scholarly journals Pseudokineococcus lusitanus gen. nov., sp. nov., and reclassification of Kineococcus marinus Lee 2006 as Pseudokineococcus marinus comb. nov.

2011 ◽  
Vol 61 (10) ◽  
pp. 2515-2519 ◽  
Author(s):  
Valme Jurado ◽  
Leonila Laiz ◽  
Alberto Ortiz-Martinez ◽  
Ingrid Groth ◽  
Cesareo Saiz-Jimenez

A Gram-reaction-positive, motile, coccus-shaped actinobacterium, designated strain T2A-S27T, was isolated from a roof tile in Oporto (Portugal) and studied using a polyphasic approach. The 16S rRNA gene sequence of the novel isolate showed high similarity to that of Kineococcus marinus KST3-3T (97.8 % sequence similarity). Strain T2A-S27T showed lower 16S rRNA gene sequence similarities with other members of the genus Kineococcus and members of the family Kineosporiaceae (<94 %). A phylogenetic tree, based on 16S rRNA gene sequences, showed that strain T2A-S27T formed a coherent clade with the type strain of K. marinus and Quadrisphaera granulorum. The isolate was characterized by the presence of meso-diaminopimelic acid in the cell-wall peptidoglycan, MK-9(H2) as the predominant menaquinone and a polar lipid profile consisting of diphosphatidylglycerol and phosphatidylglycerol. The fatty acid profile was dominated by anteiso-C15 : 0. The DNA G+C content was 76.9 mol%. The low level of DNA–DNA relatedness to K. marinus (46–47 %) and the results of the chemotaxonomic and physiological studies clearly distinguished strain T2A-S27T from recognized species of the genus Kineococcus. On the basis of its phylogenetic position and phenotypic traits, strain T2A-S27T ( = LMG 24148T  = CECT 7306T  = DSM 23768T) represents a novel species of a new genus in the family Kineosporiaceae, for which the name Pseudokineococcus lusitanus gen. nov., sp. nov. is proposed. The misclassified species K. marinus is transferred to the new genus as Pseudokineococcus marinus comb. nov. The type strain of Pseudokineococcus marinus is KST3-3T ( = KCCM 42250T  = NRRL B-24439T).

2011 ◽  
Vol 61 (8) ◽  
pp. 1954-1961 ◽  
Author(s):  
An Coorevits ◽  
Niall A. Logan ◽  
Anna E. Dinsdale ◽  
Gillian Halket ◽  
Patsy Scheldeman ◽  
...  

A polyphasic taxonomic study was performed on 22 thermotolerant, aerobic, endospore-forming bacteria from dairy environments. Seventeen isolates were retrieved from raw milk, one from a filter cloth and four from grass, straw or milking equipment. These latter four isolates (R-6546, R-7499, R-7764 and R-7440) were identified as Bacillus thermoamylovorans based on DNA–DNA hybridizations (values above 70 % with Bacillus thermoamylovorans LMG 18084T) but showed discrepancies in characteristics with the original species description, so an emended description of this species is given. According to 16S rRNA gene sequence analysis and DNA–DNA hybridization experiments, the remaining 18 isolates (R-6488T, R-28193, R-6491, R-6492, R-7336, R-33367, R-6486, R-6770, R-31288, R-28160, R-26358, R-7632, R-26955, R-26950, R-33520, R-6484, R-26954 and R-7165) represented one single species, most closely related to Bacillus thermoamylovorans (93.9 % 16S rRNA gene sequence similarity), for which the name Bacillus thermolactis is proposed. Cells were Gram-stain-positive, facultatively anaerobic, endospore-forming rods that grew optimally at 40–50 °C. The cell wall peptidoglycan type of strain R-6488T, the proposed type strain, was A1γ based on meso-diaminopimelic acid. Major fatty acids of the strains were C16 : 0 (28.0 %), iso-C16 : 0 (12.1 %) and iso-C15 : 0 (12.0 %). MK-7 was the predominant menaquinone, and major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and some unidentified phospholipids. DNA G+C content was 35.0 mol%. Phenotypic properties allowed discrimination from other thermotolerant species of the genus Bacillus and supported the description of the novel species Bacillus thermolactis, with strain R-6488T ( = LMG 25569T  = DSM 23332T) as the proposed type strain.


