Tenacibaculum aestuarii sp. nov., isolated from a tidal flat sediment in Korea

2006 ◽  
Vol 56 (7) ◽  
pp. 1577-1581 ◽  
Author(s):  
Seo-Youn Jung ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
Total Fatty Acids

A novel Tenacibaculum-like bacterial strain, SMK-4T, was isolated from a tidal flat sediment in Korea. Strain SMK-4T was Gram-negative, pale yellow-pigmented and rod-shaped. It grew optimally at 30–37 °C and in the presence of 2–3 % (w/v) NaCl. It contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C16 : 0 3-OH and C16 : 1 ω7c and/or iso-C15 : 0 2-OH as the major fatty acids (>10 % of total fatty acids). The DNA G+C content was 33.6 mol%. Phylogenetic trees based on 16S rRNA gene sequences showed that strain SMK-4T fell within the evolutionary radiation encompassed by the genus Tenacibaculum. Strain SMK-4T exhibited 16S rRNA gene sequence similarity levels of 95.2–98.6 % with respect to the type strains of recognized Tenacibaculum species. DNA–DNA relatedness levels and differential phenotypic properties made it possible to categorize strain SMK-4T as a species that is separate from previously described Tenacibaculum species. On the basis of phenotypic properties and phylogenetic and genetic distinctiveness, strain SMK-4T (=KCTC 12569T=JCM 13491T) should be classified as a novel Tenacibaculum species, for which the name Tenacibaculum aestuarii sp. nov. is proposed.

scholarly journals Photobacterium lutimaris sp. nov., isolated from a tidal flat sediment in Korea

2007 ◽  
Vol 57 (2) ◽  
pp. 332-336 ◽  
Author(s):  
Seo-Youn Jung ◽  
Yong-Taek Jung ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
Evolutionary Radiation ◽  
Type Strains

A Gram-negative, motile, pale-yellow-pigmented, oval-shaped bacterial strain, DF-42T, was isolated from a tidal flat sediment in Korea. Strain DF-42T grew optimally at 25–30 °C and in the presence of 2–3 % (w/v) NaCl. It contained Q-8 as the predominant ubiquinone and C16 : 0, C18 : 1 ω7c and summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH) as the major fatty acids. The DNA G+C content was 48.3 mol%. Phylogenetic trees based on 16S rRNA gene sequences showed that strain DF-42T falls within the evolutionary radiation enclosed by the genus Photobacterium. Strain DF-42T exhibited 16S rRNA gene sequence similarity values of 93.8–97.9 % to the type strains of Photobacterium species with validly published names. DNA–DNA relatedness data and differential phenotypic properties made it possible to categorize strain DF-42T as representing a species that is separate from previously described Photobacterium species. The name Photobacterium lutimaris sp. nov. is proposed, with strain DF-42T (=KCTC 12723T=JCM 13586T) as the type strain.

Kangiella sediminilitoris sp. nov., isolated from a tidal flat sediment

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 1001-1006 ◽  
Author(s):  
Soo-Young Lee ◽  
Sooyeon Park ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment

A Gram-stain-negative, non-motile, non-spore-forming, rod-shaped bacterial strain, BB-Mw22T, was isolated from a tidal flat sediment of the South Sea in South Korea. It grew optimally at 30–37 °C, at pH 7.0–7.5 and in the presence of 2–3 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain BB-Mw22T belonged to the genus Kangiella and the cluster comprising Kangiella species and strain BB-Mw22T was clearly separated from other taxa. Strain BB-Mw22T exhibited 95.3–98.7 % 16S rRNA gene sequence similarity to the type strains of recognized Kangiella species. Strain BB-Mw22T contained Q-8 as the predominant ubiquionone and iso-C15 : 0 and iso-C11 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine and one unidentified aminolipid. The DNA G+C content of strain BB-Mw22T was 48.9 mol%, and its mean DNA–DNA hybridization values with Kangiella geojedonensis YCS-5T, Kangiella japonica JCM 16211T and Kangiella taiwanensis JCM 17727T were 14–28 %. Phylogenetic and genetic distinctiveness and differential phenotypic properties revealed that strain BB-Mw22T is distinguishable from all recognized Kangiella species. On the basis of the data presented, strain BB-Mw22T is considered to represent a novel species of the genus Kangiella , for which the name Kangiella sediminilitoris sp. nov. is proposed. The type strain is BB-Mw22T ( = KCTC 23892T  = CCUG 62217T).

