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).

scholarly journals Demequina activiva sp. nov., isolated from a tidal flat

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2042-2047 ◽  
Author(s):  
Sooyeon Park ◽  
Yong-Taek Jung ◽  
Sung-Min Won ◽  
Jung-Sook Lee ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
South Sea ◽  
Type Strains

A Gram-stain-positive, facultatively anaerobic, non-spore-forming, non-flagellated and rod-shaped or ovoid bacterial strain, designated BS-12MT, was isolated from a tidal flat sediment on the South Sea, South Korea. Strain BS-12MT grew optimally at 35 °C, at pH 7.0–8.0 and in the presence of 2.0 % (w/v) NaCl. The neighbour-joining phylogenetic tree based on 16S rRNA gene sequences revealed that strain BS-12MT fell within the cluster comprising the type strains of species of the genus Demequina, joining the type strain of Demequina aestuarii with which it shared the highest sequence similarity (98.6 %). It exhibited 16S rRNA gene sequence similarity of 96.1–97.9 % to the type strains of other species of the genus Demequina. The peptidoglycan type of strain BS-12MT was A4β based on l-Orn − l-Ser − d-Glu. Strain BS-12MT contained demethylmenaquinone-9(H4) as the major menaquinone and anteiso-C15:0 and C16:0 as the major fatty acids. The major polar lipids of strain BS-12MT were phosphatidylinositol and phosphatidylinositolmannoside. The DNA G+C content of strain BS-12MT was 70.7 mol% and its DNA–DNA relatedness values with the type strains of five phylogenetically related species of the genus Demequina were 15–34 %. Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain BS-12MT is separate from other species of the genus Demequina. On the basis of the data presented, strain BS-12MT is considered to represent a novel species of the genus Demequina, for which the name Demequina activiva sp. nov. is proposed. The type strain is BS-12MT ( = KCTC 29674T = NBRC 110675T).

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).

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 Gaetbulibacter aestuarii sp. nov., isolated from shallow coastal seawater, and emended description of the genus Gaetbulibacter

2012 ◽  
Vol 62 (1) ◽  
pp. 150-154 ◽  
Author(s):  
Seong Chan Park ◽  
Han Na Choe ◽  
Keun Sik Baik ◽  
Kang Hyun Lee ◽  
Chi Nam Seong
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Bacterium ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Emended Description ◽  
South Sea

A rod-shaped, yellow and strictly aerobic marine bacterium, designated KYW382T, was isolated from seawater collected from the South Sea, Republic of Korea. Cells were Gram-negative and catalase- and oxidase-positive. The major fatty acids were iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 0 3-OH, iso-C15 : 0 3-OH and anteiso-C15 : 0. The DNA G+C content was 32.4 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain KYW382T constituted an evolutionary lineage within the radiation enclosing the members of the genus Gaetbulibacter. The closest neighbour was Gaetbulibacter saemankumensis SMK-12T (96.1 % 16S rRNA gene sequence similarity). A number of phenotypic characteristics distinguished strain KYW382T from the described members of the genus Gaetbulibacter. On the basis of the data presented in this study, strain KYW382T represents a novel species, for which the name Gaetbulibacter aestuarii sp. nov. is proposed. The type strain is KYW382T ( = KCTC 23303T  = JCM 17455T). An emended description of the genus Gaetbulibacter is also given.

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.

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).

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