scholarly journals Actinomadura syzygii sp. nov., an endophytic actinomycete isolated from the roots of a jambolan plum tree (Syzygium cumini L. Skeels)

2015 ◽  
Vol 65 (Pt_6) ◽  
pp. 1946-1949 ◽  
Author(s):  
Hathairat Rachniyom ◽  
Atsuko Matsumoto ◽  
Chantra Indananda ◽  
Kannika Duangmal ◽  
Yoko Takahashi ◽  
...  
Keyword(s):  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Syzygium Cumini ◽  
Endophytic Actinomycete ◽  
Mycolic Acids ◽  
Phyletic Line ◽  
Actinomycete Strain ◽  
Taxonomic Approach ◽  
Short Spiral ◽  
Plum Tree

The taxonomic position of an endophytic actinomycete, strain GKU 157T, isolated from the roots of a jambolan plum tree (Syzygium cumini L. Skeels) collected at Khao Khitchakut National Park, Chantaburi province, Thailand, was determined using a polyphasic taxonomic approach. 16S rRNA gene sequence analysis revealed that strain GKU 157T belongs to the genus Actinomadura and formed a distinct phyletic line with Actinomadura chibensis NBRC 106107T (98.6 % similarity). Strain GKU 157T formed an extensively branched, non-fragmenting substrate mycelium and aerial hyphae that differentiated into hooked to short spiral chains of about 20 non-motile spores with a warty surface. The cell wall contained meso-diaminopimelic acid and the whole-cell sugars were galactose, glucose, madurose, mannose and ribose. The N-acyl type of muramic acid was acetyl. Mycolic acids were absent. The phospholipids included phosphatidylglycerol (PG), diphosphatidylglycerol (DPG), phosphatidylinositol (PI), phosphatidylinositolmannoside (PIM) and two unknown phospholipids (PLs). The major menaquinone was MK-9(H6) and the predominant fatty acids were C16:0, iso-C16:0, C18:1ω9c, C18:0 and 10-methyl C18:0 (tuberculostearic acid). The genomic DNA G+C content was 73.1 mol%. A combination of DNA–DNA hybridization results and significant differences from related species in cultural, physiological and chemical characteristics indicated that strain GKU 157T represents a novel species of the genus Actinomadura, for which the name Actinomadura syzygii sp. nov. is proposed. The type strain is GKU 157T ( = BCC 70456T = NBRC 110399T).

Actinoallomurus acaciae sp. nov., an endophytic actinomycete isolated from Acacia auriculiformis A. Cunn. ex Benth.

2010 ◽  
Vol 60 (3) ◽  
pp. 554-559 ◽  
Author(s):  
Arinthip Thamchaipenet ◽  
Chantra Indananda ◽  
Chakrit Bunyoo ◽  
Kannika Duangmal ◽  
Atsuko Matsumoto ◽  
...  
Keyword(s):  
Novel Species ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Acacia Auriculiformis ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Endophytic Actinomycete ◽  
Phyletic Line ◽  
Actinomycete Strain ◽  
Short Spiral

A novel endophytic actinomycete, strain GMKU 931T, was isolated from the root of a wattle tree, Acacia auriculiformis A. Cunn. ex Benth., collected at Kasetsart University, Bangkok, Thailand. Strain GMKU 931T produced short spiral chains of smooth-surfaced spores on the aerial mycelium. Lysine and meso-diaminopimelic acid were present in the cell-wall peptidoglycan. Whole-cell hydrolysates contained galactose, madurose and mannose. The predominant menaquinones were MK-9(H6) and MK-9(H8). The major fatty acids were iso-C16 : 0 and iso-C16 : 1. The major phospholipids were phosphatidylinositol and phosphatidylglycerol. A phylogenetic analysis based on 16S rRNA gene sequences suggested that strain GMKU 931T forms a distinct phyletic line within the recently proposed genus Actinoallomurus. The significant differences in phenotypic and genotypic data indicate that strain GMKU 931T represents a novel species of the genus Actinoallomurus, for which the name Actinoallomurus acaciae sp. nov. is proposed. The type strain is GMKU 931T (=BCC 28622T =NBRC 104354T =NRRL B-24610T).

scholarly journals Nonomuraea syzygii sp. nov., an endophytic actinomycete isolated from the roots of a jambolan plum tree (Syzygium cumini L. Skeels)

