scholarly journals Gelidibacter sediminis sp. nov., isolated from a sediment sample of the Yellow Sea

2015 ◽  
Vol 65 (Pt_7) ◽  
pp. 2304-2309 ◽  
Author(s):  
De-Chao Zhang ◽  
Rosa Margesin
Keyword(s):  
Yellow Sea ◽  
Sediment Sample ◽  
Novel Species ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
16S Rrna Gene Sequences ◽  
Type Strains ◽  
Sequence Similarities ◽  
Combined Data

The Gram-stain-negative, yellow-pigmented, rod-shaped bacterial strain, designated S11-41T, was isolated from a sediment sample of the Yellow Sea in China. The strain was able to grow well over a wide temperature range (1–35 °C). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain S11-41T was related to the members of the genus Gelidibacter, sharing highest sequence similarities with the type strains of Geldibacter salicanalis (98.2 %), Geldibacter algens (97.4 %) and Geldibacter mesophilus (96.9 %). The genomic DNA G+C content of strain S11-41T was 39.2 mol%. The predominant cellular fatty acids were iso-C15 : 0 (13.2 %), iso-C17 : 0 3-OH (12.8 %) and iso-C15 : 1 G (12.2 %). Phosphatidylethanolamine was identified as the major polar lipid. Combined data from phenotypic, phylogenetic and DNA–DNA relatedness studies demonstrated that strain S11-41T is a representative of a novel species of the genus Gelidibacter, for which we propose the name Gelidibacter sediminis sp. nov. (type strain S11-41T = DSM 28135T = LMG 28076T).

scholarly journals Brevundimonas basaltis sp. nov., isolated from black sand

2010 ◽  
Vol 60 (7) ◽  
pp. 1488-1492 ◽  
Author(s):  
Jung-Hye Choi ◽  
Min-Soo Kim ◽  
Seong Woon Roh ◽  
Jin-Woo Bae
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Black Sand ◽  
Dna Relatedness ◽  
Cellular Fatty Acids ◽  
Nacl Concentration ◽  
Optimum Ph ◽  
Type Strains ◽  
Sequence Similarities

A Gram-negative, aerobic, rod-shaped, motile Brevundimonas-like bacterial strain, J22T, was isolated from black sand collected from Soesoggak, Jeju Island, Korea. Growth of strain J22T was observed in R2A medium at temperatures between 10 and 42 °C (optimum 30 °C), between pH 6.5 and 10.5 (optimum pH 7.5) and at a NaCl concentration between 0 and 4 % (w/v) (optimum 0–1 %). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain J22T belonged to the genus Brevundimonas, with high sequence similarities of >97 % to the sequence of the type strains Brevundimonas alba CB88T, Brevundimonas lenta DS-18T, Brevundimonas variabilis CB17T, Mycoplana bullata TK0051T, Brevundimonas kwangchunensis KSL-102T, Brevundimonas intermedia CB63T, Brevundimonas subvibrioides CB81T and Brevundimonas bacteroides CB7T. Strain J22T exhibited DNA–DNA relatedness values of less than 22.2 % with the phylogenetically related species of the genus Brevundimonas. The DNA G+C content of strain J22T was 66.3 mol%. The predominant cellular fatty acids were C18 : 1 ω7c, C16 : 0 and C16 : 1 ω9c; C12 : 0 3-OH was present, which chemotaxonomically characterizes the members of the genus Brevundimonas. Phylogenetic, genomic and biochemical characteristics served to differentiate this isolate from recognized members of the genus Brevundimonas. Strain J22T (=KCTC 22177T=JCM 15911T) should be classified as a novel species in the genus Brevundimonas, for which the name Brevundimonas basaltis sp. nov. is proposed.

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

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 3079-3085 ◽  
Author(s):  
Sooyeon Park ◽  
Yong-Taek Jung ◽  
Ji-Min Park ◽  
Sung-Min Won ◽  
Jung-Hoon Yoon
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Rrna Gene ◽  
Gram Stain ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Dna Relatedness ◽  
Freshwater Spring ◽  
Type Strains ◽  
Sequence Similarities

