Bizionia hallyeonensis sp. nov., isolated from seawater in an oyster farm

2013 ◽  
Vol 63 (Pt_2) ◽  
pp. 685-690 ◽  
Author(s):  
Jung-Hoon Yoon ◽  
Chul-Hyung Kang ◽  
Yong-Taek Jung ◽  
So-Jung Kang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Oyster Farm

A Gram-staining-negative, non-spore-forming, aerobic, non-flagellated, non-gliding, rod-shaped bacterium, designated strain T-y7T, was isolated from seawater collected in an oyster farm in the South Sea, South Korea, and subjected to a polyphasic study. Strain T-y7T grew optimally at 25 °C, at pH 7.0–8.0 and in the presence of 2 % (w/v) NaCl. In phylogenetic analyses based on 16S rRNA gene sequences, strain T-y7T fell within a clade comprising Bizionia species. It formed a coherent cluster with the type strains of Bizionia algoritergicola , B. argentinensis , B. echini and B. myxarmorum , with which it exhibited 16S rRNA gene sequence similarities of 97.4–98.9 % and mean DNA–DNA relatedness values of 11–27 %. Strain T-y7T had MK-6 as its predominant menaquinone and iso-C15 : 1 G, summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH), iso-C15 : 0 and iso-C17 : 0 3-OH as its major fatty acids. The major polar lipids were phosphatidylethanolamine, one unidentified aminolipid and one unidentified lipid. The genomic DNA G+C content was 37.1 mol%. Its phylogenetic and genetic distinctiveness and differential phenotypic properties revealed that strain T-y7T does not belong to any established Bizionia species. On the basis of the data presented, strain T-y7T is considered to represent a novel species of the genus Bizionia , for which the name Bizionia hallyeonensis sp. nov. is proposed. The type strain is T-y7T ( = KCTC 23881T  = CCUG 62110T).

scholarly journals Lutibacter oricola sp. nov., a marine bacterium isolated from seawater

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 485-490 ◽  
Author(s):  
Hye-Ri Sung ◽  
Kee-Sun Shin ◽  
Sa-Youl Ghim
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Seawater Samples

A bacterial strain, UDC377T, was isolated from seawater samples collected at Seo-do on the coast of Dokdo island in the East Sea, and was subjected to taxonomic study using a polyphasic approach. Strain UDC377T was pale-yellow, Gram-staining-negative, non-motile, rod-shaped and aerobic. The strain grew optimally at 25–28 °C, in the presence of 2 % (w/v) NaCl and at pH 7.0–7.5. Strain UDC377T produced carotenoid pigments; however, it did not produce flexirubin-type pigments. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain UDC377T clustered with members of the genus Lutibacter and appeared most closely related to Lutibacter agarilyticus KYW566T (96.0 % 16S rRNA gene sequence similarity) followed by L. aestuarii MA-My1T (95.0 %), L. litoralis CL-TF09T (94.9 %), L. maritimus S7-2T (94.1 %) and L. flavus IMCC1507T (94.0 %). The DNA G+C content of strain UDC377T was 30.8 mol%. Strain UDC377T contained MK-6 as the predominant menaquinone, iso-C15 : 0 3-OH, iso-C15 : 0 and iso-C16 : 0 3-OH as the major fatty acids, and phosphatidylethanolamine, two unknown aminolipids and six unknown lipids as the major polar lipids. Based on phenotypic properties and phylogenetic data presented, strain UDC377T is considered to represent a novel species of the genus Lutibacter , for which the name Lutibacter oricola sp. nov. is proposed. The type strain is UDC377T ( = DSM 24956T = KCTC 23668T).

