from 91·6 to 94·2 %, making it possible to categorize strain SW-150T as a species that is separate from previously described Sphingopyxis species. On the basis of phenotypic properties and phylogenetic distinctiveness, SW-150T (=KCTC 12231T=DSM 16222T) should be classified as the type strain of a novel Sphingopyxis species, for which the name Sphingopyxis baekryungensis sp. nov. is proposed.

scholarly journals Microbulbifer maritimus sp. nov., isolated from an intertidal sediment from the Yellow Sea, Korea

2004 ◽  
Vol 54 (4) ◽  
pp. 1111-1116 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
In-Gi Kim ◽  
Tae-Kwang Oh ◽  
Yong-Ha Park
Keyword(s):  
16S Rdna ◽  
Yellow Sea ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Halophilic Bacterium ◽  
Major Fatty Acid ◽  
The Yellow Sea ◽  
Intertidal Sediment ◽  
Phenotypic Properties ◽  
Type Strains

A Gram-negative, rod-shaped, non-spore-forming, slightly halophilic bacterium (strain TF-17T) was isolated from an intertidal sediment from the Yellow Sea, Korea. Pigment of strain TF-17T was similar to that of Microbulbifer elongatus, but different from those of Microbulbifer hydrolyticus and Microbulbifer salipaludis. Strain TF-17T was distinguishable from M. elongatus by some phenotypic properties, including motility, optimal growth temperature and others. Phylogenetic analysis based on 16S rDNA sequences showed that strain TF-17T clustered with the type strains of the three Microbulbifer species with validly published names. Strain TF-17T exhibited 16S rDNA sequence similarity levels of 95·1–95·7 % to the type strains of the three Microbulbifer species. The predominant respiratory lipoquinone found in strain TF-17T was ubiquinone-8. The major fatty acid was iso-C15 : 0 and significant amounts of iso-C11 : 0 3-OH and iso-C17 : 1 ω9c were also present. The DNA G+C content of strain TF-17T was 59·9 mol%. Levels of DNA–DNA relatedness between strain TF-17T and the type strains of the three Microbulbifer species were in the range 10·0–13·0 %. On the basis of phenotypic and phylogenetic data and genotypic distinctiveness, strain TF-17T (=KCCM 41774T=JCM 12187T) is proposed as the type strain of a novel species of the genus Microbulbifer, Microbulbifer maritimus sp. nov.

scholarly journals Sphingopyxis flavimaris sp. nov., isolated from sea water of the Yellow Sea in Korea

2005 ◽  
Vol 55 (1) ◽  
pp. 369-373 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Yellow Sea ◽  
Sea Water ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Gene Sequence Analysis ◽  
Evolutionary Radiation ◽  
Type Strains

A Gram-negative, motile, yellow-pigmented, slightly halophilic bacterial strain, SW-151T, was isolated from sea water of the Yellow Sea in Korea, and subjected to a polyphasic taxonomic study. The isolate grew optimally at 30 °C and in the presence of 2–3 % NaCl. Strain SW-151T was characterized chemotaxonomically as having Q-10 as the predominant respiratory lipoquinone and C18 : 1 ω7c, C16 : 1 ω7c and/or iso-C15 : 0 2-OH and C17 : 1 ω6c as the major fatty acids. Sphingoglycolipid, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine were the major polar lipids. The DNA G+C content was 58 mol%. 16S rRNA gene sequence analysis showed that strain SW-151T joins the evolutionary radiation enclosed by the genus Sphingopyxis. Similarities between the 16S rRNA gene sequences of strain SW-151T and the type strains of Sphingopyxis species ranged from 92·3 to 94·3 %, which is low enough to categorize strain SW-151T as a species distinct from previously described Sphingopyxis species. On the basis of phenotypic properties and phylogenetic distinctiveness, strain SW-151T (=KCTC 12232T=DSM 16223T) should be classified as a novel Sphingopyxis species, for which the name Sphingopyxis flavimaris sp. nov. is proposed.