A Gram-stain-negative, aerobic, non-spore-forming, non-flagellated, non-gliding and rod-shaped bacterial strain, SSK2-2T, was isolated from the place where the ocean and a freshwater spring meet at Jeju island, South Korea. Strain SSK2-2T grew optimally at 30 °C, at pH 7.0–8.0 and in the presence of 2.0–3.0 % (w/v) NaCl. The neighbour-joining phylogenetic tree based on 16S rRNA gene sequences revealed that strain SSK2-2T fell within the clade comprising the type strains of species of the genus Maribacter, joining the type strain of Maribacter sedimenticola with which it shared 99.4 % similarity. Sequence similarities to the type strains of other Maribacter species were 94.6–98.2 %. Strain SSK2-2T contained MK-6 as the predominant menaquinone and iso-C17 : 0 3-OH, iso-C15 : 0, iso-C15 : 1 G, summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) and summed feature 9 (iso-C17 : 1ω9c and/or 10-methyl C16 : 0) as the major fatty acids. The major polar lipids of strain SSK2-2T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content of strain SSK2-2T was 38.2 mol% and mean levels of DNA–DNA relatedness with the type strains of four phylogenetically related species of the genus Maribacter were 11–24 %. Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strain SSK2-2T is separate from other Maribacter species. On the basis of the data presented, strain SSK2-2T is considered to represent a novel species of the genus Maribacter, for which the name Maribacter confluentis sp. nov. is proposed. The type strain is SSK2-2T ( = KCTC 42604T = CECT 8869T).

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

2007 ◽  
Vol 57 (4) ◽  
pp. 856-861 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
So-Jung Kang ◽  
Soo-Young Lee ◽  
Tae-Kwang Oh
Keyword(s):  
Tidal Flat ◽  
Yellow Sea ◽  
Type Strain ◽  
Novel Species ◽  
The Yellow Sea ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Properties ◽  
Taxonomic Analysis ◽  
Bacterium Strain

A Gram-negative, motile and egg-shaped bacterium, strain TF-218T, was isolated from a tidal flat at Daepo Beach (Yellow Sea), Korea, and subjected to a polyphasic taxonomic analysis. Strain TF-218T grew optimally at pH 7.0–8.0 and 37 °C in the presence of 2 % (w/v) NaCl. 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, phosphatidylethanolamine, two unidentified lipids and an aminolipid. The DNA G+C content was 64.9 mol%. A neighbour-joining phylogenetic tree based on 16S rRNA gene sequences showed that strain TF-218T is phylogenetically closely related to the genera Phaeobacter, Leisingera and Marinovum of the Alphaproteobacteria. The phylogenetic and chemotaxonomic similarities suggest that strain TF-218T represents a member of the genus Phaeobacter. DNA–DNA relatedness data and differential phenotypic properties, together with the phylogenetic distinctiveness, demonstrated that strain TF-218T differs from the recognized Phaeobacter species. On the basis of the phenotypic, chemotaxonomic and phylogenetic data, strain TF-218T represents a novel species of the genus Phaeobacter, for which the name Phaeobacter daeponensis sp. nov. is proposed. The type strain is TF-218T (=KCTC 12794T=JCM 13606T).

scholarly journals Halobacillus faecis sp. nov., a spore-forming bacterium isolated from a mangrove area on Ishigaki Island, Japan

2007 ◽  
Vol 57 (11) ◽  
pp. 2476-2479 ◽  
Author(s):  
Sun-Young An ◽  
Kaneo Kanoh ◽  
Hiroaki Kasai ◽  
Keiichi Goto ◽  
Akira Yokota
Keyword(s):  
Novel Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
Mangrove Area ◽  
Ishigaki Island ◽  
Type Strains ◽  
Sequence Similarities

A Gram-positive, spore-forming, rod-shaped halophilic bacterial strain, IGA7-4T, was isolated from a mangrove area on Ishigaki Island (Japan), and was characterized taxonomically using a polyphasic approach. Strain IGA7-4T was strictly aerobic and non-motile and formed central endospores. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain IGA7-4T is affiliated to the genus Halobacillus, and exhibits sequence similarities of 99.6–98.0 % to the type strains of Halobacillus species. Levels of DNA–DNA relatedness between strain IGA7-4T and the type strains of Halobacillus species were 9.5–46.6 %. The DNA G+C content of strain IGA7-4T was 46.5 mol%. The cell-wall peptidoglycan type (Orn–Asp), major cellular fatty acids (anteiso-C15 : 0, anteiso-C17 : 0, iso-C15 : 0 and iso-C16 : 0) and quinone type (MK-7) of the isolate support its affiliation to the genus Halobacillus. On the basis of phylogenetic analysis, phenotypic characteristics and chemotaxonomic data, the isolate represents a novel species of the genus Halobacillus, for which the name Halobacillus faecis sp. nov. is proposed. The type strain is IGA7-4T (=MBIC08268T=IAM 15427T=KCTC 13121T).

scholarly journals Chryseobacterium wanjuense sp. nov., isolated from greenhouse soil in Korea

2006 ◽  
Vol 56 (7) ◽  
pp. 1501-1504 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Byung-Yong Kim ◽  
Seung-Hee Yoo ◽  
Soon-Wo Kwon ◽  
Yang-Hee Cho ◽  
...  
Keyword(s):  
Novel Species ◽  
Rrna Gene ◽  
Bacterial Cells ◽  
16S Rrna Gene Sequences ◽  
Greenhouse Soil ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Low Levels ◽  
Type Strains ◽  
Sequence Similarities

