scholarly journals Salinicoccus jeotgali sp. nov., isolated from jeotgal, a traditional Korean fermented seafood

2007 ◽  
Vol 57 (3) ◽  
pp. 633-638 ◽  
Author(s):  
Zubair Aslam ◽  
Ju Hyoung Lim ◽  
Wan-Taek Im ◽  
Muhammad Yasir ◽  
Young Ryun Chung ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
16S Rrna Gene Sequences ◽  
Dna Relatedness ◽  
Gene Sequence Analysis ◽  
The Family

A novel, moderately halophilic, Gram-positive coccus, designated strain S2R53-5T, was isolated from jeotgal, a traditional Korean fermented seafood. The organism was strictly aerobic, non-motile, non-sporulating and catalase- and oxidase-positive. Strain S2R53-5T grew in the presence of 0.5–15 % (w/v) NaCl and at pH 6.5–11.0, with optimum growth at 5 % (w/v) NaCl and pH 7.0. The temperature range for growth was 20.0–30.0 °C, with an optimum temperature of 30 °C. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain S2R53-5T belongs to the family Staphylococcaceae and was most closely related to Salinicoccus roseus DSM 5351T (96.8 % gene sequence similarity), Salinicoccus hispanicus DSM 5352T (96.1 %), Salinicoccus alkaliphilus T8T (95.2 %) and Jeotgalicoccus halotolerans YKJ-101T (95.1 %). The genomic DNA G+C content was 47.0 mol%, which is in the range of 46–51 mol% that is characteristic for the genus Salinicoccus. Levels of DNA–DNA relatedness between strain S2R53-5T and S. roseus DSM 5351T, S. hispanicus DSM 5352T and S. alkaliphilus KCTC 13928T were 32.2, 15.4 and 4.6 %, respectively. Chemotaxonomic data (major menaquinone, MK-6; major fatty acids, iso-C15 : 0 and anteiso-C15 : 0; cell-wall murein type, Lys and Gly) and 16S rRNA gene sequence analysis supported the affiliation of strain S2R53-5T with the genus Salinicoccus. The combined evidence from the low DNA–DNA relatedness, physiological, biochemical and other genotypic data indicate that strain S2R53-5T clearly represents a novel species of the genus Salinicoccus, for which the name Salinicoccus jeotgali sp. nov. is proposed. The type strain is S2R53-5T (=KCTC 13030T=LMG 23640T).

scholarly journals Pseudosphingobacterium domesticum gen. nov., sp. nov., isolated from home-made compost

2007 ◽  
Vol 57 (7) ◽  
pp. 1535-1538 ◽  
Author(s):  
Ivone Vaz-Moreira ◽  
M. Fernanda Nobre ◽  
Olga C. Nunes ◽  
Célia M. Manaia
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family

A bacterial strain, DC-186T, isolated from home-made compost, was characterized for its phenotypic and phylogenetic properties. The isolate was a Gram-negative rod that was able to grow at 15–36 °C and pH 5.5–8.0. Strain DC-186T was positive in tests for catalase, oxidase and β-galactosidase activities and aesculin hydrolysis. The predominant fatty acids were the summed feature C16 : 1/iso-C15 : 0 2-OH (42 %) and iso-C15 : 0 (26 %), the major respiratory quinone was menaquinone-7 and the genomic DNA G+C content was 42 mol%. 16S rRNA gene sequence analysis and phenetic characterization indicated that this organism belongs to the phylum Bacteroidetes and revealed its affiliation to the family Sphingobacteriaceae. Of recognized taxa, strain DC-186T was most closely related to Sphingobacterium daejeonense (90 % sequence similarity) based on 16S rRNA gene sequence analysis. The low 16S rRNA gene sequence similarity with other recognized taxa and the identification of distinctive phenetic features for this isolate support the definition of a new genus within the family Sphingobacteriaceae. The name Pseudosphingobacterium domesticum gen. nov., sp. nov. is proposed, with strain DC-186T (=CCUG 54353T=LMG 23837T) as the type strain.