2015 ◽  
Vol 65 (Pt_4) ◽  
pp. 1234-1240 ◽  
Author(s):  
Hathairat Rachniyom ◽  
Atsuko Matsumoto ◽  
Chantra Indananda ◽  
Kannika Duangmal ◽  
Yoko Takahashi ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Syzygium Cumini ◽  
Content Type ◽  
Endophytic Actinomycete ◽  
Link Type ◽  
Plum Tree

A novel endophytic actinomycete, designated strain GKU 164T, was isolated from the roots of a jambolan plum tree (Syzygium cumini L. Skeels), collected at Khao Khitchakut National Park, Chantaburi province, Thailand. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain formed a distinct clade within the genus Nonomuraea , and was most closely related to Nonomuraea monospora PT708T (98.77 % 16S rRNA gene sequence similarity) and Nonomuraea thailandensis KC-061T (98.73 %). Strain GKU 164T formed a branched substrate and aerial hyphae that generated single spores with rough surfaces. The cell wall contained meso-diaminopimelic acid. The whole-cell sugars were madurose, galactose, mannose, ribose, rhamnose and glucose. The N-acyl type of muramic acid was acetyl. The predominant menaquinone was MK-9(H4) with minor amounts of MK-9(H6), MK-9(H2) and MK-9(H0). The phospholipid profile contained diphosphatidylglycerol, phosphatidylethanolamine, hydroxy-phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositolmannosides, phosphatidylmonomethylethanolamine, hydroxy-phosphatidylmonomethylethanolamine, an unidentified aminophosphoglycolipid and four unknown phospholipids. The major fatty acids were iso-C16 : 0 and 10-methyl C17 : 0. The genomic DNA G+C content was 70.4 mol%. Significant differences in the morphological, chemotaxonomical, and biochemical data together with DNA–DNA relatedness values between strain GKU 164T and type strains of closely related species, clearly demonstrated that strain GKU 164T represents a novel species of the genus Nonomuraea , for which the name Nonomuraea syzygii sp. nov. is proposed. The type strain is GKU 164T ( = BCC 70457T = NBRC 110400T).

Dactylosporangium siamense sp. nov., isolated from soil

2013 ◽  
Vol 63 (Pt_11) ◽  
pp. 4033-4038 ◽  
Author(s):  
Chitti Thawai ◽  
Chanwit Suriyachadkun
Keyword(s):  
Novel Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Mycolic Acids ◽  
Cellular Fatty Acids ◽  
Link Type ◽  
Tropical Forest Soil ◽  
Actinomycete Strain

A novel actinomycete strain, designed MW4-36T, was isolated from tropical forest soil in Nakhon Sawan Province, Thailand. Morphological and chemotaxonomic characteristics of this strain clearly demonstrated that it belongs to the genus Dactylosporangium . The strain formed finger-shaped sporangia on short sporangiophores that emerged directly from substrate hyphae. The cell-wall peptidoglycan contained glutamic acid, glycine, alanine and meso-diaminopimelic acid including 3-hydroxy-meso-diaminopimelic acid; arabinose, glucose, rhamnose, ribose and xylose were found as whole-cell sugars. The diagnostic phospholipids were phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol; no phosphatidylcholine was found. The predominant menaquinones were MK-9(H8) and MK-9(H6). Mycolic acids were not detected. The predominant cellular fatty acids were iso-C15 : 0, iso-C16 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. The G+C content of the genomic DNA was 72.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences also indicated that the strain should be classified in the genus Dactylosporangium and showed that the closest relative was Dactylosporangium maewongense JCM 15933T (99.4 % similarity). These taxonomic data revealed that strain MW4-36T could be readily distinguished from its phylogenetically closest relative. On the basis of these phenotypic and genotypic data, strain MW4-36T is considered to represent a novel species, for which the name Dactylosporangium siamense sp. nov. is proposed. The type strain is MW4-36T ( = BCC 34901T = NBRC 106093T).

