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Streptomyces tyrfis sp. nov., an actinobacterium isolated from Thai peat swamp forest soil and its promising secondary metabolites
(2026-12-01)
Kottip, Penkawee
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Klanbut, Khanungkan
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Fukasem, Poowadon
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Pittayakhajonwut, Pattama
;
Intaraudom, Chakapong
An actinomycete strain, PTD5-9T, was isolated from peat swamp forest soil in Narathiwat Province, Thailand. Chemotaxonomic features and phylogenetic analysis based on the 16S rRNA gene sequence placed this strain within the genus Streptomyces. It exhibited the highest sequence similarity to Streptomyces gelaticus NRRL B-2928ᵀ (99.38%) and Streptomyces sanglieri NBRC 100784ᵀ (99.31%). However, the average nucleotide identity based on MUMmer (ANIm) values (88.48–88.56%), the average amino acid identity (84.37–84.97%), and digital DNA–DNA hybridization (dDDH) estimates (31.2–36.5%) were significantly below the accepted thresholds for species demarcation, supporting its classification as a new species within the genus. Accordingly, the name Streptomyces tyrfis sp. nov. is proposed. The crude extract derived from the culture broth of strain PTD5-9ᵀ exhibited potent antibacterial activity against Gram-positive bacteria (MIC ≤ 250 µg/mL). Subsequent chemical analysis led to the identification of ten bioactive secondary metabolites: isocycloheximide (1), (2R,4S,6E)-anhydrocycloheximide (2), actiphenol (3), (−)-phenatic acid A (4), 8-O-methyltetrangomycin (5), 8-O-methylrabelomycin (6), 4-hydroxy-8-O-methylrabelomycin (7), tetrangulol methyl ether (also known as X-14881 E) (8), (−)-elmonin (9), and 2-phenylacetamide (10). Among these, compounds 3, 6, 7, and 8, which were isolated in sufficient quantities, exhibited notable inhibitory activity against Mycobacterium tuberculosis, with MIC values ranging from 3.13 to 25.0 µg/mL. Furthermore, compounds 6, 7, and 8 demonstrated pronounced cytotoxicity against human small cell lung cancer (NCI-H187) cells (IC₅₀: 1.10–7.80 µM), and against human breast cancer (MCF-7) cells (IC₅₀: 1.21–24.6 µM).
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Streptomyces telluris sp. nov., a promising terrestrial actinobacterium with antioxidative potentials
(2023-06-01)
Thayanuwadtanawong, Onnicha
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Duangupama, Thitikorn
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Bunbamrung, Nantiya
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Pittayakhajonwut, Pattama
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Intaraudom, Chakapong
An actinomycete strain, AA8T, which produced a long straight chain of spores (verticillati type), was isolated from the rhizosphere soil of Mangifera indica in Bangkok, Thailand. A polyphasic taxonomic study was carried out to establish the taxonomic position of the strain. Strain AA8T formed a tight taxonomic position in the 16S rRNA gene tree with Streptomyces roseifaciens MBT76T. In contrast, the genome-based taxonomic analysis showed that strain AA8T shared low average nucleotide identity-BLAST (94.1%), the digital DNA–DNA hybridization (58.2%), and the average amino acid identity (93.6%) values with S. roseifaciens MBT76T. Moreover, a combination of physiological and biochemical properties indicated that strain AA8T was distinguished from all Streptomyces species with effectively published names. Strain AA8T, therefore, represents a novel species of Streptomyces, and the name Streptomyces telluris is proposed for the strain. The type strain is AA8T (= TBRC 8483T = NBRC 113461T). The chemical investigation led to the isolation of nine known compounds (compounds 1–9). Among these compounds, compound 7 (3,4-dihydroxybenzaldehyde) possesses strong antioxidant activity equal to ascorbic acid, a powerful antioxidative agent.
