Streptomyces iranensis sp. nov., isolated from soil

2010 ◽  
Vol 60 (7) ◽  
pp. 1504-1509 ◽  
Author(s):  
Javad Hamedi ◽  
Fatemeh Mohammadipanah ◽  
Hans-Peter Klenk ◽  
Gabriele Pötter ◽  
Peter Schumann ◽  
...  

A novel streptomycete, designated strain HM 35T, was isolated from soil in Isfahan city, Iran. Strain HM 35T produced a branched substrate mycelium and aerial hyphae that developed into short, compact, spiral spore chains with grey rugose spores at the tips of the aerial hyphae. On some media, these spirals coalesced into dark masses of spores with age. Whole-cell hydrolysates of strain HM 35T contained ll-diaminopimelic acid, glucose and ribose. Phospholipids detected were phosphatidylglycerol, phosphatidylinositol, phosphatidylethanolamine, phosphatidylinositol mannosides, hydroxy-phosphatidylethanolamine, lyso-phosphatidylethanolamine and hydroxy-lyso-phosphatidylethanolamine. MK-9(H4), MK-9(H6) and MK-9(H8) were the predominant menaquinones. The major fatty acids were iso- and anteiso-branched components. The chemotaxonomic characteristics of the novel isolate matched those described for members of the genus Streptomyces. Based on 16S rRNA gene sequence analysis, strain HM 35T showed highest similarity to Streptomyces rapamycinicus NRRL 5491T (99.2 %), Streptomyces violaceusniger DSM 40563T (99.1 %), Streptomyces javensis DSM 41764T (99.1 %) and Streptomyces yogyakartensis DSM 41766T (99.1 %). The novel strain formed a distinct monophyletic line within the 16S rRNA gene sequence tree. The level of DNA–DNA relatedness between strain HM 35T and the type strain of S. rapamycinicus was 72.7 %. Strain HM 35T showed the typical morphology found among members of the S. violaceusniger/Streptomyces hygroscopicus group but could be clearly differentiated from closely related species based on other phenotypic markers. Phenotypic and genotypic data thus indicate that strain HM 35T represents a novel species of the genus Streptomyces, for which the name Streptomyces iranensis is proposed. The type strain is HM 35T (=DSM 41954T=CCUG 57623T).

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.


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).


2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2786-2790 ◽  
Author(s):  
Yuichi Nogi ◽  
Kozue Mori ◽  
Hiromi Uchida ◽  
Yuji Hatada

A novel marine bacterial strain designated JAMH 011T was isolated from the cold-seep sediment in Sagami Bay, Japan. Cells were Gram-stain-negative, rod-shaped, non-spore-forming, aerobic chemo-organotrophs and motile by means of a single polar flagellum. Growth occurred at temperatures below 31 °C, with the optimum at 25 °C. The major respiratory quinone was Q-10. The predominant fatty acid was C18 : 1ω7c. On the basis of 16S rRNA gene sequence analysis, the isolated strain was closely affiliated with members of the genus Shimia in the class Alphaproteobacteria, and the 16S rRNA gene sequence similarity of the novel isolate with the type strain of the closest related species, Shimia haliotis WM35T, was 98.1  %. The DNA G+C content of the novel strain was 57.3 mol%. The hybridization values for DNA–DNA relatedness between strain JAMH 011T and reference strains belonging to the genus Shimia were less than 9.4 ± 0.7  %. Based on differences in taxonomic characteristics, the isolated strain represents a novel species of the genus Shimia, for which the name Shimia sagamensis sp. nov. is proposed. The type strain is JAMH 011T ( = JCM 30583T = DSM 29734T)


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).


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.


2007 ◽  
Vol 57 (1) ◽  
pp. 126-135 ◽  
Author(s):  
Evgenya S. Shelobolina ◽  
Kelly P. Nevin ◽  
Jessie D. Blakeney-Hayward ◽  
Claudia V. Johnsen ◽  
Todd W. Plaia ◽  
...  

The goal of this project was to isolate representative Fe(III)-reducing bacteria from kaolin clays that may influence iron mineralogy in kaolin. Two novel dissimilatory Fe(III)-reducing bacteria, strains G12T and G13T, were isolated from sedimentary kaolin strata in Georgia (USA). Cells of strains G12T and G13T were motile, non-spore-forming regular rods, 1–2 μm long and 0.6 μm in diameter. Cells had one lateral flagellum. Phylogenetic analyses using the 16S rRNA gene sequence of the novel strains demonstrated their affiliation to the genus Geobacter. Strain G12T was most closely related to Geobacter pelophilus (94.7 %) and Geobacter chapellei (94.1 %). Strain G13T was most closely related to Geobacter grbiciae (95.3 %) and Geobacter metallireducens (95.1 %). Based on phylogenetic analyses and phenotypic differences between the novel isolates and other closely related species of the genus Geobacter, the isolates are proposed as representing two novel species, Geobacter argillaceus sp. nov. (type strain G12T=ATCC BAA-1139T=JCM 12999T) and Geobacter pickeringii sp. nov. (type strain G13T=ATCC BAA-1140T=DSM 17153T=JCM 13000T). Another isolate, strain R7T, was derived from a primary kaolin deposit in Russia. The cells of strain R7T were motile, spore-forming, slightly curved rods, 0.6×2.0–6.0 μm in size and with up to six peritrichous flagella. Strain R7T was capable of reducing Fe(III) only in the presence of a fermentable substrate. 16S rRNA gene sequence analysis demonstrated that this isolate is unique, showing less than 92 % similarity to bacteria of the Sporomusa–Pectinatus–Selenomomas phyletic group, including ‘Anaerospora hongkongensis’ (90.2 %), Acetonema longum (90.6 %), Dendrosporobacter quercicolus (90.9 %) and Anaerosinus glycerini (91.5 %). On the basis of phylogenetic analysis and physiological tests, strain R7T is proposed to represent a novel genus and species, Pelosinus fermentans gen. nov., sp. nov. (type strain R7T=DSM 17108T=ATCC BAA-1133T), in the Sporomusa–Pectinatus–Selenomonas group.


