scholarly journals Allocatelliglobosispora scoriae gen. nov., sp. nov., isolated from volcanic ash

2011 ◽  
Vol 61 (2) ◽  
pp. 264-270 ◽  
Author(s):  
Dong Wan Lee ◽  
Soon Dong Lee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Volcanic Ash ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Rrna Gene ◽  
The Family ◽  
Diamino Acid ◽  
Type Strains ◽  
The 16S Rrna Gene

A novel actinomycete, designated strain Sco-B14T, was isolated from volcanic ash collected near Darangshi Oreum (a parasitic or satellite volcano) in Jeju, Republic of Korea. The organism formed well-developed, branched substrate mycelium, on which short chains of non-motile spores were arranged singly or in clusters. Aerial mycelium was not produced. Globose bodies were observed. The reverse colour of colonies was light brown to brown. Diffusible pigments were produced on ISP medium 3 and oatmeal-nitrate agar. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Sco-B14T formed a lineage within the family Micromonosporaceae and was distinct from established genera. The 16S rRNA gene sequence similarity of strain Sco-B14T to members of related genera of the family was 95.0–95.7 % to type strains of Catellatospora species, 94.7 % to Hamadaea tsunoensis IMSNU 22005T, 94.7 % to Longispora albida K97-0003T and 94.0 % to Catelliglobosispora koreensis LM 042T. 3-Hydroxydiaminopimelic acid was the diagnostic diamino acid in the cell-wall peptidoglycan. Whole-cell sugars were glucose, rhamnose, ribose, xylose, arabinose, galactose and mannose. The polar lipids included diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. The menaquinone profile contained MK-10(H4) (49 %), MK-9(H4) (24 %), MK-10(H6) (18 %) and MK-9(H6) (9 %). The predominant fatty acids were iso-C15 : 0 and C17 : 0. The DNA G+C content was 70.1 mol%. The combination of chemotaxonomic and phylogenetic data clearly separated the isolate from the type strains of all genera in the family Micromonosporaceae. On the basis of the phylogenetic and chemotaxonomic data presented in this paper, strain Sco-B14T is considered to represent a novel species of a new genus in the family Micromonosporaceae, for which the name Allocatelliglobosispora scoriae gen. nov., sp. nov. is proposed. The type strain of Allocatelliglobosispora scoriae is Sco-B14T (=KCTC 19661T =DSM 45362T).

scholarly journals Winogradskyella pacifica sp. nov., a marine bacterium of the family Flavobacteriaceae

2010 ◽  
Vol 60 (8) ◽  
pp. 1948-1951 ◽  
Author(s):  
Seung Bum Kim ◽  
Olga I. Nedashkovskaya
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
The Novel ◽  
The Family ◽  
Phyletic Line ◽  
Taxonomic Examination ◽  
Type Strains ◽  
The 16S Rrna Gene

A novel strain, designated KMM 6019T, was isolated from coastal seawater and subjected to taxonomic examination using a polyphasic approach. A comparative analysis of 16S rRNA gene sequences revealed that strain KMM 6019T formed a distinct phyletic line within the genus Winogradskyella, a member of the family Flavobacteriaceae, phylum Bacteroidetes. The 16S rRNA gene sequence similarity between the novel isolate and the type strains of the recognized species of the genus Winogradskyella was 94.0–97.8 %. Winogradskyella thalassocola KMM 3907T was the closest relative, with 97.8 % sequence similarity. The predominant fatty acids of strain KMM 6019T were iso-C15 : 0, iso-C15 : 1, anteiso-C15 : 0, iso-C15 : 0 3-OH, iso-C16 : 0 3-OH, C15 : 0, iso-C17 : 0 3-OH and summed feature 3 comprising iso-C15 : 0 2-OH and/or C16 : 1 ω7c, which are characteristic for members of the genus Winogradskyella. The DNA G+C content was 35.3 mol%. Strain KMM 6019T moved by gliding and grew with 1–5 % NaCl and at 4–30 °C. The novel strain degraded gelatin, casein and starch and produced acid from cellobiose, d-glucose and maltose. Strain KMM 6019T could clearly be differentiated from the other Winogradskyella species by the ability to utilize inositol and sorbitol and to produce hydrogen sulphide. On the basis of phylogenetic and phenotypic findings, strain KMM 6019T is considered to represent a novel species of the genus Winogradskyella, for which the name Winogradskyella pacifica sp. nov. is proposed. The type strain is KMM 6019T (=KCTC 22997T=LMG 22568T).

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).

