scholarly journals Granulosicoccus coccoides sp. nov., isolated from leaves of seagrass (Zostera marina)

2010 ◽  
Vol 60 (4) ◽  
pp. 972-976 ◽  
Author(s):  
Valerie V. Kurilenko ◽  
Richard Christen ◽  
Natalia V. Zhukova ◽  
Nataliya I. Kalinovskaya ◽  
Valery V. Mikhailov ◽  
...  
Keyword(s):  
Zostera Marina ◽  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Negative Bacterium ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Genotypic Characteristics

A non-pigmented, motile, Gram-negative bacterium, strain Z 271T, was isolated from the surface of leaves of the seagrass Zostera marina which was collected in Troitza Bay (Sea of Japan, Pacific Ocean). The new isolate grew between 5 °C and 28 °C and was slightly halophilic, tolerating environments containing up to 5 % (w/v) NaCl. Strain Z 271T was able to degrade Tweens 20, 40 and 80 and partially degrade gelatin, but was unable to degrade casein. Phosphatidylethanolamine (36.9 %) and phosphatidylglycerol (63.1 %) were the predominant phospholipids. The major fatty acids included C18 : 1 ω7c (43.7 %), C16 : 1 ω7c (31.1 %) and C16 : 0 (16.8 %). The main respiratory quinone was Q-8. The DNA–DNA relatedness value of strain Z 271T with Granulosicoccus antarcticus IMCC3135T was 35 %. The G+C content of the DNA of strain Z 271T was 60.2 mol%. On the basis of phenotypic and genotypic characteristics and 16S rRNA gene sequence analysis, strain Z 271T represents a novel species of the genus Granulosicoccus for which the name Granulosicoccus coccoides sp. nov. is proposed. The type strain is Z 271T (=KMM 6014T=CIP 109923T).

scholarly journals ‘Neisseria skkuensis’ sp. nov., isolated from the blood of a diabetic patient with a foot ulcer

2010 ◽  
Vol 59 (7) ◽  
pp. 856-859 ◽  
Author(s):  
Mi Young Lee ◽  
Eu Gene Park ◽  
Ji Young Choi ◽  
Hae Suk Cheong ◽  
Doo Ryeon Chung ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Foot Ulcer ◽  
Rrna Gene ◽  
Negative Bacterium ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
Microbiological Methods ◽  
Amoxicillin Clavulanate ◽  
Genotypic Characteristics

A Gram-negative bacterium was isolated from the blood of a patient with diabetes mellitus. However, it could not be identified by conventional microbiological methods, and so was characterized by phenotypic and genotypic analyses. 16S rRNA gene sequence analysis revealed that the strain belonged to the genus Neisseria. Based on the phenotypic and genotypic characteristics, we propose that strain SMC-A9199T (=KCTC 22696T=JCM 16127T) should be classified as a novel species, ‘Neisseria skkuensis’ sp. nov. The patient was further treated with amoxicillin–clavulanate and ciprofloxacin for 3 weeks.

scholarly journals Slackia equolifaciens sp. nov., a human intestinal bacterium capable of producing equol

2010 ◽  
Vol 60 (8) ◽  
pp. 1721-1724 ◽  
Author(s):  
Jong-Sik Jin ◽  
Maki Kitahara ◽  
Mitsuo Sakamoto ◽  
Masao Hattori ◽  
Yoshimi Benno
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Dimethyl Acetal ◽  
Rrna Gene ◽  
Intestinal Bacterium ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Bacterium Strain

An equol-producing bacterium, strain DZET, which was isolated from human faeces, was characterized by morphological, biochemical and molecular methods. The isolate was Gram-positive, obligately anaerobic, non-spore-forming, asaccharolytic and rod-shaped. 16S rRNA gene sequence analysis showed 92.8, 91.0, 91.1 and 90.6 % similarities with Slackia faecicanis, Slackia exigua, Slackia heliotrinireducens and Slackia isoflavoniconvertens, respectively. Based on these data, we propose a novel species of the genus Slackia, Slackia equolifaciens sp. nov. The major cellular fatty acids are C14 : 0, C18 : 1 ω9c and C18 : 1 ω9c DMA (dimethyl acetal). The DNA G+C content of the strain is 60.8 mol%. The type strain of S. equolifaciens sp. nov. is DZET (=JCM 16059T =CCUG 58231T).

scholarly journals Sphingobacterium daejeonense sp. nov., isolated from a compost sample

2006 ◽  
Vol 56 (9) ◽  
pp. 2031-2036 ◽  
Author(s):  
Kyoung-Ho Kim ◽  
Leonid N. Ten ◽  
Qing-Mei Liu ◽  
Wan-Taek Im ◽  
Sung-Taik Lee
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
The Family

