scholarly journals Phaeobacter aquaemixtae sp. nov., isolated from the junction between the ocean and a freshwater spring

2014 ◽  
Vol 64 (Pt_4) ◽  
pp. 1378-1383 ◽  
Author(s):  
Sooyeon Park ◽  
Doo-Sang Park ◽  
Kyung Sook Bae ◽  
Jung-Hoon Yoon
Keyword(s):  
Type Species ◽  
Phylogenetic Trees ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Freshwater Spring ◽  
Type Strains ◽  
Sequence Similarities

A Gram-reaction-negative, aerobic, non-spore-forming, non-motile and rod-shaped or ovoid bacterial strain, designated SSK6-1T, was isolated from the zone where the ocean and a freshwater spring meet at Jeju island, South Korea. Strain SSK6-1T grew optimally at 30 °C, at pH 7.0–7.5 and in the presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain SSK6-1T clustered with Phaeobacter daeponensis TF-218T and Phaeobacter caeruleus LMG 24369T, exhibiting sequence similarities of 98.6 and 98.3 %, respectively. The novel strain exhibited sequence similarities of 94.6–97.8 % to the type strains of other recognized species of the genera Phaeobacter and Leisingera . Strain SSK6-1T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c and 11-methyl C18 : 1ω7c as the major fatty acids. The major polar lipids of strain SSK6-1T were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid. The DNA G+C content of strain SSK6-1T was 64.6 mol% and its DNA–DNA relatedness values with P. daeponensis TF-218T and P. caeruleus were 21 and 25 %, respectively. The differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain SSK6-1T is separate from recognized Phaeobacter species. On the basis of the data presented, strain SSK6-1T is considered to represent a novel species of the genus Phaeobacter , for which the name Phaeobacter aquaemixtae sp. nov. is proposed. The type strain is SSK6-1T ( = KCTC 32538T = CECT 8399T).

Vitellibacter soesokkakensis sp. nov., isolated from the junction between the ocean and a freshwater spring and emended description of the genus Vitellibacter

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 588-593 ◽  
Author(s):  
Sooyeon Park ◽  
Ken-Chul Lee ◽  
Kyung Sook Bae ◽  
Jung-Hoon Yoon
Keyword(s):  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Emended Description ◽  
Freshwater Spring ◽  
Type Strains ◽  
Sequence Similarities

A Gram-stain-negative, aerobic, non-spore-forming, non-flagellated, motile by gliding and rod-shaped bacterial strain, RSSK-12T, was isolated from the zone where the ocean and a freshwater spring meet at Jeju island, South Korea. Strain RSSK-12T grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 2.0–3.0 % (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences revealed that strain RSSK-12T clustered with the type strains of two Vitellibacter species, with which it exhibited 94.8–96.9 % sequence similarity. Sequence similarities to the type strains of species of the genus Aequorivita and of other recognized species were 94.7–95.5 % and less than 91.9 %, respectively. Strain RSSK-12T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids of strain RSSK-12T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content of strain RSSK-12T was 38.9 mol%. Differential phenotypic properties, together with phylogenetic distinctiveness, revealed that strain RSSK-12T is separate from other Vitellibacter species. On the basis of the data presented, strain RSSK-12T is considered to represent a novel species of the genus Vitellibacter , for which the name Vitellibacter soesokkakensis sp. nov. is proposed. The type strain is RSSK-12T ( = KCTC 32536T = CECT 8398T).

scholarly journals Sulfitobacter undariae sp. nov., isolated from a brown algae reservoir

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1672-1678 ◽  
Author(s):  
Sooyeon Park ◽  
Yong-Taek Jung ◽  
Sung-Min Won ◽  
Ji-Min Park ◽  
Jung-Hoon Yoon
Keyword(s):  
Brown Algae ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, aerobic, non-spore-forming, non-flagellated and coccoid, ovoid or rod-shaped bacterial strain, W-BA2T, was isolated from a brown algae reservoir in Wando of South Korea. Strain W-BA2T grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of approximately 2.0–3.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain W-BA2T fell within the clade comprising the type strains of species of the genus Sulfitobacter , clustering coherently with the type strains of Sulfitobacter donghicola and Sulfitobacter guttiformis showing sequence similarity values of 98.0–98.1 %. Sequence similarities to the type strains of the other species of the genus Sulfitobacter were 96.0–97.4 %. Strain W-BA2T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. The major polar lipids of strain W-BA2T were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid. The DNA G+C content of strain W-BA2T was 55.0 mol% and its DNA–DNA relatedness values with the type strains of Sulfitobacter donghicola , Sulfitobacter guttiformis and Sulfitobacter mediterraneus were 16–23 %. The differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strain W-BA2T is separated from other species of the genus Sulfitobacter . On the basis of the data presented, strain W-BA2T is considered to represent a novel species of the genus Sulfitobacter , for which the name Sulfitobacter undariae sp. nov. is proposed. The type strain is W-BA2T ( = KCTC 42200T = NBRC 110523T).