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Streptomyces zingiberis sp. nov., an endophytic actinobacterium isolated from the root tissue of Zingiber montanum
(2023-06-01)
Pansomsuay, Rawirat
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Duangupama, Thitikorn
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Pittayakhajonwut, Pattama
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Intaraudom, Chakapong
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Suriyachadkun, Chanwit
An endophytic actinobacterium, designated strain PLAI 1-29T, was isolated from the root tissue of Zingiber montanum collected from Pathum Thani province, Thailand. Strain PLAI 1-29T was characterized using a polyphasic taxonomic approach. It typically exhibited morphological and chemotaxonomic properties of the genus Streptomyces. Strain PLAI 1-29T produced a spiral spore chain on aerial mycelium and grew at 15–40 °C, pH 6–10 on International Streptomyces Project 2 agar. The maximum NaCl concentration for growth was 9% (w/v). Cells of strain PLAI 1-29T presented ll-diaminopimelic acid, arabinose, galactose and ribose. The detected phospholipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphati-dylinositol and phosphatidylinositol mannoside. The major menaquinones were MK-9(H<inf>6</inf>) and MK-9(H<inf>8</inf>). The major cellular fatty acids were iso-C<inf>16:0</inf>, anteiso-C<inf>15:0</inf> and anteiso-C<inf>17:0</inf> . The genome-based taxonomic details revealed the assignment of strain PLAI 1-29T to the genus Streptomyces and exhibited low threshold values for the delineation of a novel species by average nucleotide identity–blast (84.0%), average amino acid identity (80.0%) and digital DNA–DNA hybridization (27.6%) with its closest type strain, Streptomyces xinghaiensis S187T. Furthermore, several differential physiological and biochemical characteristics were detected between strain PLAI 1-29T and the closest type strain. Based on the combined phenotypic and genomic features, strain PLAI 1-29T (=TBRC 7645T=NBRC 113170T) is considered to represent a new Streptomyces species, for which we propose the name Streptomyces zingiberis sp. nov.
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Streptomyces salinarius sp. nov., an actinomycete isolated from solar saltern soil
(2023-01-01)
Klanbut, Khanungkan
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Rattanakavil, Thitiya
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Duangupama, Thitikorn
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Suriyachadkun, Chanwit
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Herron, Paul Robert
An actinobacterium, designated strain SS06011T, was isolated from solar saltern soil collected from Samut Sakhon province, Thailand. The taxonomic position of this strain was established using the polyphasic taxonomic approach. The strain produced grey aerial spore mass on International Streptomyces Project 2 seawater agar that differentiated into spiral spore chains with rugose-surfaced spores. Strain SS06011T was found to have ll-diaminopimelic acid in the cell peptidoglycan. Whole-cell hydrolysates contained galactose, glucose and ribose. MK-9(H<inf>6</inf> ) and MK-9(H<inf>4</inf> ) were major menaquinones. The major cellular fatty acids comprised iso-C<inf>16: 0</inf>, anteiso-C<inf>15: 0</inf> and anteiso-C<inf>17: 0</inf> . Diphosphatidylglycerol, phosphatidylethanolamine, phosphatidyl-glycerol and phosphatidylinositol were detected in cells. These characteristics were coincident with the typical morphological and chemotaxonomic properties of the genus Streptomyces. The taxonomic affiliation at the genus level of this strain could also be confirmed by its 16S rRNA gene sequence data. Strain SS06011T showed the highest 16S rRNA gene sequence similarity to Streptomyces ardesiacus NRRL B-1773T (99.1 %), Streptomyces coelicoflavus NBRC 15399T (99.1 %) and Streptomyces hyderabadensis OU-40T (99.1 %). Digital DNA–DNA hybridization (dDDH), average nucleotide identity-blast (ANIb) and average amino acid identity (AAI) values between strain SS06011T and its closely related type strains, S. ardesiacus NBRC 15402T, S. coe-licoflavus NBRC 15399T and S. hyderabadensis JCM 17657T, were in the range of 45.4–48.4 % (for dDDH), 90.8–91.9 % (for ANIb) and 90.8–91.7 % (for AAI), respectively, which are lower than the cut-off criteria for species delineation. The DNA G+C content of genomic DNA was 71.9 mol%. With the differences in physiological, biochemical and genotypic data, strain SS06011T could be discriminated from its closest neighbours. Thus, strain SS06011T should be recognized as representing a novel species of the genus Streptomyces, for which the name Streptomyces salinarius sp. nov. is proposed. The type strain is SS06011T (=TBRC 9951T=NBRC 113998T).
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Streptomyces sennicomposti sp. nov., an actinomycete isolated from compost of Senna siamea (Lam.)