A taxonomic study was performed on strain R2A10-2T, isolated from greenhouse soil cultivated with lettuce (Lactuca sativa L.), collected in Wanju Province, Korea. The bacterial cells were Gram-negative, aerobic, short rods. The growth temperature and pH were 5–35 °C and 5.0–9.0, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that this isolate had 93.3–97.7 % similarity to Chryseobacterium species: the highest sequence similarities were to the type strains of Chryseobacterium daecheongense (97.7 %), Chryseobacterium formosense (97.1 %) and Chryseobacterium defluvii (96.9 %). Low levels of DNA–DNA relatedness were found between strain R2A10-2T and the type strains of these three species (<28 %). Differences in phenotypic properties were found with respect to Chryseobacterium species with validly published names. The predominant cellular fatty acids were iso-15 : 0 (40.0 %), iso-17 : 0 3-OH (21.9 %), iso-17 : 1ω9c (11.7 %) and summed feature 4 (iso-15 : 0 2-OH and/or 16 : 1ω7c/t, 11.0 %). Menaquinone MK-6 was detected as the sole respiratory quinone. The G+C content of the genomic DNA was 37.8 mol%. On the basis of the genomic and phenotypic evidence, this isolate represents a novel species of the genus Chryseobacterium, for which the name Chryseobacterium wanjuense sp. nov. is proposed. The type strain is R2A10-2T (=KACC 11468T=DSM 17724T).

scholarly journals Chitinophaga terrae sp. nov., isolated from soil

2007 ◽  
Vol 57 (8) ◽  
pp. 1721-1724 ◽  
Author(s):  
Myung Kyum Kim ◽  
Hee-Young Jung
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
Type Strains ◽  
The 16S Rrna Gene ◽  
Sequence Similarities

A novel strain, designated KP01T, belonging to the class Sphingobacteria (phylum Bacteroidetes) was isolated from soil in South Korea and was characterized taxonomically using a polyphasic approach. The strain was found to comprise Gram-negative, aerobic, non-motile, non-spore-forming rods. A phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain belonged to the genus Chitinophaga but was clearly separated from established Chitinophaga species. The 16S rRNA gene sequence similarities between KP01T and type strains of established Chitinophaga species ranged from 90.3 to 95.7 %. Phenotypic and chemotaxonomic data (major menaquinone, MK-7; major fatty acids, iso-C15 : 0 and C16 : 1 ω5c; major hydroxy fatty acid, C17 : 0 iso 3-OH) supported the affiliation of strain KP01T with the genus Chitinophaga. Therefore strain KP01T represents a novel species, for which the name Chitinophaga terrae sp. nov. is proposed. The type strain is KP01T (=KCTC 12836T =LMG 24015T).

scholarly journals Hymenobacter terrenus sp. nov., isolated from biological soil crusts

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4557-4562 ◽  
Author(s):  
Kai Tang ◽  
Bo Yuan ◽  
Qiliang Lai ◽  
Ruigang Wang ◽  
Haizhu Bao ◽  
...  
Keyword(s):  
Novel Species ◽  
Biological Soil Crusts ◽  
Phenotypic Characterization ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Soil Crusts ◽  
Type Strains ◽  
Sequence Similarities

A Gram-stain-negative, non-spore-forming, short rod-shaped, non-motile, light-pink bacterial strain, MIMtkLc17T, was isolated from biological soil crusts collected in Liangcheng, Inner Mongolia. Growth of strain MIMtkLc17T was observed at 2–35 °C and in the presence of 1% (w/v) NaCl. Phylogenetic analysis of 16S rRNA gene sequences showed that sequence similarities between strain MIMtkLc17T and the type strains of species of the genus Hymenobacter ranged from 89.93% to 96.49%. Strain MIMtkLc17T can secrete mass polysaccharide. The major fatty acids of strain MIMtkLc17T were iso-C15 : 0, summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), C16 : 1ω5c and summed feature 4 (iso-C17 : 1 I/anteiso-C17 : 1 B). The sole respiratory quinone was menaquinone MK-7. The G+C content of the chromosomal DNA was 57.8 mol%. The results of phylogenetic, chemotaxonomic and phenotypic characterization indicated that strain MIMtkLc17T can be distinguished from all known species of the genus Hymenobacter and represents a novel species of this genus, for which the name Hymenobacter terrenus sp. nov. is proposed. The type strain is MIMtkLc17T ( = MCCC 1K00507T = KCTC 42636T).

scholarly journals Dyadobacter sediminis sp. nov., isolated from a subterranean sediment sample

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 827-832 ◽  
Author(s):  
Mu Tian ◽  
Ren-Gang Zhang ◽  
Lu Han ◽  
Xing-Min Zhao ◽  
Jie Lv
Keyword(s):  
Sediment Sample ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
16S Rrna Gene Sequences ◽  
Respiratory Quinone ◽  
Content Type ◽  
Major Respiratory Quinone