scholarly journals Nocardiopsis arvandica sp. nov., isolated from sandy soil

2011 ◽  
Vol 61 (5) ◽  
pp. 1189-1194 ◽  
Author(s):  
Javad Hamedi ◽  
Fatemeh Mohammadipanah ◽  
Gabriele Pötter ◽  
Cathrin Spröer ◽  
Peter Schumann ◽  
...  
Keyword(s):  
Sandy Soil ◽  
Novel Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Hybridization Data ◽  
Actinomycete Strain ◽  
Taxonomic Approach

An actinomycete strain, HM7T, was isolated from sandy soil from the banks of the Arvand River, Khoramshahr, Iran. In a study conducted using a polyphasic taxonomic approach, it was found that this strain represented a novel species in the genus Nocardiopsis. Strain HM7T had long, branched substrate mycelia and the aerial mycelium completely fragmented to long chains of rod-shaped spores. The cell wall of strain HM7T contained meso-diaminopimelic acid, galactose and ribose. The predominant phospholipids were phosphatidylglycerol, phosphatidylethanolamine diphosphatidylglycerol, and phosphatidylcholine. The main menaquinones were MK-10(H2), MK-10(H4), MK-10(H0) and MK-9(H2). Strain HM7T showed the highest degree of 16S rRNA gene sequence similarity with Nocardiopsis sinuspersici UTMC 00102T (99.8 %) and Nocardiopsis quinghaiensis YIM 28A4T (99.3 %), but differed significantly from these type strains based on DNA–DNA hybridization data (37.6 and 38.9 % relatedness, respectively). Physiological, biochemical and phenotypic characteristics allowed strain HM7T to be differentiated from related species. On the basis of results from phenotypic and phylogenetic analyses, strain HM7T is considered to represent a novel species of the genus Nocardiopsis, for which the name Nocardiopsis arvandica sp. nov. is proposed; the type strain of this species is HM7T ( = UTMC 00103T = DSM 45278T = CCUG 58831T).

Planobispora siamensis sp. nov., isolated from soil

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2649-2654 ◽  
Author(s):  
Wipaporn Ngaemthao ◽  
Chanwit Suriyachadkun ◽  
Suwanee Chunhametha ◽  
Tomohiko Tamura ◽  
Jean-Jacques Sanglier
Keyword(s):  
Novel Species ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Evergreen Forest ◽  
Rrna Gene ◽  
Content Type ◽  
Mycolic Acids ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
Actinomycete Strain

A novel actinomycete strain, A-T 4600T, which developed cylindrical sporangia containing a longitudinal pair of motile spores forming singly or in bundles on short ramifications of the aerial mycelium, was isolated from soil collected from an evergreen forest in Thailand. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The whole-cell sugars contained ribose, madurose, mannose and glucose. The predominant menaquinones were MK-9(H2). Mycolic acids were not detected. The diagnostic phospholipids were phosphatidylethanolamine, phosphatidylmethylethanolamine, phosphatidylinositol, phosphatidylglycerol, phosphatidylinositol mannoside, diphosphatidylglycerol and aminophosphoglycolipid. The predominant cellular fatty acids were unsaturated C17 : 1, C18 : 1, saturated C16 : 0, and C17 : 0. The G+C content of the DNA was 70.8 mol%. Phenotypic and chemotaxonomic analyses showed that the isolate had the typical characteristics of members of the genus Planobispora . Furthermore, 16S rRNA gene sequence analysis also indicated that this strain belonged to the genus Planobispora but as a putative novel species. DNA–DNA relatedness values that differentiate the isolate from previously described members of the genus Planobispora were significantly below 70 %. Following an evaluation of phenotypic, chemotaxonomic and genotypic studies, it is proposed that the isolate represents a novel species, Planobispora siamensis sp. nov.; the type strain is A-T 4600T ( = BCC 39469T = NBRC 107568T).

scholarly journals Actinomadura rupiterrae sp. nov., isolated from cliff soil

2012 ◽  
Vol 62 (Pt_4) ◽  
pp. 990-995 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Aerial Mycelium ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Mycolic Acids ◽  
Hybridization Data ◽  
Actinomycete Strain ◽  
Diamino Acid