scholarly journals Streptomyces herbaceus sp. nov., Streptomyces incanus sp. nov. and Streptomyces pratens sp. nov., isolated from the soil of a hay meadow

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1908-1913 ◽  
Author(s):  
Byung-Yong Kim ◽  
Xiaoying Rong ◽  
Tiago D. Zucchi ◽  
Avinash N. V. Bonda ◽  
Ying Huang ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Morphological Properties ◽  
Rrna Gene ◽  
The Novel ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Respective Type ◽  
Type Strains

The taxonomic positions of three streptomycetes isolated from a soil sample from a hay meadow were determined using a polyphasic approach. The isolates had chemical and morphological properties typical of the genus Streptomyces and, in phylogenetic analyses based on 16S rRNA gene sequences, formed a distinct subclade that was most closely related to the Streptomyces prasinus subclade. DNA–DNA relatedness studies showed that the novel strains belonged to three different genomic species. The novel strains could be distinguished from one another and from the type strains of the species classified in the S. prasinus subclade using a combination of genotypic and phenotypic properties. On the basis of these data, it is proposed that the novel strains be assigned to the genus Streptomyces as Streptomyces herbaceus sp. nov., Streptomyces incanus sp. nov. and Streptomyces pratens sp. nov., with BK119T ( = KACC 21001T  = CGMCC 4.5797T), BK128T ( = KACC 21002T  = CGMCC 4.5799T) and BK138T ( = KACC 20904T  = CGMCC 4.5800T) as the respective type strains.

Roseovarius sediminilitoris sp. nov., isolated from seashore sediment

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1741-1745 ◽  
Author(s):  
Sooyeon Park ◽  
Jung-Hoon Yoon
Keyword(s):  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type ◽  
South Sea ◽  
Type Strains

A Gram-negative, motile and ovoid- to rod-shaped bacterial strain, designated M-M10T, was isolated from a seashore sediment collected from the South Sea, South Korea. Strain M-M10T grew optimally at pH 7.0–8.0, at 30 °C and in the presence of 2 % (w/v) NaCl. The phylogenetic trees based on 16S rRNA gene sequences revealed that strain M-M10T clustered with the type strains of Roseovarius crassostreae , Roseovarius halocynthiae and Roseovarius marinus , with which it exhibited sequence similarities of 97.4, 97.3 and 95.1 %, respectively. It exhibited 93.2–95.1 % sequence similarity to the type strains of the other species of the genus Roseovarius . Strain M-M10T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c and C16 : 0 as the major fatty acids, as observed in the genus Roseovarius . The polar lipid profile of strain M-M10T was similar to that of Roseovarius tolerans DSM 11457T. The DNA G+C content of strain M-M10T was 63.0 mol% and its mean DNA–DNA relatedness values with Roseovarius crassostreae DSM 16950T and Roseovarius halocynthiae MA1-10T were 16 % and 22 %, respectively. Differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, demonstrated that strain M-M10T is distinct from other species of the genus Roseovarius . On the basis of the data presented, strain M-M10T is considered to represent a novel species of the genus Roseovarius , for which the name Roseovarius sediminilitoris sp. nov. is proposed. The type strain is M-M10T ( = KCTC 23959T = CCUG 62413T).

scholarly journals Simiduia curdlanivorans sp. nov., a curdlan-degrading bacterium isolated from the junction between the ocean and a freshwater spring, and emended description of the genus Simiduia

2014 ◽  
Vol 64 (Pt_11) ◽  
pp. 3695-3700 ◽  
Author(s):  
Sooyeon Park ◽  
Soo-In Kim ◽  
Yong-Taek Jung ◽  
Jung-Hoon Yoon
Keyword(s):  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Degrading Bacterium ◽  
Emended Description ◽  
Freshwater Spring