scholarly journals Marinicola seohaensis gen. nov., sp. nov., isolated from sea water of the Yellow Sea, Korea

2005 ◽  
Vol 55 (2) ◽  
pp. 859-863 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Choong-Hwan Lee ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
Yellow Sea ◽  
Phylogenetic Trees ◽  
Sea Water ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Distinct Evolutionary Lineage ◽  
Novel Genus And Species ◽  
Group Strain

A Gram-negative, non-flagellated, non-spore-forming and rod-shaped bacterial strain, SW-152T, was isolated from sea water of the Yellow Sea in Korea, and subjected to a polyphasic taxonomic study. Strain SW-152T grew optimally at 30 °C and in the presence of 2–3 % (w/v) NaCl. It contained MK-7 as the predominant menaquinone and iso-C15 : 0 and iso-C15 : 1 as the major fatty acids. Polar lipids detected in strain SW-152T were phosphatidylethanolamine, diphosphatidylglycerol and unidentified lipids. The DNA G+C content was 40·3 mol%. Phylogenetic trees based on 16S rRNA gene sequences exhibited that strain SW-152T forms a distinct evolutionary lineage within the Cytophaga–Flavobacterium–Bacteroides (CFB) group. Strain SW-152T exhibited low 16S rRNA similarity levels of less than 89·4 % to members belonging to the CFB group. Phenotypic properties of strain SW-152T differentiate it from phylogenetically related taxa. On the basis of phenotypic and phylogenetic data, strain SW-152T (=KCTC 12312T=JCM 12600T) was classified in a novel genus and species, Marinicola seohaensis gen. nov., sp. nov.

scholarly journals The phylogeny of the genusYersiniabased on 16S rDNA sequences

1993 ◽  
Vol 114 (2) ◽  
pp. 173-177 ◽  
Author(s):  
A. Ibrahim ◽  
B.M. Goebel ◽  
W. Liesack ◽  
M. Griffiths ◽  
E. Stackebrandt
Keyword(s):  
16S Rdna ◽  
Rdna Sequences ◽  
16S Rdna Sequences

scholarly journals Erythrobacter luteolus sp. nov., isolated from a tidal flat of the Yellow Sea in Korea

2005 ◽  
Vol 55 (3) ◽  
pp. 1167-1170 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Kook Hee Kang ◽  
Soo-Hwan Yeo ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Yellow Sea ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Major Fatty Acid ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties

A Gram-negative, non-spore-forming, yellow-pigmented, slightly halophilic bacterial strain, SW-109T, was isolated from a tidal flat of the Yellow Sea in Korea, and subjected to a polyphasic taxonomic study. This isolate did not produce bacteriochlorophyll a and contained ubiquinone-10 as the predominant respiratory lipoquinone and C18 : 1 ω7c as the major fatty acid. The DNA G+C content was 60·3 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain SW-109T is phylogenetically affiliated to the genus Erythrobacter of the family Sphingomonadaceae. Strain SW-109T exhibited levels of 16S rRNA gene sequence similarity to the type strains of Erythrobacter species of 94·0–96·3 %, making it possible to categorize strain SW-109T as a species that is separate from previously recognized Erythrobacter species. On the basis of its phenotypic properties and phylogenetic distinctiveness, SW-109T (=KCTC 12311T=JCM 12599T) was classified as the type strain of a novel Erythrobacter species, for which the name Erythrobacter luteolus sp. nov. is proposed.

Molecular Diversity of Microcystis Strains (Cyanophyceae, Chroococcales) Based on 16S rDNA Sequences

2000 ◽  
Vol 70 (2) ◽  
pp. 275 ◽  
Author(s):  
Claire Lepere ◽  
Annick Wilmotte ◽  
Barbara Meyer
Keyword(s):  
16S Rdna ◽  
Molecular Diversity ◽  
Rdna Sequences ◽  
16S Rdna Sequences
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