Pseudorhodobacter wandonensis sp. nov., isolated from wood falls, and emended description of the genus Pseudorhodobacter

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1479-1484 ◽  
Author(s):  
Mi-Hwa Lee ◽  
Soo-Young Lee ◽  
Yong-Taek Jung ◽  
Sooyeon Park ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Polar Lipid Profile ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, aerobic, non-motile and rod-shaped bacterial strain, designated WT-MW11T, was isolated from wood falls on the coast of Wando, an island of South Korea, and its taxonomic position was investigated by using a polyphasic approach. Strain WT-MW11T grew optimally at pH 7.0–8.0, at 25 °C and in the presence of 2.0–3.0 % (w/v) NaCl. Bacteriochlorophyll a was not produced. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain WT-MW11T clustered with Pseudorhodobacter ferrugineus IAM 12616T and Pseudorhodobacter aquimaris HDW-19T, with which it exhibited 16S rRNA gene sequence similarity values of 97.9 and 95.5 %, respectively. Strain WT-MW11T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c as the major fatty acid. The polar lipid profile of strain WT-MW11T was similar to those of P. ferrugineus JCM 20687T and P. aquimaris HDW-19T. The DNA G+C content of strain WT-MW11T was 61.6 mol% and its mean DNA–DNA relatedness value with P. ferrugineus JCM 20687T was 12.3 %. The phylogenetic and genetic distinctiveness and differential phenotypic properties revealed that strain WT-MW11T was distinguishable from the two recognized species of the genus Pseudorhodobacter . On the basis of the data presented, strain WT-MW11T is considered to represent a novel species of the genus Pseudorhodobacter , for which the name Pseudorhodobacter wandonensis sp. nov. is proposed. The type strain is WT-MW11T ( = KCTC 23672T = CCUG 61506T). The description of the genus Pseudorhodobacter is emended.

Olleya namhaensis sp. nov., isolated from wood falls, and emended description of the genus Olleya Mancuso Nichols et al. 2005 emend. Lee et al. 2010

2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1610-1615 ◽  
Author(s):  
Mi-Hwa Lee ◽  
Yong-Taek Jung ◽  
Sooyeon Park ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Emended Description

A Gram-stain-negative, non-flagellated, gliding, rod-shaped bacterial strain, designated WT-MY15T, was isolated from wood falls in the South Sea in Korea and subjected to a polyphasic taxonomic study. Strain WT-MY15T grew optimally at pH 7.0–8.0, at 25 °C and in the presence of 2.0 % (w/v) NaCl. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain WT-MY15T clustered with the type strains of two Olleya species, exhibiting 16S rRNA gene sequence similarity values of 97.7–98.1 %. Strain WT-MY15T contained MK-6 as the predominant menaquinone. The fatty acid and polar lipid profiles of strain WT-MY15T were similar to those of Olleya aquimaris L-4T and Olleya marilimosa CIP 108537T. The DNA G+C content of strain WT-MY15T was 42.8 mol% and its mean DNA–DNA relatedness values with O. aquimaris L-4T and O. marilimosa CIP 108537T were 8.3 and 5.6 %, respectively. The phylogenetic and genetic distinctiveness and differential phenotypic properties revealed that strain WT-MY15T is separate from the two recognized species of the genus Olleya . On the basis of the data presented, strain WT-MY15T is considered to represent a novel species of the genus Olleya , for which the name Olleya namhaensis sp. nov. is proposed. The type strain is WT-MY15T ( = KCTC 23673T = CCUG 61507T). An emended description of the genus Olleya is also presented.