A Gram-negative, strictly aerobic, rod-shaped, non-motile, non-spore-forming bacterial strain, designated TR6-04T, was isolated from compost and characterized taxonomically by using a polyphasic approach. The organism grew optimally at 30 °C and at pH 6.5–7.0. The isolate was positive for catalase and oxidase tests but negative for gelatinase, indole and H2S production. Comparative 16S rRNA gene sequence analysis showed that strain TR6-04T fell within the radiation of the cluster comprising Sphingobacterium species and clustered with Sphingobacterium mizutaii ATCC 33299T (96.7 % sequence similarity); the similarity to sequences of other species within the family Sphingobacteriaceae was less than 92.0 %. The G+C content of the genomic DNA was 38.7 mol%. The predominant respiratory quinone was MK-7. The major fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 4 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c). These chemotaxonomic data supported the affiliation of strain TR6-04T to the genus Sphingobacterium. However, on the basis of its phenotypic properties and phylogenetic distinctiveness, strain TR6-04T (=KCTC 12579T=LMG 23402T=CCUG 52468T) should be classified as the type strain of a novel species, for which the name Sphingobacterium daejeonense sp. nov. is proposed.

scholarly journals Bacillus panaciterrae sp. nov., isolated from soil of a ginseng field

2006 ◽  
Vol 56 (12) ◽  
pp. 2861-2866 ◽  
Author(s):  
Leonid N. Ten ◽  
Sang-Hoon Baek ◽  
Wan-Taek Im ◽  
Qing-Mei Liu ◽  
Zubair Aslam ◽  
...  
Keyword(s):  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Phenotypic Properties ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Distinct Phylogenetic Lineage

A Gram-positive, non-motile, endospore-forming bacterium, designated Gsoil 1517T, was isolated from soil of a ginseng field in Pocheon Province (South Korea) and was characterized in order to determine its taxonomic position, using a polyphasic approach. It was found to rod-shaped and aerobic or facultatively anaerobic. It grew optimally at 30 °C and at pH 6.5–7.0. Comparative 16S rRNA gene sequence analysis showed that strain Gsoil 1517T forms a distinct phylogenetic lineage within the genus Bacillus, being related to Bacillus funiculus JCM 11201T (96.8 %). The strain showed less than 94.3 % sequence similarity with other Bacillus species. The G+C content of the genomic DNA was found to be 47.8 mol% and the predominant respiratory quinone was MK-7. The major fatty acids were iso-C15 : 0 (42.4 %), anteiso-C15 : 0 (17.4 %), iso-C14 : 0 (9.7 %) and C16 : 0 (6.0 %). On the basis of its phenotypic properties and phylogenetic distinctiveness, strain Gsoil 1517T represents a novel species of the genus Bacillus, for which the name Bacillus panaciterrae sp. nov. is proposed. The type strain is Gsoil 1517T (=KCTC 13929T=CCUG 52470T=LMG 23408T).

scholarly journals Amycolatopsis stemonae sp. nov., isolated from a Thai medicinal plant

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3894-3899 ◽  
Author(s):  
Nattaporn Klykleung ◽  
Somboon Tanasupawat ◽  
Pattama Pittayakhajonwut ◽  
Moriya Ohkuma ◽  
Takuji Kudo
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis ◽  
Actinomycete Strain ◽  
Genotypic Characteristics ◽  
The 16S Rrna Gene

A novel actinomycete, strain ST1-08T, was isolated from the stem of Stemona sp. in Thailand. The taxonomic position of this isolate was determined by using a polyphasic approach. Strain ST1-08T contained meso-diaminopimelic acid in the cell-wall peptidoglycan, and arabinose and galactose as diagnostic sugars of the whole-cell hydrolysate, which are typical properties of members of the genus Amycolatopsis. Strain ST1-08T grew at 15–40 °C, pH 6–9 and on 5 % (w/v) NaCl. Gelatin liquefaction, starch hydrolysis and skimmed milk peptonization were positive. The strain utilized l-arabinose, d-glucose, glycerol, myo-inositol, d-mannitol and l-rhamnose. The predominant menaquinone was MK-9(H4) and the major cellular fatty acids were iso-C16 : 0 and iso-C15 : 0.The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, hydroxyl-phosphatidylethanolamine, phosphatidylinositol and phosphatidylglycerol. The 16S rRNA gene sequence analysis revealed that the strain was closely related to Amycolatopsis pretoriensis JCM 12673T (98.99 %) and Amycolatopsis lexingtonensis JCM 12672T (98.87 %). The DNA G+C content of strain ST1-08T was 71.2 mol%. The DNA–DNA relatedness values among strain ST1-08T, A. pretoriensis JCM 12673T and A. lexingtonensis JCM 12672T were lower than 70 %, the cut-off level for assigning strains to the same species. On the basis of phenotypic and genotypic characteristics, strain ST1-08T represents a novel species of the genus Amycolatopsis, for which the name Amycolatopsis stemonae is proposed. The type strain is ST1-08T( = JCM 30050T = PCU 339T = TISTR 2278T).