scholarly journals Jeotgalicoccus halophilus sp. nov., isolated from salt lakes

2011 ◽  
Vol 61 (7) ◽  
pp. 1720-1724 ◽  
Author(s):  
Wen-Yan Liu ◽  
Lin-Lin Jiang ◽  
Chun-Jing Guo ◽  
Su Sheng Yang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Salt Lakes ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
16S Rrna Gene Sequences ◽  
Dna Relatedness

Two slightly halophilic bacterial strains, C1-52T and YD-9, were isolated from Daban and Aiding salt lakes in Xinjiang, China, respectively. The isolates were Gram-positive, non-endospore-forming, non-motile, facultatively anaerobic cocci. Colonies were pale yellow, and a light pink, diffusible pigment was produced after a few additional days of incubation. The isolates grew optimally with 2–3 % (w/v) NaCl, at pH 7.5 and at 30–35 °C. The peptidoglycan type was l-Lys–Gly3–4–l-Ala(Gly). The menaquinones were MK-7 (83.2 %) and MK-6 (16.8 %). The major fatty acids (>10 %) were anteiso-C15 : 0 and iso-C15 : 0. The DNA G+C content of strains C1-52T and YD-9 was 41.2 and 41.0 mol%, respectively. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strains C1-52T and YD-9 were closely related to Jeotgalicoccus psychrophilus YKJ-115T (98.0 and 97.1 % 16S rRNA gene sequence similarity, respectively), followed by Jeotgalicoccus halotolerans YKJ-101T (97.1 and 96.8 %). Strains C1-52T and YD-9 shared, respectively, 20 and 11 % DNA–DNA relatedness with J. halotolerans JCM 11198T and 8 and 13 % with J. psychrophilus JCM 11199T. DNA–DNA relatedness between the isolates was 91 %. On the basis of phenotypic and phylogenetic distinctiveness, strains C1-52T and YD-9 belonged to the same species, which should be placed in the genus Jeotgalicoccus as a novel species. The name Jeotgalicoccus halophilus sp. nov. is proposed, with the type strain C1-52T ( = CGMCC 1.8911T  = NBRC 105788T).

Pusillimonas soli sp. nov., isolated from farm soil

2010 ◽  
Vol 60 (10) ◽  
pp. 2326-2330 ◽  
Author(s):  
Myungjin Lee ◽  
Sung-Geun Woo ◽  
Myoungsoo Chae ◽  
Leonid N. Ten
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Low Levels

A Gram-negative, motile, non-spore-forming bacterial strain, designated MJ07T, was isolated from a farm soil and was characterized to determine its taxonomic position by using a polyphasic approach. Comparative 16S rRNA gene sequence analysis showed that strain MJ07T belongs to the family Alcaligenaceae, class Betaproteobacteria, and is related most closely to Pusillimonas ginsengisoli KCTC 22046T (98.6 % sequence similarity) and Pusillimonas noertemannii BN9T (96.9 %). The levels of 16S rRNA gene sequence similarity between strain MJ07T and members of all other recognized species of the family Alcaligenaceae were below 95.2 %. The G+C content of the genomic DNA of strain MJ07T was 59.4 mol%. The detection of a quinone system with ubiquinone Q-8 as the major respiratory lipoquinone, putrescine as the predominant polyamine, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and two unknown aminolipids as major polar lipids and a fatty acid profile with C16 : 0 (32.0 %), C17 : 0 cyclo (24.7 %) and C19 : 0 cyclo ω8c (11.5 %) as the major components supported the affiliation of strain MJ07T to the genus Pusillimonas. Strain MJ07T exhibited relatively low levels of DNA–DNA relatedness with respect to P. ginsengisoli KCTC 22046T (50±8 %) and P. noertemannii KACC 13183T (18±7 %). On the basis of its phenotypic and genotypic properties together with its phylogenetic distinctiveness, strain MJ07T (=KCTC 22455T =JCM 16386T) should be classified in the genus Pusillimonas as the type strain of a novel species, for which the name Pusillimonas soli sp. nov. is proposed.

scholarly journals Barnesiella viscericola gen. nov., sp. nov., a novel member of the family Porphyromonadaceae isolated from chicken caecum