A Gram-stain-negative, aerobic, non-spore-forming, non-flagellated and rod-shaped bacterial strain, designated DMCK3-4T, was isolated from the zone where the ocean and a freshwater spring meet at Jeju island, South Korea. Strain DMCK3-4T grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain DMCK3-4T clustered with the strains of three members of the genus Simiduia , with which it exhibited 97.0–99.0 % sequence similarity. Sequence similarities to the type strains of the other species with validly published names were less than 92.2 %. Strain DMCK3-4T contained Q-8 as the predominant ubiquinone and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C17 : 1ω8c, C16 : 0, C17 : 0 and C18 : 1ω7c as the major fatty acids. The major polar lipids of strain DMCK3-4T were phosphatidylethanolamine, phosphatidylglycerol, two unidentified glycolipids, one unidentified lipid and one unidentified aminolipid. The DNA G+C content of strain DMCK3-4T was 51.8 mol% and its mean DNA–DNA relatedness values with Simiduia agarivorans KCTC 23176T, Simiduia areninigrae KCTC 23293T and Simiduia litorea NRIC 0917T were 23–34 %, respectively. The differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, revealed that strain DMCK3-4T is distinct from other species of the genus Simiduia . On the basis of the data presented, strain DMCK3-4T is considered to represent a novel species of the genus Simiduia , for which the name Simiduia curdlanivorans sp. nov. is proposed. The type strain is DMCK3-4T ( = KCTC 42075T = CECT 8570T). An emended description of the genus Simiduia is also proposed.

scholarly journals Altererythrobacter aestiaquae sp. nov., isolated from seawater

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 3943-3949 ◽  
Author(s):  
Yong-Taek Jung ◽  
Sooyeon Park ◽  
Jung-Sook Lee ◽  
Jung-Hoon Yoon
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, coccoid- or oval-shaped, gliding bacterial strain, designated HDW-31T, belonging to the class Alphaproteobacteria , was isolated from seawater of the Yellow Sea, Korea, and was subjected to a taxonomic study using a polyphasic approach. Strain HDW-31T grew optimally at pH 7.0–8.0, at 30 °C and in the presence of 2–3 % (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences showed that strain HDW-31T fell within the clade comprising the genus Altererythrobacter , clustering with the type strains of Altererythrobacter luteolus and Altererythrobacter gangjinensis , with which strain HDW-31T exhibited 97.0 and 96.0 % sequence similarity values, respectively. Sequence similarities to the type strains of the other recognized species of the genus Altererythrobacter were 93.5–96.0 %. The DNA G+C content was 57.9 mol% and mean DNA–DNA relatedness between strain HDW-31T and the type strain of A. luteolus was 5.3 %. Strain HDW-31T contained Q-10 as the predominant ubiquinone and summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c), summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c) and C16 : 0 as the major fatty acids. The major polar lipids were phosphatidylcholine, phosphatidylglycerol, phosphatidylethanolamine, a sphingoglycolipid, two unidentified glycolipids and an unidentified lipid. Differential phenotypic properties, together with the phylogenetic and genetic distinctiveness, demonstrated that strain HDW-31T is distinguishable from recognized species of the genus Altererythrobacter . On the basis of the data presented, strain HDW-31T is considered to represent a novel species of the genus Altererythrobacter , for which the name Altererythrobacter aestiaquae sp. nov. is proposed. The type strain is HDW-31T ( = KCTC 42006T = CECT 8527T).

Octadecabacter jejudonensis sp. nov., isolated from the junction between the ocean and a freshwater spring and emended description of the genus Octadecabacter

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 719-724 ◽  
Author(s):  
Sooyeon Park ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Freshwater Spring

A Gram-stain-negative, non-spore-forming, non-flagellated, rod-shaped bacterial strain, SSK2-1T, was isolated from the zone where the ocean and a freshwater spring meet at Jeju island, South Korea, and subjected to a polyphasic taxonomic study. Strain SSK2-1T grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 2.0 % (w/v) NaCl. Neighbour-joining, maximum-likelihood and maximum-parsimony phylogenetic trees based on 16S rRNA gene sequences revealed that strain SSK2-1T clustered with the type strains of two Octadecabacter species, showing 96.5–96.8 % 16S rRNA gene sequence similarity. Strain SSK2-1T and Octadecabacter arcticus DSM 13978T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the common major fatty acid. The polar lipid profile of strain SSK2-1T was similar to that of O. arcticus DSM 13978T by having phosphatidylcholine, phosphatidylglycerol and one unidentified aminolipid as the major components. The DNA G+C content of strain SSK2-1T was 60.1 mol%. Differential phenotypic properties, particularly temperature range for growth, oxidase activity and nitrate reduction, together with phylogenetic distinctiveness, revealed that strain SSK2-1T is separate from recognized species of the genus Octadecabacter . On the basis of the data presented, strain SSK2-1T is considered to represent a novel species of the genus Octadecabacter , for which the name Octadecabacter jejudonensis sp. nov. is proposed. The type strain is SSK2-1T ( = KCTC 32535T = CECT 8397T).