scholarly journals Algoriphagus aestuarii sp. nov., a member of the Cyclobacteriaceae isolated from a tidal-flat sediment of the Yellow Sea in Korea

2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3439-3446 ◽  
Author(s):  
Yong-Taek Jung ◽  
Jung-Sook Lee ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
The Mean ◽  
Type Strains

A Gram-strain-negative, coccoid or oval-shaped, non-motile bacterial strain, designated MDM-1T, was isolated from a tidal-flat sediment on the Korean peninsula. Strain MDM-1T was found to grow optimally at pH 7.0–8.0, at 30 °C and in the presence of 2–3 % (w/v) NaCl. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain MDM-1T falls within the clade comprising species of the genus Algoriphagus, clustering with the type strains of Algoriphagus halophilus, A. lutimaris, A. chungangensis and A. machipongonensis, with which it exhibited 97.2–98.5 % 16S rRNA gene sequence similarity. Sequence similarities to the type strains of the other recognized species of the genus Algoriphagus were 92.8–97.6 %. Strain MDM-1T was found to contain MK-7 as the predominant menaquinone and iso-C15 : 0 and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) as the major fatty acids. The major polar lipids were identified as phosphatidylcholine, phosphatidylethanolamine and two unidentified lipids. The DNA G+C content of strain MDM-1T was determined to be 42.7 mol% and the mean DNA–DNA relatedness with A. halophilus KCTC 12051T, A. lutimaris S1-3T, A. chungangensis KCTC 23759T, A. machipongonensis DSM 24695T and A. ratkowskyi CIP 107452T was 19.7–5.2 %. Differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strain MDM-1T is distinguishable from recognized species of the genus Algoriphagus. On the basis of the data presented, strain MDM-1T is proposed to represent a novel species of the genus Algoriphagus, for which the name Algoriphagus aestuarii sp. nov. is proposed. The type strain is MDM-1T ( = KCTC 42199T = NBRC 110552T).

scholarly journals Aestuariivita boseongensis gen. nov., sp. nov., isolated from a tidal flat sediment

2014 ◽  
Vol 64 (Pt_9) ◽  
pp. 2969-2974 ◽  
Author(s):  
Sooyeon Park ◽  
Sung-Min Won ◽  
Hyangmi Kim ◽  
Doo-Sang Park ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment

A Gram-stain-negative, aerobic, non-motile and coccoid, ovoid or rod-shaped bacterial strain, BS-B2T, which was isolated from a tidal flat sediment at Boseong in South Korea, was characterized taxonomically. Strain BS-B2T grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 2.0 % (w/v) NaCl. The novel strain exhibited highest 16S rRNA gene sequence similarity (97.4 %) to Marivita geojedonensis DPG-138T. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences revealed that strain BS-B2T is closely related to Primorskyibacter sedentarius KMM 9018T, showing 96.5 % sequence similarity. Strain BS-B2T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the predominant fatty acid. The polar lipid profile of strain BS-B2T comprised phosphatidylcholine, phosphatidylglycerol, one unidentified aminolipid and one unidentified lipid as major components, and differentiated it from the type strains of P. sedentarius and M. geojedonensis . The DNA G+C content of strain BS-B2T was 62.2 mol%. Differential phenotypic properties, together with the phylogenetic and chemotaxonomic data, demonstrated that strain BS-B2T can be distinguished from phylogenetically related genera as well as P. sedentarius and M. geojedonensis . On the basis of the data presented, strain BS-B2T is considered to represent a novel species of a new genus, for which the name Aestuariivita boseongensis gen. nov., sp. nov. is proposed. The type strain of Aestuariivita boseongensis is BS-B2T ( = KCTC 42052T = CECT 8532T).

scholarly journals Lutibacter maritimus sp. nov., isolated from a tidal flat sediment

2010 ◽  
Vol 60 (3) ◽  
pp. 610-614 ◽  
Author(s):  
Sooyeon Park ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
Gram Staining ◽  
Taxonomic Approach