2007 ◽  
Vol 57 (2) ◽  
pp. 342-346 ◽  
Author(s):  
Mitsuo Sakamoto ◽  
Pham Thi Ngoc Lan ◽  
Yoshimi Benno
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family

Two bacterial strains isolated from chicken caecum, C46T and C47, were characterized using a polyphasic taxonomic approach that included analysis of the phenotypic and biochemical features, cellular fatty acid profiles, menaquinone profiles and phylogenetic position (using 16S rRNA gene sequence analysis). The 16S rRNA gene sequence analysis showed that these strains belonged to the family Porphyromonadaceae. These strains shared 100 % 16S rRNA gene sequence similarity with each other and were related to Parabacteroides distasonis (showing 86 % sequence similarity). The strains were found to be obligately anaerobic, non-pigmented, non-spore-forming, non-motile, Gram-negative rods. Growth of the strains was inhibited on medium containing 20 % bile. The major menaquinones of the isolates were MK-11 and MK-12. This menaquinone composition was different from those of other genera of the family Porphyromonadaceae, such as Parabacteroides (in which the predominant menaquinones are MK-9 and MK-10), Porphyromonas (MK-9 and MK-10) and Tannerella (MK-10 and MK-11). This is an important chemotaxonomic characteristic of these micro-organisms. The DNA G+C content of strain C46T is 52.0 mol%. On the basis of these data, strains C46T and C47 represent a novel genus and species, for which the name Barnesiella viscericola gen. nov., sp. nov. is proposed. The type strain of Barnesiella viscericola is C46T (=JCM 13660T=DSM 18177T).

scholarly journals Castellaniella daejeonensis sp. nov., isolated from soil

2010 ◽  
Vol 60 (9) ◽  
pp. 2056-2060 ◽  
Author(s):  
Myungjin Lee ◽  
Hae-Min Jung ◽  
Sung-Geun Woo ◽  
Soon-Ae Yoo ◽  
Leonid N. Ten
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Low Levels

A Gram-negative, non-spore-forming, motile, facultatively anaerobic bacterium, designated strain MJ06T, was isolated from oil-contaminated soil and was characterized taxonomically by using a polyphasic approach. Strain MJ06T contained ubiquinone Q-8 as the major respiratory lipoquinone, putrescine as the predominant polyamine and phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol as major polar lipids. The G+C content of the genomic DNA of strain MJ06T was 66.2 mol%. The major fatty acids were summed feature 4 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH; 32.5 %), C16 : 0 (22.8 %) and summed feature 7 (one or more of C18 : 1 ω7c, C18 : 1 ω9t and C18 : 1 ω12t; 14.9 %). Comparative 16S rRNA gene sequence analysis showed that strain MJ06T belonged to the family Alcaligenaceae, class Betaproteobacteria, and joined the evolutionary radiation enclosed by the genus Castellaniella. Levels of 16S rRNA gene sequence similarity between strain MJ06T and its phylogenetically closest relatives, Castellaniella denitrificans NKNTAUT, Castellaniella defragrans 54PinT, Castellaniella ginsengisoli DCY36T and Castellaniella caeni Ho-11T, were 98.6, 98.3, 97.8 and 97.3 %, respectively. Levels of similarity between strain MJ06T and the type strains of all other recognized species in the family Alcaligenaceae were below 95.0 %. Strain MJ06T exhibited relatively low levels of DNA–DNA relatedness with respect to C. defragrans DSM 12141T (52 %), C. denitrificans DSM 11046T (31 %), C. ginsengisoli KCTC 22398T (18 %) and C. caeni KCTC 12197T (15 %). On the basis of its phenotypic and genotypic properties together with phylogenetic distinctiveness, strain MJ06T is considered to represent a novel species of the genus Castellaniella, for which the name Castellaniella daejeonensis sp. nov. is proposed. The type strain is MJ06T (=KCTC 22454T =JCM 16240T).

scholarly journals Gangjinia marincola gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae

2011 ◽  
Vol 61 (2) ◽  
pp. 325-329 ◽  
Author(s):  
Dong-Heon Lee ◽  
Sung-Ran Moon ◽  
Young-Hyun Park ◽  
Young Sun Lee ◽  
Jae Sung Jung ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
The Family ◽  
Distinct Lineage