scholarly journals Gramella aestuariivivens sp. nov., isolated from a tidal flat

2015 ◽  
Vol 65 (Pt_4) ◽  
pp. 1262-1267 ◽  
Author(s):  
Ji-Min Park ◽  
Sooyeon Park ◽  
Sung-Min Won ◽  
Yong-Taek Jung ◽  
Kee-Sun Shin ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, aerobic, non-spore-forming, non-flagellated and rod-shaped or ovoid bacterial strain, designated BG-MY13T, was isolated from a tidal flat sediment on the South Sea, South Korea. Strain BG-MY13T grew optimally at 30–35 °C, at pH 7.0–8.0 and in the presence of 2.0–3.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain BG-MY13T falls within the cluster comprising the type strains of species of the genus Gramella . Strain BG-MY13T exhibited 16S rRNA gene sequ4ence similarity values of 96.9–97.8 % to the type strains of Gramella echinicola , Gramella gaetbulicola , Gramella portivictoriae and Gramella marina and of 94.6–96.5 % to the type strains of other species of the genus Gramella with validly published names. Strain BG-MY13T contained MK-6 as the predominant menaquinone and iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content of strain BG-MY13T was 38.9 mol% and DNA–DNA relatedness values with the type strains of G. echinicola , G. gaetbulicola , G. portivictoriae and G. marina were 12–23 %. The differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain BG-MY13T is separated from other species of the genus Gramella . On the basis of the data presented, strain BG-MY13T is considered to represent a novel species of the genus Gramella , for which the name Gramella aestuariivivens sp. nov. is proposed. The type strain is BG-MY13T ( = KCTC 42285T = NBRC 110677T).

scholarly journals Pseudomonas baetica sp. nov., a fish pathogen isolated from wedge sole, Dicologlossa cuneata (Moreau)

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 874-882 ◽  
Author(s):  
Jose R. López ◽  
Ana L. Diéguez ◽  
Alejandra Doce ◽  
Elena De la Roca ◽  
Roberto De la Herran ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Related Species ◽  
Type Species ◽  
Novel Species ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Type Strains ◽  
Sequence Similarities

Five Gram-negative bacterial isolates, recovered from an outbreak that occurred in March 2006 in Huelva, Spain, affecting adult diseased cultured wedge sole [Dicologlossa cuneata (Moreau)], were characterized phenotypically and genotypically in order to clarify their taxonomic position. On the basis of 16S rRNA gene sequence analysis, the isolates were included in the genus Pseudomonas , within the Pseudomonas fluorescens -related species group, their closest relatives being the Pseudomonas jessenii and Pseudomonas koreensis subgroups. The highest sequence similarities were recorded with the type strains of Pseudomonas reinekei , P. moorei , P. umsongensis , P. jessenii and P. mohnii (99.4–99.3 % similarity). Sequence analysis of the housekeeping genes gyrB and rpoD clearly differentiated the isolates from currently described Pseudomonas species, the highest sequence similarities recorded to type strains being below 95 % for both genes. Phylogenetic analysis using concatenated sequences of the three genes showed Pseudomonas moraviensis DSM 16007T and P. koreensis DSM 16610T as the closest reference strains. DNA–DNA hybridization assays with related strains confirmed that these isolates belong to a novel species of the genus Pseudomonas , for which the name Pseudomonas baetica sp. nov. is proposed. The type strain is strain a390T ( = CECT 7720T  = LMG 25716T). The novel species could be easily distinguished from phylogenetically related species by several phenotypic characteristics, including gelatin hydrolysis, acid production from glucose and growth at 6 % NaCl. Virulence assays revealed that the novel species is pathogenic for wedge sole.

Algibacter wandonensis sp. nov., isolated from sediment around a brown algae (Undaria pinnatifida) reservoir

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4771-4776 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Sooyeon Park
Keyword(s):  
Brown Algae ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A Gram-stain-negative, non-flagellated, rod-shaped bacterial strain able to move by gliding, designated WS-MY22T, was isolated from sediment around a brown algae reservoir located on Wando in South Korea. It grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences showed that strain WS-MY22T clustered coherently with the type strains of Algibacter lectus and Algibacter undariae . It exhibited sequence similarity of 99.4 and 98.9 % to the type strains of A. lectus and A. undariae , respectively, and of 95.1–96.6 % to those of the other species of the genus Algibacter . Strain WS-MY22T contained MK-6 as the predominant menaquinone and iso-C15 : 1 G and iso-C17 : 0 3-OH as the major fatty acids. The major polar lipids of strain WS-MY22T were phosphatidylethanolamine and two unidentified lipids. The DNA G+C content of strain WS-MY22T was 35.8 mol% and its DNA–DNA relatedness with A. lectus KCTC 12103T and A. undariae WS-MY9T was 31 and 19 %, respectively. The phylogenetic and genetic distinctiveness and differential phenotypic properties revealed that strain WS-MY22T is separate from other species of the genus Algibacter . On the basis of the data presented, strain WS-MY22T is considered to represent a novel species of the genus Algibacter , for which the name Algibacter wandonensis sp. nov. is proposed. The type strain is WS-MY22T ( = KCTC 32381T = CECT 8301T).

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