Author(s):  
Shuhei Yabe ◽  
Yoshifumi Aiba ◽  
Yasuteru Sakai ◽  
Masaru Hazaka ◽  
Akira Yokota

A thermophilic, Gram-positive bacterium that formed a branched vegetative mycelium was isolated from compost. The strain, designated I3T, grew at temperatures between 35 and 62 °C, with optimum growth at 50–55 °C. No growth was observed below 29 °C or above 65 °C. The pH range for growth was 5.7–10.0, the pH for optimum growth was 7.0 and no growth was observed below pH 5.6 or above pH 10.8. The DNA G+C content of strain I3T was 69.2 mol%. The major fatty acids found were C15 : 0 iso (14.2 %), C15 : 0 anteiso (12.1 %), C17 : 0 iso (16.3 %) and C17 : 0 anteiso (21.7 %). The major menaquinones were MK-9(H4), MK-10(H4) and MK-11(H4). The cell wall contained glutamic acid, glycine, alanine and ll-diaminopimelic acid in a molar ratio of 1.0 : 3.9 : 0.6 : 0.5. The polar lipids consisted of ninhydrin-positive phosphoglycolipids, phosphatidylglycerol, diphosphatidylglycerol and an unknown glycolipid. The cell-wall sugars were rhamnose and arabinose. 16S rRNA gene sequence analysis assigned this actinomycete to the family Nocardioidaceae, but its 16S rRNA gene sequence shared no more than 95.5 % similarity with those of other members of the family. The chemotaxonomic and phenotypic characteristics of strain I3T differed in some respects from those of members of the genus Actinopolymorpha, the most closely related genus. Therefore, strain I3T represents a novel species in a new genus of the family Nocardioidaceae, for which the name Thermasporomyces composti gen. nov., sp. nov. is proposed. The type strain of the type species is I3T (=JCM 16421T=DSM 22891T).


2011 ◽  
Vol 61 (9) ◽  
pp. 2238-2246 ◽  
Author(s):  
Ivone Vaz-Moreira ◽  
Vânia Figueira ◽  
Ana R. Lopes ◽  
Evie De Brandt ◽  
Peter Vandamme ◽  
...  

Two bacterial strains (SC-089T and SC-092T) isolated from sewage sludge compost were characterized by using a polyphasic approach. The isolates were Gram-negative short rods, catalase- and oxidase-positive, and showed good growth at 30 °C, at pH 7 and with 1 % (w/v) NaCl. Ubiquinone 8 was the major respiratory quinone, and phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol were amongst the major polar lipids. On the basis of 16S rRNA gene sequence analysis, the strains were observed to be members of the family Alcaligenaceae, but could not be identified as members of any validly described genus. The low levels of 16S rRNA gene sequence similarity to other recognized taxa, together with comparative analysis of phenotypic traits and chemotaxonomic markers, supported the proposal of a new genus within the family Alcaligenaceae, for which the name Candidimonas gen. nov. is proposed. Strains SC-089T and SC-092T, which shared 99.1 % 16S rRNA gene sequence similarity, could be differentiated at the phenotypic level, and DNA–DNA hybridization results supported their identification as representing distinct species. The names proposed for these novel species are Candidimonas nitroreducens sp. nov. (type strain, SC-089T = LMG 24812T = CCUG 55806T) and Candidimonas humi sp. nov. (type strain, SC-092T = LMG 24813T = CCUG 55807T).


2006 ◽  
Vol 56 (3) ◽  
pp. 569-576 ◽  
Author(s):  
Margarita Grabovich ◽  
Ekaterina Gavrish ◽  
Jan Kuever ◽  
Anatoly M. Lysenko ◽  
Daria Podkopaeva ◽  
...  