A novel actinomycete strain, designated CS5-AC15T, was isolated from a soil sample collected from a cliff on Mara Island, Jeju, Republic of Korea, and subjected to a polyphasic taxonomic analysis. The isolate produced well-developed, yellow substrate mycelium and white aerial mycelium that differentiated into straight or flexuous chains of smooth-surfaced spores. 16S rRNA gene sequence analyses showed that the organism belonged to the family Thermomonosporaceae and formed a tight cluster with the type strain of Actinomadura oligospora (97.4 % sequence similarity). Chemotaxonomic characteristics were consistent with its assignment to the genus Actinomadura in that the isolate had meso-diaminopimelic acid as the diagnostic diamino acid in the cell wall, madurose as the characteristic sugar, N-acetyl type of murein in the peptidoglycan, MK-9(H6) and MK-9(H8) as major menaquinones and a polar lipid profile containing diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and unknown phospholipids. Mycolic acids were not detected. The predominant fatty acids were C16 : 0, C18 : 1ω9c and iso-C16 : 0. The DNA G+C content was 70.9 mol%. DNA relatedness of strain CS5-AC15T and A. oligospora JCM 10648T was 37.9±0.7 %. On the basis of the phenotypic, phylogenetic and DNA–DNA hybridization data, strain CS5-AC15T is assigned to a novel species of the genus Actinomadura, for which the name Actinomadura rupiterrae sp. nov. is proposed (type strain CS5-AC15T  = KCTC 19559T  = DSM 45251T).

scholarly journals Pseudonocardia dioxanivorans sp. nov., a novel actinomycete that grows on 1,4-dioxane

2005 ◽  
Vol 55 (2) ◽  
pp. 593-598 ◽  
Author(s):  
Shaily Mahendra ◽  
Lisa Alvarez-Cohen
Keyword(s):  
Fatty Acids ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
The Novel ◽  
Industrial Sludge ◽  
Mycolic Acids ◽  
Physiological And Biochemical Characteristics ◽  
Actinomycete Strain ◽  
Physiological And Biochemical ◽  
The 16S Rrna Gene

An actinomycete strain (CB1190T) was previously isolated from industrial sludge contaminated with 1,4-dioxane. The cells of this culture are Gram-positive and exhibit branching aerial and vegetative mycelium. Analysis of the 16S rRNA gene sequence indicates that the strain belongs to the genus Pseudonocardia, closely related to Pseudonocardia hydrocarbonoxydans, P. sulfidoxydans and P. halophobica. Physiological and biochemical characteristics of CB1190T are different from those of other known Pseudonocardia species. The novel organism described here is distinguished by its ability to grow on 1,4-dioxane, which is a probable human carcinogen. This culture can also grow on tetrahydrofuran, gasoline aromatics and several other toxic environmental contaminants. Strain CB1190T is capable of fixing dinitrogen. The predominant fatty acids are 16 : 0 iso, 16 : 1 iso cis9 and 17 : 1 iso cis9. The major phospholipid fatty acids are 16 : 0 iso, 16 : 0 10-Me and 17 : 0 10-Me. The peptidoglycan belongs to type A1γ, meso-diaminopimelic acid. The major menaquinone is MK-8 (H4). Mycolic acids are absent. The G+C content is 74 mol%. Based on morphological, physiological, chemotaxonomic and phylogenetic evidence, it is proposed that strain CB1190T (=ATCC 55486T=DSM 44775T) be classified as the type strain of a novel species, Pseudonocardia dioxanivorans sp. nov. Further studies with this organism will provide insights into metabolic pathways, responsible enzymes, kinetics and the fate of 1,4-dioxane in the environment.

scholarly journals Actinomadura sputi sp. nov., isolated from the sputum of a patient with pulmonary infection

2010 ◽  
Vol 60 (1) ◽  
pp. 149-153 ◽  
Author(s):  
A. F. Yassin ◽  
C. Spröer ◽  
C. Siering ◽  
H.-P. Klenk
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Gene Tree ◽  
Morphological Properties ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Phyletic Line ◽  
Actinomycete Strain ◽  
Taxonomic Approach ◽  
The 16S Rrna Gene

The taxonomic position of an actinomycete, strain IMMIB L-889T, isolated from the sputum of a 64-year-old man, was determined using a polyphasic taxonomic approach. The strain had chemical and morphological properties that were consistent with its classification in the genus Actinomadura. It formed a distinct phyletic line in the 16S rRNA gene tree of Actinomadura and was most closely related to the type strain of Actinomadura hallensis (98.4 % sequence similarity), but could be readily distinguished from the latter species using DNA–DNA relatedness and phenotypic data. The combined genotypic and phenotypic data indicate that strain IMMIB L-889T represents a novel species of the genus Actinomadura, for which the name Actinomadura sputi sp. nov. is proposed. The type strain is IMMIB L-889T (=DSM 45233T=CCUG 56587T).