scholarly journals Planomicrobium soli sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2700-2705 ◽  
Author(s):  
Xiaonan Luo ◽  
Jianli Zhang ◽  
Dai Li ◽  
Yuhua Xin ◽  
Di Xin ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Morphological Properties ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A Gram-staining-positive bacterium, designated strain XN13T, was isolated from a soil sample collected from ALaShan National Geological Park in Inner Mongolia Autonomous Region, China and subjected to a taxonomic study using a polyphasic approach. Strain XN13T was found to have a range of chemical and morphological properties consistent with its classification in the genus Planomicrobium . Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain XN13T was related to members of the genus Planomicrobium . The closest phylogenetic relatives were Planomicrobium okeanokoites NBRC 12536T, Planomicrobium koreense JG07T, Planomicrobium mcmeekinii S23F2T and Planomicrobium flavidum ISL-41T with 98.2 %, 97.8 %, 97.8 % and 97.7 % 16S rRNA gene sequence similarity, respectively. The major cellular fatty acids were anteiso-C15 : 0, C16 : 1ω7c alcohol, iso-C14 : 0 and C16 : 1ω11c. The predominant menaquinones were MK-8 and MK-7. The DNA G+C content was 40.3 mol%. The DNA–DNA relatedness values between strain XN13T and Planomicrobium okeanokoites KCTC 3672T, Planomicrobium koreense KCTC 3684T, P. mcmeekinii CGMCC 1.2724T, Planomicrobium flavidum KCTC 13261T, Planomicrobium chinense CGMCC 1.3454T and Planomicrobium glaciei CGMCC 1.6846T were 36 %, 30 %, 34 %, 29 %, 30 % and 31 %, respectively. The organism is different from recognized species of the genus Planomicrobium in several phenotypic characteristics. On the basis of phenotypic and genotypic properties, strain XN13T represents a novel species of the genus Planomicrobium , for which the name Planomicrobium soli sp. nov. is proposed. The type strain is XN13T ( = CGMCC 1.12259T = KCTC 33047T).

Marinobacter antarcticus sp. nov., a halotolerant bacterium isolated from Antarctic intertidal sandy sediment

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1838-1844 ◽  
Author(s):  
Chang Liu ◽  
Chun-Xiao Chen ◽  
Xi-Ying Zhang ◽  
Yong Yu ◽  
Ang Liu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Tween 80 ◽  
Rrna Gene ◽  
Sandy Sediment ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A Gram-staining-negative, aerobic, motile, oxidase- and catalase-positive, rod-shaped strain, designated ZS2-30T, was isolated from Antarctic intertidal sandy sediment. The strain grew at 4–35 °C (optimum, 25 °C) and in 0–25 % (w/v) NaCl (optimum, 3.0–4.0 %). It could reduce nitrate to nitrite and hydrolyse Tween 80. The predominant cellular fatty acids of strain ZS2-30T were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0, C18 : 1ω9c, C16 : 1ω9c, C12 : 0 3-OH and C12 : 0. The major polar lipids were phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and an unidentified aminophospholipid. The genomic DNA G+C content of strain ZS2-30T was 55.8 mol%. Analyses of 16S rRNA gene sequences revealed that strain ZS2-30T was affiliated with the genus Marinobacter . It showed highest 16S rRNA gene sequence similarities to the type strains of three species of the genus Marinobacter , namely Marinobacter maritimus (98.3 %), Marinobacter psychrophilus (98.1 %) and Marinobacter goseongensis (97.1 %), but the DNA–DNA relatedness values between strain ZS2-30T and the above three species were all lower than 45 %. Moreover, strain ZS2-30T could be distinguished from closely related species of the genus Marinobacter by various phenotypic properties. Based on this taxonomic study using a polyphasic approach, strain ZS2-30T is considered to represent a novel species in the genus Marinobacter , for which the name Marinobacter antarcticus sp. nov. is proposed. The type strain of Marinobacter antarcticus is ZS2-30T ( = CGMCC 1.10835T = KCTC 23684T).

scholarly journals Sulfitobacter pseudonitzschiae sp. nov., isolated from the toxic marine diatom Pseudo-nitzschia multiseries

2015 ◽  
Vol 65 (Pt_1) ◽  
pp. 95-100 ◽  
Author(s):  
Zhuan Hong ◽  
Qiliang Lai ◽  
Qiaoqi Luo ◽  
Simeng Jiang ◽  
Ruilin Zhu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Marine Diatom ◽  
Rrna Gene ◽  
Chromosomal Dna ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type