A Gram-staining-negative, aerobic, non-motile, non-gliding, yellow-pigmented and rod-shaped bacterial strain, designated S7-2T, was isolated from a tidal flat sediment at Saemankum on the west coast of Korea and investigated using a polyphasic taxonomic approach. Strain S7-2T grew optimally at pH 7.0–8.0, at 25–30 °C and in the presence of 2 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain S7-2T clustered with Lutibacter litoralis CF-TF09T, a member of the family Flavobacteriaceae, with which it showed 95.8 % 16S rRNA gene sequence similarity. It contained MK-6 as the predominant menaquinone and iso-C15 : 0 and C15 : 1 ω6c as the major fatty acids. The major polar lipids of strain S7-2T and L. litoralis JCM 13034T were phosphatidylethanolamine and three unidentified lipids. The DNA G+C content was 34.6 mol%. Differential phenotypic properties and phylogenetic distinctiveness suggested that strain S7-2T represents a novel species of the genus Lutibacter, for which the name Lutibacter maritimus sp. nov. is proposed. The type strain is S7-2T (=KCTC 22635T=CCUG 57524T).

scholarly journals Jannaschia seohaensis sp. nov., isolated from a tidal flat sediment

2010 ◽  
Vol 60 (1) ◽  
pp. 191-195 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Sooyeon Park ◽  
Ki-Hoon Oh ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
The Mean ◽  
Type Strains

A Gram-negative, motile and pleomorphic bacterial strain, SMK-146T, was isolated from a tidal flat sediment of the Yellow Sea, Korea, and its taxonomic position was investigated. Strain SMK-146T grew optimally at pH 7.0–8.0 and 30 °C. It contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and 11-methyl C18 : 1 ω7c as the major fatty acids. The major polar lipids were phosphatidylcholine, phosphatidylglycerol and phosphatidylethanolamine. The DNA G+C content was 68.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain SMK-146T belongs to the genus Jannaschia. Strain SMK-146T exhibited 16S rRNA gene sequence similarity values of 95.3–97.0 % to the type strains of the five recognized Jannaschia species. The mean DNA–DNA relatedness value between strain SMK-146T and Jannaschia seosinensis KCCM 42114T, the closest phylogenetic neighbour, was 17 %. Differential phenotypic properties also revealed that strain SMK-146T differs from the recognized Jannaschia species. On the basis of phenotypic, phylogenetic and genetic data, strain SMK-146T represents a novel species of the genus Jannaschia, for which the name Jannaschia seohaensis sp. nov. is proposed. The type strain is SMK-146T (=KCTC 22172T =CCUG 55326T).

Pseudoruegeria lutimaris sp. nov., isolated from a tidal flat sediment, and emended description of the genus Pseudoruegeria

2010 ◽  
Vol 60 (5) ◽  
pp. 1177-1181 ◽  
Author(s):  
Yong-Taek Jung ◽  
Bong-Hee Kim ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
The Mean

A Gram-negative-staining, non-motile and rod-shaped bacterial strain, HD-43T, was isolated from a tidal flat sediment collected from Hwang-do, an island of Korea. Strain HD-43T grew optimally at pH 7.0–8.0, at 30 °C and in the presence of 2 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain HD-43T clustered with Pseudoruegeria aquimaris SW-255T. It exhibited 96.6 % 16S rRNA gene sequence similarity and 79.4 % gyrB sequence similarity with P. aquimaris SW-255T. Strain HD-43T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c as the major fatty acid. The major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, an unidentified aminolipid, an unidentified glycolipid and an unidentified lipid. The DNA G+C content was 73.5 mol%. The mean DNA–DNA relatedness between strain HD-43T and P. aquimaris SW-255T was 5 %. Differential phenotypic properties demonstrated that strain HD-43T is clearly distinguishable from P. aquimaris. On the basis of phenotypic, chemotaxonomic and phylogenetic data, strain HD-43T is considered to represent a novel species of the genus Pseudoruegeria, for which the name Pseudoruegeria lutimaris sp. nov. is proposed. The type strain is HD-43T (=KCTC 22690T =CCUG 57754T).

scholarly journals Salinimicrobium gaetbulicola sp. nov., isolated from tidal flat sediment

2012 ◽  
Vol 62 (Pt_5) ◽  
pp. 1027-1031 ◽  
Author(s):  
Soo-Young Lee ◽  
Sooyeon Park ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Tidal Flat Sediment