Nocardiopsis fildesensis sp. nov., an actinomycete isolated from soil

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 174-179 ◽  
Author(s):  
Shanshan Xu ◽  
Lien Yan ◽  
Xuan Zhang ◽  
Chao Wang ◽  
Ge Feng ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
West Antarctica ◽  
Fildes Peninsula ◽  
Content Type ◽  
Link Type ◽  
Optimum Ph ◽  
Actinomycete Strain ◽  
Taxonomic Approach

A filamentous actinomycete strain, designated GW9-2T, was isolated from a soil sample collected from the Fildes Peninsula, King George Island, West Antarctica. The strain was identified using a polyphasic taxonomic approach. The strain grew slowly on most media tested, producing small amounts of aerial mycelia and no diffusible pigments on most media tested. The strain grew in the presence of 0–12 % (w/v) NaCl (optimum, 2–4 %), at pH 9.0–11.0 (optimum, pH 9.0) and 10–37 °C (optimum, 28 °C). The isolate contained meso-diaminopimelic acid, no diagnostic sugars and MK-9(H4) as the predominant menaquinone. The major phospholipids were phosphatidylglycerol, phosphatidylcholine and phosphatidylmethylethanolamine. The major fatty acids were iso-C16 : 0, anteiso-C17 : 0, C18 : 1ω9c, iso-C15 : 0 and iso-C17 : 0. DNA–DNA relatedness was 37.6 % with Nocardiopsis lucentensis DSM 44048T, the nearest phylogenetic relative (97.93 % 16S rRNA gene sequence similarity). On the basis of the results of a polyphasic study, a novel species, Nocardiopsis fildesensis sp. nov., is proposed. The type strain is GW9-2T ( = CGMCC 4.7023T = DSM 45699T = NRRL B-24873T).

scholarly journals Streptomyces mimosae sp. nov., an endophytic actinomycete isolated from the root of Mimosa pudica in Thailand

2020 ◽  
Vol 70 (5) ◽  
pp. 3316-3322 ◽  
Author(s):  
Nattaporn Klykleung ◽  
Masahiro Yuki ◽  
Takuji Kudo ◽  
Moriya Ohkuma ◽  
Wongsakorn Phongsopitanun ◽  
...  
Keyword(s):  
Type Species ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Mimosa Pudica ◽  
Content Type ◽  
Endophytic Actinomycete ◽  
Link Type ◽  
Gene Sequence Analysis ◽  
A Genome ◽  
Actinomycete Strain

An endophytic actinomycete, strain 3MP-10T, isolated from the root of Mimosa pudica was taxonomically studied based upon polyphasic approaches. This strain formed spiral spore chains on aerial mycelia. ll-Diaminopimelic acid, glucose and ribose were found in the whole-cell hydrolysates. It belonged to the genus Streptomyces and was closely related to Streptomyces zhaozhouensis DSM 42101T (98.9 %) and Streptomyces sedi JCM 16909T (98.6 %) based on 16S rRNA gene sequence analysis results. The major menaquinones were MK-10(H8), MK-10(H6) and MK-9(H8). The predominant cellular fatty acids were iso-C16 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. The detected phospholipids were diphosphatidylglycerol, phosphatidylinositol mannoside, phosphatidylinositol, phosphatidylethanolamine and phosphatidylglycerol. Strain 3MP-10T had a genome size of 7.2 Mb with a genome G+C content of 73.4 mol%. Results of in silico genome-based similarity analysis revealed ANIb values of 84.94 and 84.77 %, ANIm values of 88.01 and 87.92 %, and dDDH values of 29.9 and 29.6 % when compared with S. zhaozhouensis DSM 42101T and S. sedi JCM 16909T, respectively. Based on the polyphasic approach, digital DNA–DNA relatedness and average nucleotide identity, we propose that the novel actinomycete represents a novel species, Streptomyces mimosae, with type strain 3MP-10T (=JCM 33328T=TISTR 2646T).

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