Longimycelium tulufanense gen. nov., sp. nov., a filamentous actinomycete of the family Pseudonocardiaceae

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2813-2818 ◽  
Author(s):  
Zhan-Feng Xia ◽  
Tong-Wei Guan ◽  
Ji-Sheng Ruan ◽  
Ying Huang ◽  
Li-Li Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
North West ◽  
Link Type ◽  
The Family

A novel filamentous actinomycete strain, designated TRM 46004T, was isolated from sediment of Aiding Lake in Tulufan Basin (42° 64′ N 89° 26′ E), north-west China. The isolate was characterized using a polyphasic approach. The isolate formed abundant aerial mycelium with few branches and vegetative mycelium, occasionally twisted and coiled; spherical sporangia containing one to several spherical spores developed at the ends of short sporangiophores on aerial mycelium. The G+C content of the DNA was 65.2 mol%. The isolate contained meso-diaminopimelic acid as the diagnostic diamino acid and xylose, galactose and ribose as the major whole-cell sugars. The diagnostic phospholipids were phosphatidylethanolamine, phosphatidylcholine and phosphatidylglycerol. The predominant menaquinones were MK-9(H4), MK-9(H6) and MK-9(H10). The major fatty acids were iso-C16 : 0 and anteiso-C17 : 0. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain TRM 46004T formed a distinct lineage within the family Pseudonocardiaceae and showed 91.7–96.1 % 16S rRNA gene sequence similarity with members of the family Pseudonocardiaceae . On the basis of the evidence from this polyphasic study, a novel genus and species, Longimycelium tulufanense gen. nov., sp. nov., are proposed. The type strain of Longimycelium tulufanense is TRM 46004T ( = CGMCC 4.5737T = NBRC 107726T).

scholarly journals Miniimonas arenae gen. nov., sp. nov., an actinobacterium isolated from sea sand

2011 ◽  
Vol 61 (1) ◽  
pp. 123-127 ◽  
Author(s):  
Harumi Ue ◽  
Yoshihide Matsuo ◽  
Hiroaki Kasai ◽  
Akira Yokota
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Signature ◽  
Rrna Gene ◽  
Sea Sand ◽  
The Family ◽  
Diamino Acid ◽  
Unknown Phospholipid ◽  
Taxonomic Approach ◽  
Type Strains

A Gram-positive, non-motile, coccoid- to rod-shaped, non-spore-forming bacterium, designated strain YM18-15T, was isolated from sea sand and studied using a polyphasic taxonomic approach. Strain YM18-15T grew under both aerobic and anaerobic conditions. The cell-wall peptidoglycan type was A4β and ornithine was the diagnostic diamino acid. The polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol and an unknown phospholipid, MK-8(H4) was the major menaquinone and the predominant fatty acids were anteiso-C15 : 0 and C16 : 0. The DNA G+C content was 74.2 mol%. High 16S rRNA gene sequence similarities (96.3–97.3 %) were found with the sequences of the type strains of the three genera of the family Beutenbergiaceae. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YM18-15T formed a clade with Serinibacter salmoneus, Salana multivorans and Beutenbergia cavernae. Strain YM18-15T differed from these three type strains in chemotaxonomic characteristics and in 16S rRNA gene signature nucleotides. Based on genetic and chemotaxonomic evidence, it is suggested that strain YM18-15T represents a novel species of a new genus within the family Beutenbergiaceae, for which the name Miniimonas arenae gen. nov., sp. nov. is proposed. The type strain of the type species is YM18-15T (=NBRC 106267T=KCTC 19750T=MBIC 08348T).

scholarly journals Desulfoplanes formicivorans gen. nov., sp. nov., a novel sulfate-reducing bacterium isolated from a blackish meromictic lake, and emended description of the family Desulfomicrobiaceae

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1902-1907 ◽  
Author(s):  
Miho Watanabe ◽  
Hisaya Kojima ◽  
Manabu Fukui
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Meromictic Lake ◽  
Phenotypic Characterization ◽  
Rrna Gene ◽  
The Novel ◽  
Sulfate Reducing ◽  
The Family ◽  
The 16S Rrna Gene