Nocardioides ungokensis sp. nov., isolated from lake sediment

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4857-4862 ◽  
Author(s):  
Yan Zhao ◽  
Qingmei Liu ◽  
Myung-Suk Kang ◽  
Fengxie Jin ◽  
Hongshan Yu ◽  
...  
Keyword(s):  
Genomic Dna ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Bacterium Strain

A Gram-reaction-positive, aerobic, coccus- to rod-shaped, non-motile, non-spore-forming bacterium (strain UKS-03T) was isolated from a sediment sample of Ungok Lake in Gochang, Republic of Korea. The taxonomic position of this bacterium was determined in an investigation based on a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain UKS-03T was shown to belong to the family Nocardioidaceae and to be related most closely to Nocardioides ginsengisegetis Gsoil 485T (98.5 % similarity), Nocardioides koreensis MSL-09T (98.4 %) and ‘Nocardioides panaciterrulae’ Gsoil 958 (97.3 %). Strain UKS-03T was characterized chemotaxonomically as having ll-2,6-diaminopimelic acid in its cell-wall peptidoglycan, MK-8(H4) as the predominant menaquinone, diphosphatidylglycerol and phosphatidylglycerol as the main polar lipids, and iso-C16 : 0, C17 : 1ω8c and C17 : 0 10-methyl as its major fatty acids. The G+C content of the genomic DNA was 71.9 mol%. Mean DNA–DNA relatedness values between strain UKS-03T and N. ginsengisegetis Gsoil 485T, N. koreensis KCTC 19272T and ‘N. panaciterrulae’ Gsoil 958 were 37.5 ± 7.2, 6.8 ± 0.9 and 3.1 ± 0.7 %, respectively. On the basis of the data from this polyphasic taxonomic study, strain UKS-03T represents a novel species of the genus Nocardioides, for which the name Nocardioides ungokensis sp. nov. is proposed. The type strain is UKS-03T ( = KACC 18304T = LMG 28591T).

scholarly journals Myroides marinus sp. nov., a member of the family Flavobacteriaceae, isolated from seawater

2011 ◽  
Vol 61 (4) ◽  
pp. 938-941 ◽  
Author(s):  
Sung-Heun Cho ◽  
Song-Hee Chae ◽  
Wan-Taek Im ◽  
Seung Bum Kim
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Gene Sequence Analysis ◽  
16S Rna ◽  
The Family ◽  
Myroides Odoratimimus ◽  
Bacterium Strain

A Gram-negative, aerobic, non-motile, yellow-pigmented, rod-shaped bacterium (strain JS-08T) isolated from seawater was subjected to a polyphasic taxonomic study. 16S rRNA gene sequence analysis indicated that strain JS-08T belongs to the genus Myroides, a member of the phylum Bacteroidetes. Its closest phylogenetic relative was Myroides odoratimimus JCM 7460T, with which it shared 97.0 % 16S RNA gene sequence similarity. Strain JS-08T contained menaquinone-6 (MK-6) as the predominant menaquinone, and the dominant fatty acids were iso-C15 : 0, iso-C17 : 0 3-OH and a summed feature consisting of iso-C15 : 0 2-OH and/or C16 : 1ω7c. The DNA G+C content of strain JS-08T was 34.2 mol%. Based on phenotypic, genotypic and phylogenetic evidence, it is suggested that strain JS-08T represents a novel species of the genus Myroides, for which the name Myroides marinus sp. nov. is proposed. The type strain is JS-08T ( = KCTC 23023T  = JCM 16529T).

scholarly journals Larkinella bovis sp. nov., isolated from fermented bovine products, and emended descriptions of the genus Larkinella and of Larkinella insperata Vancanneyt et al. 2006

2011 ◽  
Vol 61 (1) ◽  
pp. 30-34 ◽  
Author(s):  
Rangasamy Anandham ◽  
Soon-Wo Kwon ◽  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Major Respiratory Quinone ◽  
Motile By Gliding