Five Gram-negative, motile, spiral-shaped strains were isolated from a sulfide spring (D-412T), active sludge of wastewater (D-419T, D-420, D-424) and industrial wastewater (D-416). Comparative 16S rRNA gene sequence analysis showed that the isolates belong to the family Comamonadaceae, within the class Betaproteobacteria, but fall into a distinct cluster. On the basis of phenotypic, chemotaxonomic and phylogenetic data, a new genus, Giesbergeria gen. nov., is proposed, including five species. The type species of the genus is Giesbergeria voronezhensis sp. nov. (type strain D-419T=DSM 12825T=CIP 107340T=VKM B-2350T) and other novel members of the genus are Giesbergeria kuznetsovii sp. nov. (type strain D-412T=DSM 12827T=VKM B-2352T), Giesbergeria giesbergeri comb. nov. (basonym Aquaspirillum giesbergeri), Giesbergeria sinuosa comb. nov. (basonym Aquaspirillum sinuosum) and Giesbergeria anulus comb. nov. (basonym Aquaspirillum anulus). Using the same criteria, isolate D-416 (=DSM 12826) was identified as a strain of [Aquaspirillum] metamorphum. Strain D-416, the type strain of [A.] metamorphum and the type strain of [Aquaspirillum] psychrophilum form a distinct cluster within the family Comamonadaceae (97–97·2 % 16S rRNA gene sequence similarity) and share phenotypic and chemotaxonomic properties. Therefore, it is proposed that these strains are reclassified as members of a new genus, Simplicispira gen. nov., as Simplicispira metamorpha comb. nov. (the type species) and Simplicispira psychrophila comb. nov., respectively.


2011 ◽  
Vol 61 (4) ◽  
pp. 834-838 ◽  
Author(s):  
Misa Otoguro ◽  
Hideki Yamamura ◽  
Tomohiko Tamura ◽  
Rohmatussolihat Irzaldi ◽  
Shanti Ratnakomala ◽  
...  

Two actinomycete strains, ID05-A0653T and ID06-A0464T, were isolated from soils of West Timor and Lombok island, respectively, in Indonesia. 16S rRNA gene sequence analysis clearly demonstrated that the isolates belonged to the family Pseudonocardiaceae and were closely related to the genus Actinophytocola. Strains ID05-A0653T and ID06-A0464T exhibited 98.1 and 98.2 % 16S rRNA gene sequence similarity, respectively, with Actinophytocola oryzae GMKU 367T. The isolates grew well on ISP media and produced white aerial mycelium. Short spore chains were formed directly on the substrate mycelium. The isolates contained meso-diaminopimelic acid, arabinose and galactose as cell-wall components, MK-9(H4) as the sole isoprenoid quinone, iso-C16 : 0 as the major cellular fatty acid and phosphatidylethanolamine as the diagnostic polar lipid. The DNA G+C contents of strains ID05-A0653T and ID06-A0464T were 69.7 and 71.2 mol%, respectively. On the basis of phenotypic characteristics, DNA–DNA relatedness and 16S rRNA gene sequence comparisons, strains ID05-A0653T and ID06-A0464T each represent a novel species of the genus Actinophytocola, for which the names Actinophytocola timorensis sp. nov. (type strain ID05-A0653T  = BTCC B-673T  = NBRC 105524T) and Actinophytocola corallina sp. nov. (type strain ID06-A0464T  = BTCC B-674T  = NBRC 105525T) are proposed.


2010 ◽  
Vol 60 (6) ◽  
pp. 1407-1412 ◽  
Author(s):  
C. Sánchez-Porro ◽  
M. A. Amoozegar ◽  
A. B. Fernandez ◽  
H. Babavalian fard ◽  
M. Ramezani ◽  
...  