A novel sulfate-reducing bacterium, designated strain Pf12BT, was isolated from sediment of meromictic Lake Harutori in Japan. Cells were vibroid (1.0 × 3.0–4.0 μm), motile and Gram-stain-negative. For growth, the optimum pH was 7.0–7.5 and the optimum temperature was 42–45 °C. Strain Pf12BT used sulfate, thiosulfate and sulfite as electron acceptors. The G+C content of the genomic DNA was 55.4 mol%. Major cellular fatty acids were C16 : 0 and C18 : 0. The strain was desulfoviridin-positive. Phylogenetic analysis based on the 16S rRNA gene revealed that the novel strain belonged to the order Desulfovibrionales in the class Deltaproteobacteria. The closest relative was Desulfomicrobium baculatum DSM 4028T with which it shared 91  % 16S rRNA gene sequence similarity. On the basis of phylogenetic and phenotypic characterization, a novel species of a new genus belonging to the family Desulfomicrobiaceae is proposed, Desulfoplanes formicivorans gen. nov., sp. nov. The type strain of Desulfoplanes formicivorans is Pf12BT ( = NBRC 110391T = DSM 28890T).

scholarly journals Seonamhaeicola aphaedonensis gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from a tidal flat sediment

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1876-1881 ◽  
Author(s):  
Sooyeon Park ◽  
Sung-Min Won ◽  
Doo-Sang Park ◽  
Jung-Hoon Yoon
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Tidal Flat ◽  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A Gram-stain-negative, non-motile, rod-shaped bacterial strain, AH-M5T, which was isolated from a tidal flat sediment at Aphae Island in South Korea, was characterized taxonomically. Strain AH-M5T grew optimally at 25 °C, at pH 7.0–8.0 and in presence of 2.0 % (w/v) NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain AH-M5T clustered coherently with the type strains of Mangrovimonas yunxiaonensis and Meridianimaribacter flavus , showing 93.4–94.3 % sequence similarity. The novel strain exhibited 16S rRNA gene sequence similarity values of less than 93.4 % to the type strains of other recognized species. Strain AH-M5T contained MK-6 as the predominant menaquinone and iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 0 3-OH and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) as the major fatty acids. The polar lipid profile of strain AH-M5T containing phosphatidylethanolamine and one unidentified lipid as major components was differentiated from those of the type strains of Mangrovimonas yunxiaonensis and Meridianimaribacter flavus . The DNA G+C content of strain AH-M5T was 34.8 mol%. Differential phenotypic properties, together with the phylogenetic and chemotaxonomic data, demonstrated that strain AH-M5T is distinguished from Mangrovimonas yunxiaonensis and Meridianimaribacter flavus . On the basis of the data presented, strain AH-M5T is considered to represent a novel genus and species within the family Flavobacteriaceae , for which the name Seonamhaeicola aphaedonensis gen. nov., sp. nov. is proposed. The type strain of the type species is AH-M5T ( = KCTC 32578T = CECT 8487T).

scholarly journals Microbacterium lindanitolerans sp. nov., isolated from hexachlorocyclohexane-contaminated soil

2010 ◽  
Vol 60 (11) ◽  
pp. 2634-2638 ◽  
Author(s):  
Devi Lal ◽  
Sanjay Kumar Gupta ◽  
Peter Schumann ◽  
Rup Lal
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Contaminated Soil ◽  
Sequence Similarity ◽  
North India ◽  
Molar Ratio ◽  
Rrna Gene ◽  
The Family ◽  
Cross Linkage ◽  
Diamino Acid

A Gram-stain-positive, aerobic, rod-shaped, yellow actinobacterium, designated MNA2T, was isolated from a hexachlorocyclohexane-contaminated soil in North India. Strain MNA2T showed 95 % 16S rRNA gene sequence similarity with Microbacterium halotolerans YIM 70130T. Phylogenetic analysis of 16S rRNA gene sequences showed that strain MNA2T belonged to a clade represented by the genus Microbacterium of the family Microbacteriaceae. Strain MNA2T contained anteiso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0 and iso-C15 : 0 as the predominant fatty acids and diphosphatidylglycerol, phosphatidylglycerol and two unknown polar lipids. The menaquinones were MK-12, MK-11, MK-13 and MK-10, in an approximate molar ratio of 45 : 40 : 13 : 3, respectively. The DNA G+C content was 65.3 mol%. The peptidoglycan was of the B type of cross-linkage with ornithine as the diagnostic diamino acid. The results of the phylogenetic, phenotypic and chemotaxonomic analysis indicate that strain MNA2T belongs to a previously unrecognized species of the genus Microbacterium, for which the name Microbacterium lindanitolerans sp. nov. is proposed. The type strain is MNA2T (=DSM 22422T =CCM 7585T).

scholarly journals Leucobacter iarius sp. nov., in the family Microbacteriaceae

2007 ◽  
Vol 57 (4) ◽  
pp. 682-686 ◽  
Author(s):  
Vishal S. Somvanshi ◽  
Elke Lang ◽  
Peter Schumann ◽  
Rüdiger Pukall ◽  
R. M. Kroppenstedt ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Entomopathogenic Nematode ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Analysis ◽  
Cross Linkage ◽  
Diamino Acid ◽  
Bacterium Strain ◽  
Type Strains