A novel strictly aerobic, orange-pigmented, Gram-stain-negative bacterium, designated strain GJ16T, was isolated from coastal seawater of Gangjin Bay, the southernmost part of the Korean peninsula, and subjected to a polyphasic taxonomic study. It grew optimally at 25–30 °C, at pH 7.0–8.0 and in the presence of 3 % NaCl. Comparative 16S rRNA gene sequence analysis revealed that strain GJ16T formed a distinct lineage within the family Flavobacteriaceae and shared less than 91.2 % 16S rRNA gene sequence similarity with members of the genera Leptobacterium, Zhouia, Winogradskyella, Dokdonia and Krokinobacter. The predominant cellular fatty acids were iso-C15 : 0 (40.2 %), iso-C15 : 1 G (12.8 %), iso-C17 : 0 3-OH (11.2 %) and C15 : 0 (6.6 %). The G+C content of the genomic DNA was 39.4 mol% and the major respiratory isoprenoid quinone was MK-6. On the basis of phenotypic and genotypic data, strain GJ16T represents a novel species in a new genus in the family Flavobacteriaceae, for which the name Gangjinia marincola gen. nov., sp. nov. is proposed; the type strain is GJ16T (=KCTC 22649T =JCM 16082T).

scholarly journals Roseomonas wooponensis sp. nov., isolated from wetland freshwater

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 4049-4054 ◽  
Author(s):  
Ji Hee Lee ◽  
Mi Sun Kim ◽  
Keun Sik Baik ◽  
Hyang Mi Kim ◽  
Kang Hyun Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
16S Rrna Gene Sequences ◽  
The Family ◽  
Ubiquinone 10

A non-motile, cocobacilli-shaped and pink-pigmented bacterium, designated strain WW53T, was isolated from wetland freshwater (Woopo wetland, Republic of Korea). Cells were Gram-stain-negative, catalase- and oxidase-positive. The major fatty acids were C18 : 1ω7c/C18 : 1ω6c and C16 : 0.The predominant quinone and polyamine were ubiquinone 10 (Q-10) and spermidine, respectively. The DNA G+C content was 71 mol%. The major polar lipids were phosphatidylethanolamine, phosphatidylcholine and an unknown aminolipid. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain WW53T belongs to the family Acetobacteraceae, and is related to the genus Roseomonas. Strain WW53T was most closely related to Roseomonas stagni HS-69T (95.3 % 16S rRNA gene sequence similarity). Results of a polyphasic taxonomy study suggested that the isolate represents a novel species in the genus Roseomonas, for which the name Roseomonas wooponensis sp. nov. is proposed. The type strain is WW53T ( = KCTC 32534T = JCM 19527T).

Leeia oryzae gen. nov., sp. nov., isolated from a rice field in Korea

2007 ◽  
Vol 57 (6) ◽  
pp. 1204-1208 ◽  
Author(s):  
Jee-Min Lim ◽  
Che Ok Jeon ◽  
Gye Suk Lee ◽  
Dong-Jin Park ◽  
Ui-Gum Kang ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Rice Field ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
16S Rrna Gene Sequences ◽  
Novel Genus And Species ◽  
Distinct Lineage

A strictly aerobic, non-spore-forming, Gram-negative bacterium, designated strain HW7T, was isolated from a rice field in Korea. Cells of strain HW7T were short rod-shaped and motile with single polar flagella. The major cellular fatty acids of strain HW7T were C16 : 0 and summed feature 3 (C16 : 1 ω7c and/or iso-C15 : 0 2-OH). The genomic DNA G+C content was 56 mol% and the major isoprenoid quinone was Q-8. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain HW7T forms a distinct lineage with respect to closely related genera within the class Betaproteobacteria and that the levels of 16S rRNA gene sequence similarity with respect to the type species of related genera are less than 93 %. On the basis of the physiological and phylogenetic data, strain HW7T represents a novel genus and species of the Betaproteobacteria, for which the name Leeia oryzae gen. nov., sp. nov. is proposed. The type strain is HW7T (=KCTC 12585T=DSM 17879T).