A Gram-reaction-negative, flexirubin-type-pigmented, rod-shaped, aerobic, non-motile bacterium, designated strain Z12T, was isolated from a subsurface sediment sample. In a phylogenetic tree based on 16S rRNA gene sequences, strain Z12T formed a distinct clade with the members of the genus Dyadobacter (<96.7 % sequence similarity). The G+C content of genomic DNA was 45.4 %. The major fatty acids of strain Z12T were iso-C15 : 0, C16 : 1ω6c and/or C16 : 1ω7c (summed feature 3) and anteiso-C17 : 1 B and/or iso-C17 : 1 I (summed feature 4). The major respiratory quinone was MK-7 and the major polar lipid was phosphatidylethanolamine. On the basis of phenotypic, phylogenetic and genotypic features, strain Z12T is considered to represent a novel species, for which the name Dyadobacter sediminis sp. nov., is proposed. The type strain is Z12T ( = JCM 30073T = CGMCC 1.12895T).

scholarly journals Photobacterium lipolyticum sp. nov., a bacterium with lipolytic activity isolated from the Yellow Sea in Korea

2005 ◽  
Vol 55 (1) ◽  
pp. 335-339 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Jung-Kee Lee ◽  
Young-Ok Kim ◽  
Tae-Kwang Oh
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Yellow Sea ◽  
The Yellow Sea ◽  
Intertidal Sediment ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Gene Similarity ◽  
Type Strains

A Gram-negative, motile, non-spore-forming, pleomorphic and lipolytic bacterial strain, M37T, was isolated from an intertidal sediment of the Yellow Sea in Korea. This organism grew optimally at 25–28 °C and in the presence of 1–2 % NaCl. It did not grow without NaCl or in the presence of more than 6 % NaCl. Strain M37T was characterized chemotaxonomically by having Q-8 as the predominant respiratory lipoquinone and C16 : 1 ω7c and/or iso-C15 : 0 2-OH and C16 : 0 as the major fatty acids. The DNA G+C content was 47 mol%. Phylogenetic analyses based on 16S rRNA gene sequences placed strain M37T within the clade comprising Photobacterium species, forming a coherent cluster with the type strains of Photobacterium profundum and Photobacterium indicum (16S rRNA gene similarity levels of 97·5–98·0 %). The mean DNA–DNA relatedness levels between strain M37T and P. profundum JCM 10084T and P. indicum DSM 5151T were in the range 12–15 %. Similarities between 16S rRNA gene sequences of strain M37T and those of the type strains of the other Photobacterium species ranged from 93·9 % (with Photobacterium fischeri) to 96·2 % (with Photobacterium phosphoreum). On the basis of phenotypic properties and phylogenetic and genomic distinctiveness, strain M37T (=KCTC 10562BPT=DSM 16190T) should be placed in the genus Photobacterium as a novel species, for which the name Photobacterium lipolyticum sp. nov. is proposed.

scholarly journals Sporosarcina saromensis sp. nov., an aerobic endospore-forming bacterium

2007 ◽  
Vol 57 (8) ◽  
pp. 1868-1871 ◽  
Author(s):  
Sun-Young An ◽  
Tomomi Haga ◽  
Hiroaki Kasai ◽  
Keiichi Goto ◽  
Akira Yokota
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Brackish Lake ◽  
Cellular Fatty Acids ◽  
Type Strains ◽  
Sequence Similarities

Two Gram-positive, endospore-forming, rod-shaped bacterial strains, HG645T and HG711, were respectively isolated from surface water of a brackish lake and sediment of a fishery harbour in Japan and were subsequently characterized taxonomically using a polyphasic approach. Phylogenetic analyses based on 16S rRNA gene sequences showed that strains HG645T and HG711 are affiliated phylogenetically to the genus Sporosarcina, and they exhibit sequence similarities of 95.7–97.3 % to the type strains of Sporosarcina species. DNA–DNA relatedness between strain HG645T and the type strain of the phylogenetically related species Sporosarcina aquimarina was less than 10 %. The DNA G+C content of strains HG645T and HG711 were respectively 46.0 and 45.2 mol%. Major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The cell-wall peptidoglycan type (Lys–Glu), major cellular fatty acids (iso-C15 : 0 and anteiso-C15 : 0) and quinone type (MK-7) of the isolates support their affiliation to the genus Sporosarcina. On the basis of phylogenetic analysis and physiological and chemotaxonomic data, the isolates represent a novel species of the genus Sporosarcina, for which the name Sporosarcina saromensis sp. nov. is proposed. The type strain is strain HG645T (=MBIC08270T=IAM 15429T =KCTC 13119T).

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