A novel bacterial strain, designated M2T2B15T, was isolated from fermented bovine products and was characterized by using a polyphasic approach. Colonies were reddish pink and circular with entire margins. Cells were strictly aerobic, Gram-reaction-negative, oxidase- and catalase-positive rods that lacked flagella and were motile by gliding. Flexirubin-type pigments were absent. 16S rRNA gene sequence analysis indicated that strain M2T2B15T was related most closely to Larkinella insperata LMG 22510T (94.4 % similarity) but shared <87 % similarity with other members of the phylum Bacteroidetes. The major cellular fatty acids were C16 : 1 ω5c, iso-C15 : 0 and iso-C17 : 0 3-OH. The polar lipids were phosphatidylethanolamine, phosphatidylserine, two unidentified aminophospholipids and two unidentified polar lipids. Menaquinone 7 (MK-7) was the major respiratory quinone. The G+C content of the DNA of strain M2T2B15T was 52 mol%. The phenotypic, genotypic and phylogenetic data presented clearly indicate that strain M2T2B15T represents a novel species of the genus Larkinella, for which the name Larkinella bovis sp. nov. is proposed. The type strain is M2T2B15T (=KACC 14040T =NBRC 106324T). Emended descriptions of the genus Larkinella and of Larkinella insperata Vancanneyt et al. 2006 are also proposed.

scholarly journals Pandoraea thiooxydans sp. nov., a facultatively chemolithotrophic, thiosulfate-oxidizing bacterium isolated from rhizosphere soils of sesame (Sesamum indicum L.)

2010 ◽  
Vol 60 (1) ◽  
pp. 21-26 ◽  
Author(s):  
Rangasamy Anandham ◽  
Pandiyan Indiragandhi ◽  
Soon Wo Kwon ◽  
Tong Min Sa ◽  
Che Ok Jeon ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Sesamum Indicum ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Respiratory Quinone ◽  
Rhizosphere Soils ◽  
Cellular Fatty Acids ◽  
Gene Sequence Analysis

A facultatively chemolithoautotrophic, thiosulfate-oxidizing, Gram-negative, aerobic, motile, rod-shaped bacterial strain, designated ATSB16T, was isolated from rhizosphere soils of sesame (Sesamum indicum L.). 16S rRNA gene sequence analysis demonstrated that this strain was closely related to Pandoraea pnomenusa LMG 18087T (96.7 % similarity), P. pulmonicola LMG 18016T (96.5 %), P. apista LMG 16407T (96.2 %), P. norimbergensis LMG 18379T (96.1 %) and P. sputorum LMG 18819T (96.0 %). Strain ATSB16T shared 96.0–96.4 % sequence similarity with four unnamed genomospecies of Pandoraea. The major cellular fatty acids of the strain ATSB16T were C17 : 0 cyclo (33.0 %) and C16 : 0 (30.6 %). Q-8 was the predominant respiratory quinone. The major polar lipids were phosphatidylmethylethanolamine, diphosphatidylglycerol, phosphatidylethanolamine and two unidentified aminophospholipids. Hydroxyputrescine and putrescine were the predominant polyamines. The genomic DNA G+C content of the strain was 64.0 mol%. On the basis of the results obtained from this study, strain ATSB16T represents a novel species of the genus Pandoraea, for which the name Pandoraea thiooxydans sp. nov. is proposed. The type strain is ATSB16T (=KACC 12757T =LMG 24779T).

Anaerostipes rhamnosivorans sp. nov., a human intestinal, butyrate-forming bacterium

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 787-793 ◽  
Author(s):  
Thi Phuong Nam Bui ◽  
Willem M. de Vos ◽  
Caroline M. Plugge
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Rrna Gene ◽  
Strictly Anaerobic ◽  
Rrna Gene Sequence ◽  
Content Type ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Bacterium Strain ◽  
Physiological And Biochemical

A novel butyrate-producing bacterium, strain 1y-2T, was isolated from a stool sample of a 1-year-old, healthy Dutch infant. The isolate was obtained by using lactate and acetate as sources of carbon and energy. The strain was Gram-variable, strictly anaerobic and spore-forming and formed curly rod-shaped cells that fermented glucose into butyrate, lactate, formate and acetate as main products. The DNA G+C content of the strain was 44.5 mol% and its major cellular fatty acids were C12 : 0, iso-C19 : 1 I and C16 : 0. Strain 1y-2T was related to Anaerostipes caccae DSM 14662T based on 16S rRNA gene sequence analysis, with 3 % divergence, but hybridization studies of their genomic DNA revealed only 33 % relatedness. Moreover, strain 1y-2T showed marked physiological and biochemical differences from known species of the genus Anaerostipes . Based on phylogenetic, chemotypic and phenotypic criteria, we propose that strain 1y-2T should be classified in the genus Anaerostipes within a novel species, Anaerostipes rhamnosivorans sp. nov. The type strain is 1y-2T ( = DSM 26241T = KCTC 15316T).

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