A taxonomic study was carried out on bacterial strain H3T, which was isolated from the toxic marine diatom Pseudo-nitzschia multiseries. Cells of strain H3T were Gram-stain-negative, rod-shaped, non-motile and capable of reducing nitrate to nitrite, but not denitrification. Growth was observed at NaCl concentrations of 1–9 %, pH 6–12 and 10–37 °C. It was unable to degrade aesculin or gelatin. The dominant fatty acids (>10 %) were C18 : 1ω7c/ω6c (summed feature 8) and C16 : 0. The respiratory ubiquinone was Q10. The major lipids were phosphatidylethanolamine, phosphatidylglycerol, an aminolipid and one unknown lipid, and the minor lipids were two phospholipids and three unknown lipids. The G+C content of the chromosomal DNA was 61.7 mol%. 16S rRNA gene sequence comparison showed that strain H3T was related most closely to Sulfitobacter donghicola DSW-25T (97.3 % similarity) and levels of similarity with other species of the genus Sulfitobacter were 95.1–96.9 %. The mean (±sd) DNA–DNA hybridization value between strain H3T and Sulfitobacter donghicola DSW-25T was 18.0±2.25 %. The average nucleotide identity between strain H3T and Sulfitobacter donghicola DSW-25T was 70.45 %. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain H3T formed a separate clade close to the genus Sulfitobacter and was distinguishable from phylogenetically related species by differences in several phenotypic properties. On the basis of the phenotypic and phylogenetic data, strain H3T represents a novel species of the genus Sulfitobacter , for which the name Sulfitobacter pseudonitzschiae is proposed (type strain H3T = DSM 26824T = MCCC 1A00686T).

Namhaeicola litoreus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from seawater

2012 ◽  
Vol 62 (Pt_9) ◽  
pp. 2163-2168 ◽  
Author(s):  
Yong-Taek Jung ◽  
Ji-Hoon Kim ◽  
So-Jung Kang ◽  
Tae-Kwang Oh ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-staining-negative, non-flagellated, non-gliding and pleomorphic bacterial strain, designated DPG-25T, was isolated from seawater in a seaweed farm in the South Sea in Korea and its taxonomic position was investigated by using a polyphasic approach. Strain DPG-25T grew optimally at 25 °C, at pH 7.0–7.5 and in the presence of 2 % (w/v) NaCl. Flexirubin-type pigments were not produced. Phylogenetic analyses based on 16S rRNA gene sequences revealed that strain DPG-25T formed a cluster with the type strains of Actibacter sediminis , Aestuariicola saemankumensis and Lutimonas vermicola . Strain DPG-25T exhibited 16S rRNA gene sequence similarity values of 95.3, 93.1 and 93.6 % to the type strains of Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola , respectively. Strain DPG-25T 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 detected in strain DPG-25T were phosphatidylethanolamine and one unidentified lipid. The DNA G+C content was 39.9 mol%. Differential phenotypic properties and the phylogenetic distinctiveness of strain DPG-25T demonstrated that this strain is distinguishable from Actibacter sediminis , Aestuariicola saemankumensis and L. vermicola . On the basis of the data presented here, strain DPG-25T represents a novel species in a novel genus of the family Flavobacteriaceae , for which the name Namhaeicola litoreus gen. nov., sp. nov. is proposed. The type strain of Namhaeicola litoreus is DPG-25T ( = KCTC 23702T  = CCUG 61485T).

scholarly journals Amycolatopsis rhabdoformis sp. nov., an actinomycete isolated from a tropical forest soil

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1786-1793 ◽  
Author(s):  
Wallace Rafael Souza ◽  
Rafael Eduardo Silva ◽  
Michael Goodfellow ◽  
Kanungnid Busarakam ◽  
Fernanda Sales Figueiro ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Gene Tree ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type

Strain SB026T was isolated from Brazilian rainforest soil and its taxonomic position established using data from a polyphasic study. The organism showed a combination of chemotaxonomic and morphological features consistent with its classification in the genus Amycolatopsis and formed a branch in the Amycolatopsis 16S rRNA gene tree together with Amycolatopsis bullii NRRL B-24847T, Amycolatopsis plumensis NRRL B-24324T, Amycolatopsis tolypomycina DSM 44544T and Amycolatopsis vancoresmycina NRRL B-24208T. It was related most closely to A. bullii NRRL B-24847T (99.0 % 16S rRNA gene sequence similarity), but was distinguished from this strain by a low level of DNA–DNA relatedness (~46 %) and discriminatory phenotypic properties. Based on the combined genotypic and phenotypic data, it is proposed that the isolate should be classified in the genus Amycolatopsis as representing a novel species, Amycolatopsis rhabdoformis sp. nov. The type strain is SB026T ( = CBMAI 1694T = CMAA 1285T = NCIMB 14900T).