2007 ◽  
Vol 57 (4) ◽  
pp. 796-802 ◽  
Author(s):  
Iftikhar Ahmed ◽  
Akira Yokota ◽  
Toru Fujiwara

A motile, Gram-positive, boron-tolerant and moderately halotolerant rod-shaped bacterium was isolated from a soil naturally high in boron minerals found in the Hisarcik area of Turkey. The novel isolate, designated T-16XT, produced spherical or ellipsoidal endospores in a non-bulging or slightly swollen sporangium in a terminal position and survived in a medium containing up to 450 mM boron. Whereas it tolerated 11 % (w/v) NaCl, it also grew without NaCl or boron. The temperature range for growth was 16–37 °C (optimum 25–28 °C) and the pH range for growth was 6.0–10.0 (optimum pH 7.5–8.5). The DNA G+C content was 35.8 mol% and the major cellular fatty acids were iso-C15 : 0 and anteiso-C15 : 0 at 18.2 and 45.7 % of the total fatty acids, respectively. MK-7 (90 %) was the predominant respiratory quinone system and meso-diaminopimelic acid was the predominant diamino acid of the cell-wall peptidoglycan. Phylogenetic analysis of the 16S rRNA gene sequence revealed that the novel strain is closely related to the type strains of Gracilibacillus orientalis (96.7 % similarity), G. halotolerans (95.5 %) and G. dipsosauri (95.4 %). However, the maximum DNA hybridization value for this strain with these closely related strains was less than 26.2 %. On the basis of 16S rRNA gene sequence data and chemotaxonomic and physiological features, the organism T-16XT (=DSM 17256T=IAM 15263T=ATCC BAA-1190T) is proposed to be a member of the genus Gracilibacillus as the type strain of the novel species Gracilibacillus boraciitolerans sp. nov.


2015 ◽  
Vol 65 (Pt_10) ◽  
pp. 3476-3480 ◽  
Author(s):  
Long Jin ◽  
Hyung-Gwan Lee ◽  
So-Ra Ko ◽  
Chi-Yong Ahn ◽  
Hee-Mock Oh

A Gram-stain-positive, aerobic, non-motile, non-spore-forming, rod-shaped bacterium, designated strain PB158T, was isolated from grass soil sampled in Daejeon, Republic of Korea. Comparative 16S rRNA gene sequence studies placed the novel isolate in the class Actinobacteria, and most closely related to Jatrophihabitans endophyticus S9-650T and Jatrophihabitans soli KIS75-12T with 98.1 and 97.0 % 16S rRNA gene sequence similarity, respectively. Cells of strain PB158T formed yellow colonies on R2A agar, contained MK-9(H4) as the predominant menaquinone, meso-diaminopimelic acid as the diagnostic diamino acid, and included iso-C16 : 0, C18 : 1ω9c, and C17 : 1ω8c as the major fatty acids (>5 %). The acyl type was found to be N-glycolylated. The G+C content of genomic DNA of strain PB158T was 72.4 mol%. In DNA–DNA hybridizations, the DNA–DNA relatedness value observed between strain PB158T and the type strain of J. endophyticus was 21.8 % indicating that the two strains do not belong to the same species. Thus, the combined genotypic and phenotypic data supported the conclusion that strain PB158T represents a novel species of the genus Jatrophihabitans, for which the name Jatrophihabitans fulvus sp. nov. is proposed. The type strain is PB158T ( = KCTC 33605T = JCM 30448T).


2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1999-2005 ◽  
Author(s):  
Taishi Tsubouchi ◽  
Kozue Mori ◽  
Norio Miyamoto ◽  
Yoshihiro Fujiwara ◽  
Masaru Kawato ◽  
...  

A novel Gram-positive-staining, strictly aerobic and heterotrophic bacterium, designated strain LL-002T, was isolated from organics- and methane-rich seafloor sediment at a depth of 100 m in Kagoshima Bay, Kagoshima, Japan. Colonies were lustreless and translucent white in colour. The temperature, pH and salt concentration ranges for growth were 10–30 °C, pH 6.0–6.5 and 0–1 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences confirmed that strain LL-002T belongs to the genus Aneurinibacillus of the family Paenibacillaceae. 16S rRNA gene sequence similarities between strain LL-002T and the type strains of species of the genus Aneurinibacillus were 92.8–95.7 %; the highest sequence identity was with the type strain of Aneurinibacillus migulanus. The DNA G+C content of strain LL-002T was 46.2 mol%. MK-7 was the predominant menaquinone. The predominant cellular fatty acids were iso-C15 : 0 and anteiso-C15 : 0, and the cell-wall peptidoglycan contained meso-diaminopimelic acid and glutamic acid, glycine and alanine in addition to muramic acid and glucosamine. The peptidoglycan type was A1γ. In DNA–DNA hybridization assays between strain LL-002T and the type strains of the other species of the genus Aneurinibacillus, the level of hybridization was 6.3–30.1 %. On the basis of its biological features and the 16S rRNA gene sequence comparison presented here, strain LL-002T is considered to represent a novel species of the genus Aneurinibacillus, for which the name Aneurinibacillus tyrosinisolvens sp. nov. is proposed; the type strain is LL-002T ( = NBRC 110097T = CECT 8536T).


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