A Gram-stain-negative, aerobic, non-flagellated, non-gliding and short rod- or rod-shaped bacterial strain, designated BB-My20T, was isolated from tidal flat sediment taken from the southern coast of Korea. Strain BB-My20T grew optimally at 37 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. A phylogenetic tree based on 16S rRNA gene sequences showed that strain BB-My20T fell within the clade comprising Salinimicrobium species, joining Salinimicrobium catena HY1T, with which it had a 16S rRNA gene sequence similarity value of 97.4 %. It exhibited 95.4–96.9 % sequence similarity to the type strains of other members of the genus Salinimicrobium . Strain BB-My20T contained MK-6 as the predominant menaquinone and iso-C15 : 0, anteiso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids detected in strain BB-My20T and S. catena JCM 14015T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content of strain BB-My20T was 45.1 mol% and its mean DNA–DNA relatedness value with S. catena JCM 14015T was 4.5 %. Differential phenotypic properties, together with its phylogenetic and genetic distinctiveness, revealed that strain BB-My20T can be distinguished from the four recognized species of the genus Salinimicrobium . On the basis of the data presented, strain BB-My20T is considered to represent a novel species of the genus Salinimicrobium , for which the name Salinimicrobium gaetbulicola sp. nov. is proposed; the type strain is BB-My20T ( = KCTC 23579T = CCUG 60898T).

scholarly journals Roseivivax lentus sp. nov., isolated from a tidal flat sediment, and emended description of the genus Roseivivax Suzuki et al. 1999

2010 ◽  
Vol 60 (5) ◽  
pp. 1113-1117 ◽  
Author(s):  
Sooyeon Park ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
Emended Description ◽  
The 16S Rrna Gene

A Gram-negative-staining, aerobic, non-motile and rod-shaped bacterial strain, S5-5T, was isolated from a tidal flat sediment at Saemankum on the west coast of Korea and subjected to a polyphasic taxonomic investigation. Strain S5-5T grew optimally at pH 7.5–8.0, at 30 °C and in the presence of 2 % (w/v) NaCl. It did not produce bacteriochlorophyll a. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain S5-5T is phylogenetically closely related to the genus Roseivivax, joining the cluster comprising the two recognized Roseivivax species. The 16S rRNA gene sequence similarity between strain S5-5T and members of the genus Roseivivax was in the range 95.0–96.7 %. Strain S5-5T contained Q-10 as the predominant ubiquinone and C18 : 1 ω7c and 11-methyl C18 : 1 ω7c as the major fatty acids. The DNA G+C content was 68.2 mol%. Differential phenotypic properties, together with the phylogenetic distinctiveness, demonstrated that strain S5-5T could be differentiated from Roseivivax species. On the basis of the data presented, strain S5-5T is considered to represent a novel species of the genus Roseivivax, for which the name Roseivivax lentus sp. nov. is proposed. The type strain is S5-5T (=KCTC 22708T =CCUG 57755T).

Lutibacter aestuarii sp. nov., isolated from a tidal flat sediment, and emended description of the genus Lutibacter Choi and Cho 2006

2012 ◽  
Vol 62 (2) ◽  
pp. 420-424 ◽  
Author(s):  
Soo-Young Lee ◽  
Mi-Hwa Lee ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Tidal Flat Sediment ◽  
Emended Description ◽  
South Sea

A Gram-negative, non-spore-forming, non-motile rod, designated MA-My1T, was isolated from a tidal flat sediment of the South Sea, Korea. Strain MA-My1T grew optimally at pH 7.0–7.5, at 30 °C and with 2.0–3.0 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain MA-My1T clustered with Lutibacter litoralis CL-TF09T and Lutibacter maritimus S7-2T, with which it exhibited 97.3 and 95.3 % 16S rRNA gene sequence similarity, respectively. Strain MA-My1T contained MK-6 as the predominant menaquinone and iso-C15 : 0, iso-C15 : 0 3-OH and iso-C16 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylethanolamine and two unidentified lipids. The DNA G+C content was 30.6 mol% and DNA–DNA relatedness between strain MA-My1T and L. litoralis JCM 13034T was 6.3±0.8 %. The differential phenotypic properties, together with phylogenetic and genotypic distinctiveness, distinguished strain MA-My1T from the members of the genus Lutibacter. On the basis of the data presented, strain MA-My1T is considered to represent a novel species of the genus Lutibacter, for which the name Lutibacter aestuarii sp. nov. is proposed. The type strain is MA-My1T ( = KCTC 23499T  = CCUG 60022T).

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