scholarly journals Erythrobacter pelagi sp. nov., a member of the family Erythrobacteraceae isolated from the Red Sea

2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1348-1353 ◽  
Author(s):  
Hui-xian Wu ◽  
Pok Yui Lai ◽  
On On Lee ◽  
Xiao-jian Zhou ◽  
Li Miao ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Red Sea ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
Type Strains

A novel Gram-negative, aerobic, catalase- and oxidase-positive, non-sporulating, non-motile, rod-shaped bacterium, designated strain UST081027-248T, was isolated from seawater of the Red Sea. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain UST081027-248T fell within the genus Erythrobacter . Levels of 16S rRNA gene sequence similarity between the novel strain and the type strains of Erythrobacter species ranged from 95.3 % (with Erythrobacter gangjinensis ) to 98.2 % (with Erythrobacter citreus ). However, levels of DNA–DNA relatedness between strain UST081027-248T and the type strains of closely related species were below 70 %. Optimal growth of the isolate occurred in the presence of 2.0 % NaCl, at pH 8.0–9.0 and at 28–36 °C. The isolate did not produce bacteriochlorophyll a. The predominant cellular fatty acids were C17 : 1ω6c, summed feature 8 (C18 : 1ω6c and/or C18 : 1ω7c) and C15 : 0 2-OH. The genomic DNA G+C content of strain UST081027-248T was 60.4 mol%. Phenotypic properties and phylogenetic distinctiveness clearly indicated that strain UST081027-248T represents a novel species of the genus Erythrobacter , for which the name Erythrobacter pelagi sp. nov. is proposed. The type strain is UST081027-248T ( = JCM 17468T = NRRL 59511T).

scholarly journals Frigoribacterium endophyticum sp. nov., an endophytic actinobacterium isolated from the root of Anabasis elatior (C. A. Mey.) Schischk

2015 ◽  
Vol 65 (Pt_4) ◽  
pp. 1207-1212 ◽  
Author(s):  
Hong-Fei Wang ◽  
Yong-Guang Zhang ◽  
Ji-Yue Chen ◽  
Jian-Wei Guo ◽  
Li Li ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Endophytic Actinobacterium

A novel endophytic actinobacterium, designated EGI 6500707T, was isolated from the surface-sterilized root of a halophyte Anabasis elatior (C. A. Mey.) Schischk collected from Urumqi, Xinjiang province, north-west China, and characterized using a polyphasic approach. Cells were Gram-stain-positive, non-motile, short rods and produced white colonies. Growth occurred at 10–45 °C (optimum 25–30 °C), at pH 5–10 (optimum pH 8) and in presence of 0–4 % (w/v) NaCl (optimum 0–3 %). The predominant menaquinone was MK-9. The diagnostic phospholipids were diphosphatidylglycerol and phosphatidylglycerol. The major fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The DNA G+C content of strain EGI 6500707T was 69.1 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain EGI 6500707T should be placed in the genus Frigoribacterium (family Microbacteriaceae , phylum Actinobacteria ), and that the novel strain exhibited the highest 16S rRNA gene sequence similarity to Frigoribacterium faeni JCM 11265T (99.1 %) and Frigoribacterium mesophilum MSL-08T (96.5 %). DNA–DNA relatedness between strain EGI 6500707T and F. faeni JCM 11265T was 47.2 %. On the basis of phenotypic and chemotaxonomic characteristics, phylogenetic analysis and DNA–DNA relatedness data, strain EGI 6500707T represents a novel species of the genus Frigoribacterium , for which the name Frigoribacterium endophyticum sp. nov. is proposed. The type strain is EGI 6500707T ( = JCM 30093T = KCTC 29493T).

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