A Gram-staining-positive, moderately halophilic bacterium, designated strain Amb31T, was isolated from water of the hypersaline lake Aran-Bidgol in Iran and characterized taxonomically using a polyphasic approach. Cells were rods, motile and able to produce ellipsoidal endospores at a central position in swollen sporangia. Strain Amb31T was facultatively anaerobic and catalase- and oxidase-positive. The strain grew in a complex medium supplemented with 3–25 % (w/v) NaCl (optimum 7.5–10 %). Optimal growth was at 30–35 °C and pH 7.5. Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that strain Amb31T belonged to the genus Lentibacillus; it exhibited 16S rRNA gene sequence similarity values of 96.8 and 96.4 % to Lentibacillus salicampi SF-20T and Lentibacillus salinarum AHS-1T, respectively, and values of 95.9–94.7 % to the type strains of other recognized species of Lentibacillus. The cell-wall peptidoglycan of strain Amb31T was based on meso-diaminopimelic acid and MK-7 was the respiratory isoprenoid quinone. The major fatty acids were anteiso-C15 : 0 (44.7 %), iso-C16 : 0 (21.4 %) and anteiso-C17 : 0 (15.9 %) and the polar lipid pattern consisted of phosphatidylglycerol, diphosphatidylglycerol, five phospholipids and a glycolipid. The DNA G+C content was 44.1 mol%. All these features confirmed the placement of strain Amb31T within the genus Lentibacillus and the strain could be clearly differentiated from strains of the other species of Lentibacillus on the basis of several phenotypic, genotypic and chemotaxonomic features. DNA–DNA relatedness with the type strain of the most closely related strain, L. salicampi DSM 16425T, was 28 %. Therefore, strain Amb31T represents a novel species of the genus Lentibacillus, for which the name Lentibacillus persicus sp. nov. is proposed. The type strain is Amb31T (=CCM 7683T =CECT 7524T =DSM 22530T =LMG 25304T).


2012 ◽  
Vol 62 (Pt_6) ◽  
pp. 1383-1388 ◽  
Author(s):  
Jie Li ◽  
Guang-Tao Zhang ◽  
Jian Yang ◽  
Xin-Peng Tian ◽  
Fa-Zuo Wang ◽  
...  

A novel filamentous bacterium, strain SCSIO 10219T, was isolated from a sediment sample collected from the South China Sea (113° 3.752′ E 18° 1.722′ N) at a depth of 2105 m. Growth was observed at 25–35 °C (optimum 30 °C) and pH 5.0–8.0 (optimum pH 6.0–7.0). The organism formed yellow–white colonies with radial wrinkles. Aerial mycelium was not produced on any of the growth media tested. Phenotypic characterization and 16S rRNA gene sequence analysis indicated that strain SCSIO 10219T belongs to the family Thermoactinomycetaceae . The strain contained ll-diaminopimelic acid in the cell wall. The predominant menaquinone was MK-7. The phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine and five unknown phospholipids. Major fatty acids were anteiso-C15 : 0 and iso-C15 : 0. The DNA G+C content was 46.5 mol%. On the basis of chemotaxonomic properties and phylogenetic analysis based on 16S rRNA gene sequence data, it is proposed that this strain represents a novel species in a new genus, Marininema mesophilum gen. nov., sp. nov., in the family Thermoactinomycetaceae . The type strain of the type species is SCSIO 10219T ( = CCTCC AA 2011006T = DSM 45610T). In addition, we propose that the description of the family Thermoactinomycetaceae should be further emended based on the present study.


2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2625-2629 ◽  
Author(s):  
Long Jin ◽  
Hyung-Gwan Lee ◽  
Hee-Sik Kim ◽  
Chi-Yong Ahn ◽  
Hee-Mock Oh

Two strains, PB34T and PB261T, were isolated from grass soil sampled in Daejeon, Republic of Korea. Comparative 16S rRNA gene sequence studies showed the two bacteria to be clearly affiliated with the phylum Actinobacteria and most closely related to the genus Geodermatophilus , showing 16S rRNA gene sequence similarities to the type strains of species of the genus Geodermatophilus of 95.0–96.3 % and sharing 98.5 % similarity between the two strains. The two strains were Gram-stain-positive, aerobic, motile and rod-shaped bacteria. The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. The predominant menaquinones were MK-9(H4) and MK-9(H0). The major fatty acids were iso-C15 : 0, iso-C16 : 0, iso-C17 : 0 and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) for strain PB34T and iso-C14 : 0, iso-C15 : 0, iso-C16 : 0 and C16 : 0 for strain PB261T. The G+C contents of the genomic DNA of strains PB34T and PB261T were 73.2 mol% and 74.1 mol%, respectively. Thus, based on the evidence of a polyphasic study, it is proposed that strains PB34T and PB261T represent two novel species, for which the names Geodermatophilus soli sp. nov. (type strain PB34T = KCTC 19880T = JCM 17785T) and Geodermatophilus terrae sp. nov. (type strain PB261T = KCTC 19881T = JCM 17786T) are proposed.