A novel Gram-positive bacterium, strain 40T, was isolated in the course of identifying bacteria from infective juveniles of the entomopathogenic nematode Steinernema thermophilum. Based on 16S rRNA gene analysis, strain 40T was found to be related to the type strains of recognized species of the genus Leucobacter, family Microbacteriaceae. The 16S rRNA gene sequence similarity values of strain 40T and Leucobacter albus IAM 14851T, Leucobacter luti LMG 23118T, Leucobacter alluvii LMG 23117T, Leucobacter komagatae DSM 8803T, Leucobacter chromiireducens CIP 108389T and Leucobacter aridicollis CIP 108388T, respectively, were 97.3, 97.5, 97.6, 97.6, 97.6 and 98.5 %. Chemotaxonomic analysis also supported the affiliation of strain 40T to the genus Leucobacter: the major menaquinone was MK-11, the peptidoglycan cross-linkage was of the B-type, the cell wall diamino acid was l-diaminobutyric acid and the major fatty acids were anteiso-C15 : 0 (42 %), anteiso-C17 : 0 (34 %) and iso-C16 : 0 (16 %). Based upon the biochemical and genomic analyses, strain 40T is sufficiently distinct from the type strains of recognized Leucobacter species to warrant the description of a novel species, for which the name Leucobacter iarius sp. nov. is proposed. The type strain is strain 40T (=DSM 17402T=CIP 108831T).

scholarly journals Ochrobactrum pseudintermedium sp. nov., a novel member of the family Brucellaceae, isolated from human clinical samples

2007 ◽  
Vol 57 (5) ◽  
pp. 1007-1013 ◽  
Author(s):  
Corinne Teyssier ◽  
Hélène Marchandin ◽  
Hélène Jean-Pierre ◽  
Agnès Masnou ◽  
Ghislaine Dusart ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Clinical Samples ◽  
Rrna Gene ◽  
The Family ◽  
Ochrobactrum Intermedium ◽  
Physiological And Biochemical ◽  
The 16S Rrna Gene

Three novel Gram-negative, non-fermenting aerobic bacilli were isolated from human clinical samples. They shared more than 99.8 % of the 16S rRNA gene nucleotide positions. The strains were related to Ochrobactrum intermedium with about 97.48 % 16S rRNA gene sequence similarity. In 16S rRNA gene-, dnaK- and rpoB-based phylogenies, the strains were grouped in a lineage that was distinct from other Ochrobactrum species in the family Brucellaceae. Fatty acid composition, polar lipids, quinone system, DNA–DNA relatedness, genome organization, and physiological and biochemical data differentiated these isolates from recognized species of the genus Ochrobactrum. The three clinical strains therefore represent a novel species within the genus Ochrobactrum, for which the name Ochrobactrum pseudintermedium sp. nov., is proposed. The type strain is ADV31T (=CIP 109116T=DSM 17490T). The DNA G+C content of strain ADV31T was 54.5 mol%.

scholarly journals hsp60 and 16S rRNA gene sequence relationships among species of the genus Bacteroides with the finding that Bacteroides suis and Bacteroides tectus are heterotypic synonyms of Bacteroides pyogenes

2010 ◽  
Vol 60 (12) ◽  
pp. 2984-2990 ◽  
Author(s):  
Mitsuo Sakamoto ◽  
Natsuko Suzuki ◽  
Yoshimi Benno
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Gene Sequence ◽  
Sequence Similarity ◽  
Single Species ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
Type Strains ◽  
The 16S Rrna Gene

hsp60 gene sequences were determined for members of the genus Bacteroides and sequence similarities were compared with those obtained for the 16S rRNA gene. Among the 29 Bacteroides type strains, the mean sequence similarity of the hsp60 gene (84.5 %) was significantly less than that of the 16S rRNA gene (90.7 %), indicating a high discriminatory power of the hsp60 gene. Species of the genus Bacteroides were differentiated well by hsp60 gene sequence analysis, except for Bacteroides pyogenes JCM 6294T, Bacteroides suis JCM 6292T and Bacteroides tectus JCM 10003T. The hsp60 gene sequence analysis and the levels of DNA–DNA relatedness observed demonstrated that these three type strains are a single species. Consequently, B. suis and B. tectus are heterotypic synonyms of B. pyogenes. This study suggests that the hsp60 gene is an alternative phylogenetic marker for the classification of species of the genus Bacteroides.

Sign in / Sign up

Export Citation Format

Share Document