Chitinophaga eiseniae sp. nov., isolated from vermicompost

2011 ◽  
Vol 61 (10) ◽  
pp. 2373-2378 ◽  
Author(s):  
Muhammad Yasir ◽  
Eu Jin Chung ◽  
Geun Cheol Song ◽  
Fehmida Bibi ◽  
Che Ok Jeon ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Polar Lipid Profile ◽  
The Family ◽  
Total Dna ◽  
Taxonomic Approach

A Gram-negative, rod-shaped bacterial strain, YC6729T, was isolated from vermicompost collected at Masan, Korea, and its taxonomic position was investigated by a polyphasic taxonomic approach. Strain YC6729T grew optimally at 30 °C and at pH 6.5–8.5. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YC6729T belongs to the genus Chitinophaga in the family Chitinophagaceae. It was related most closely to Chitinophaga terrae KP01T (96.4 % 16S rRNA gene sequence similarity), Chitinophaga ginsengisegetis Gsoil 040T (96.1 %), Chitinophaga arvensicola IAM 12650T (96.1 %) and Chitinophaga pinensis DSM 2588T (93.3 %). Strain YC6729T contained MK-7 as the major menaquinone and homospermidine as the major polyamine. The fatty acids of strain YC6729T were iso-C15 : 0, C16 : 1ω5c, iso-C17 : 0 3-OH, C16 : 0, anteiso-C18 : 0 and/or C18 : 2ω6,9c, iso-C15 : 0 2-OH and/or C16 : 1ω7c, C14 : 0, iso-C15 : 0 3-OH, iso-C15 : 1 G, C18 : 1ω5c, iso-C15 : 1 I and/or C13 : 0 3-OH, C13 : 0 2-OH, C16 : 0 3-OH and unknown fatty acid ECL 13.565. The polar lipid profile contained phosphatidylethanolamine, unknown aminolipids and unknown lipids. The total DNA G+C content of strain YC6729T was 48.9 mol%. The phenotypic, chemotaxonomic and phylogenetic data showed that strain YC6729T represents a novel species of the genus Chitinophaga, for which the name Chitinophaga eiseniae sp. nov. is proposed. The type strain is YC6729T ( = KACC 13774T  = DSM 22224T).

scholarly journals Siphonobacter aquaeclarae gen. nov., sp. nov., a novel member of the family ‘Flexibacteraceae’, phylum Bacteroidetes

2010 ◽  
Vol 60 (11) ◽  
pp. 2567-2571 ◽  
Author(s):  
András Táncsics ◽  
Zsuzsa Kéki ◽  
Károly Márialigeti ◽  
Peter Schumann ◽  
Erika M. Tóth
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
New Genus ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Water System ◽  
Cooling Water ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
The Family

A Gram-negative bacterium, designated P2T, was isolated from the biofilm developed on the inner surface of an ultrapure cooling water system in a Hungarian power plant and was characterized by a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain P2T was affiliated with the family ‘Flexibacteraceae’ in the phylum Bacteroidetes. Its closest relative was Flectobacillus lacus CL-GP79T (88.7 % 16S rRNA gene sequence similarity) followed by Arcicella rosea TW5T (86.5 %), Arcicella aquatica NO-502T (86.4 %), Flectobacillus roseus GFA-11T (86.3 %) and Flectobacillus major DSM 103T (85.4 %). Cells of strain P2T were facultatively anaerobic, non-motile rods. The major fatty acids were C16 : 1 ω5c (42.5 %), iso-C15 : 0 2-OH (17.2 %), iso-C17 : 0 3-OH (16.1 %) and iso-C15 : 0 (8.5 %). The major menaquinone was MK-7 and the predominant polar lipid was phosphatidylethanolamine. The DNA G+C content was 54.5 mol%. Thus, the phenotypic and genotypic analyses clearly showed that strain P2T is considerably different from members of other genera in the family ‘Flexibacteraceae’. Based on these results, it is concluded that strain P2T represents a novel species in a new genus, for which the name Siphonobacter aquaeclarae gen. nov., sp. nov. is proposed, with type strain P2T (=DSM 21668T =NCAIM B 02328T).

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