2011 ◽  
Vol 61 (8) ◽  
pp. 1817-1822 ◽  
Author(s):  
Xue-Wei Xu ◽  
Ying-Yi Huo ◽  
Chun-Sheng Wang ◽  
Aharon Oren ◽  
Heng-Lin Cui ◽  
...  

Two Gram-negative, motile, aerobic bacterial strains, designated B2T and 1_C16_27T, were respectively isolated from a seawater sample collected from the East China Sea and a semi-coke sample from north-eastern Estonia. Their genetic, phenotypic and chemotaxonomic properties were studied. The isolates were short rods with polar flagella and were positive for catalase and oxidase activities. Q-10 was the predominant respiratory ubiquinone. The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol and two unidentified glycolipids. The major fatty acids were nonadecanoic (C19 : 0 cyclo), octadecanoic (C18 : 0 and C18 : 0 3-OH), octadecenoic (C18 : 1) and hexadecanoic (C16 : 0) acids. The G+C content of the genomic DNA was 58.1–59.3 mol%. 16S rRNA gene sequence analysis revealed that the two isolates represent a distinct lineage within the family Hyphomicrobiaceae. The phylogenetically closest relatives were Cucumibacter (92.7–93.7 % 16S rRNA gene sequence similarity), Devosia (92.9–94.4 %) and Zhangella (91.7–92.1 %). Differential phenotypic properties, together with phylogenetic and genetic distinctiveness, revealed that strains B2T and 1_C16_27T could be differentiated from each other and from members of the genera Cucumibacter, Devosia and Zhangella. Therefore, it is proposed that strains B2T and 1_C16_27T represent two novel species in a new genus, for which the names Pelagibacterium halotolerans gen. nov., sp. nov. (the type species; type strain B2T  = CGMCC 1.7692T  = JCM 15775T) and Pelagibacterium luteolum sp. nov. (type strain 1_C16_27T  = CGMCC 1.10267T  = JCM 16552T  = CELMS EEUT 1C1627T) are proposed.


2007 ◽  
Vol 57 (10) ◽  
pp. 2207-2211 ◽  
Author(s):  
Kae Kyoung Kwon ◽  
Jung-Hee Woo ◽  
Sung-Hyun Yang ◽  
Ji-Hyun Kang ◽  
Sung Gyun Kang ◽  
...  

A novel marine bacterium, strain JCS350T, was isolated from marine sediment samples collected from a cold-seep area. The 16S rRNA gene sequence of the isolate showed high similarity to that of Erythrobacter luteolus SW-109T (95.9 % sequence similarity). Lower 16S rRNA gene sequence similarities were shown to other members of the genus Erythrobacter (94.6–95.4 %) and members of the genus Porphyrobacter (94.5–95.2 %). Phylogenetic analysis with all members of the family Erythrobacteraceae and several members of the family Sphingomonadaceae revealed that the isolate formed a phyletic line with [Erythrobacter] luteolus that was distinct from other members of the family Erythrobacteraceae. The dominant fatty acids of strain JCS350T were 18 : 1ω7c, 16 : 1ω7c and cyclopropane 17 : 0. The major respiratory quinone was ubiquinone 10. The DNA G+C content was 54.5 mol%. The isolate did not contain bacteriochlorophyll a. Optimal growth required the presence of 2 % (w/v) NaCl with either 0.18 % CaCl2 or 0.59 % MgCl2, at pH 6.5 and at 35 °C. On the basis of the evidence of this polyphasic taxonomic study, strain JCS350T should be classified in a novel genus and species in the family Erythrobacteraceae, for which the name Altererythrobacter epoxidivorans gen. nov., sp. nov. is proposed. The misclassified species [Erythrobacter] luteolus is transferred to the new genus as Altererythrobacter luteolus comb. nov. The type strain of Altererythrobacter epoxidivorans is JCS350T (=KCCM 42314T =JCM 13815T) and the type strain of Altererythrobacter luteolus is SW-109T (=KCTC 12311T =JCM 12599T).


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