(2022-01-01)
Duangupama, Thitikorn
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Pittayakhajonwut, Pattama
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Intaraudom, Chakapong
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Suriyachadkun, Chanwit
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Sirirote, Pramote
A member of the genus Streptomyces, designated RCPT1-4T, was isolated from compost of Senna siamea (Lam.), collected from an agricultural area in Rayong province, Thailand. The spore morphology and the presence of ll-diaminopimelic acid in the peptidoglycan indicate that RCPT1-4T shows the typical properties of members of the genus Streptomyces. On the basis of the results of 16S rRNA gene sequence analysis, the strain should be classified as representing a member of the genus Streptomy-ces and was most closely related to Streptomyces fumigatiscleroticus NBRC 12999T with the highest 16S rRNA gene sequence similarity of 99.2%, followed by Streptomyces spiralis NBRC 14215T (99.0%). In addition, RCPT1-4T shared the highest average nucleotide identity by blast (ANIb) (86.0%), and digital DNA–DNA hybridization (dDDH) (32.1%) values with S. spiralis NBRC 14215T. Furthermore, several physiological and biochemical differences were observed between RCPT1-4T and the closely related type strains of species with validly published names. These taxonomic data indicated that RCPT1-4T could be considered to represent a novel species of the genus Streptomyces and the name Streptomyces sennicomposti sp. nov. is proposed for this strain. The type strain is RCPT1-4T (=TBRC 11260T=NBRC 114303T).
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Streptomyces acidipaludis sp. nov., an actinobacterium isolated from peat swamp forest soil
(2022-01-01)
Nammali, Achararak
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Duangupama, Thitikorn
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Pittayakhajonwut, Pattama
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Intaraudom, Chakapong
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Suriyachadkun, Chanwit
An actinobacterium strain PLK6-54T was isolated from Lankwai peat swamp forest soil collected from Yala province, Thailand. Strain PLK6-54T exhibited morphological and chemotaxonomic properties described for the genus Streptomyces. It formed a spiral spore chain directly on aerial mycelium. Growth was observed between 20 and 40 °C and at pH 5–8. The maximum NaCl for growth was 2% (w/v). ll-Diaminopimelic acid, arabinose and ribose were detected in the whole-cell hydrolysate. Diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and phosphatidylinositolmannoside were detected as the phospholipids. The major menaquinones were MK-10(H<inf>2</inf>) and MK-9(H<inf>6</inf>). The major cellular fatty acids were iso-C<inf>16:0</inf>, anteiso-C<inf>15:0</inf> and iso-C<inf>14:0</inf>. 16S rRNA gene sequence data supported the assignment of strain PLK6-54T to the genus Streptomyces and showed that Streptomyces rubidus NBRC 102073T (99.0%) was the closest relative. Moreover, the average nucleotide identity-blast (85.5%) and digital DNA–DNA hybridization (30.7%) values reported between strain PLK6-54T and its closest neighbour were below the threshold values for delineation of a novel species. Strain PLK6-54T could be distinguished from related validly described Streptomyces species by several phenotypic properties. The combination of genotypic and phenotypic data indicated that strain PLK6-54T is representative of a novel species of the genus Streptomyces. The name Streptomyces acidipaludis sp. nov. is proposed for strain PLK6-54T. The type strain is PLK6-54T (=TBRC 11250T=NBRC 114297T).
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Streptomyces endocoffeicus sp. nov., an endophytic actinomycete isolated from Coffea arabica (L.)
(2021-11-01)
Nammali, Achararak
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Intaraudom, Chakapong
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Pittayakhajonwut, Pattama
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Suriyachadkun, Chanwit
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Tadtong, Sarin
An aerobic, non-motile, Gram-stain positive actinomycete, designated strain CA3R110T, was isolated from the surface-sterilised root of Coffea arabica L. collected from Lampang Province, Thailand. 16S rRNA gene sequence analysis indicated that strain CA3R110T was a member of the genus Streptomyces and showed the closest similarities to Streptomyces buecherae AC541T (99.2%), followed by Streptomyces rapamycinicus NRRL B-5491T (99.1%), Streptomyces luteoverticillatus NBRC 3840T (99.1%), Streptomyces coerulescens NBRC 12758T (99.1%), and Streptomyces iranensis HM 35T (99.0%). Strain CA3R110T contained LL-diaminopimelic acid in cell peptidoglycan, MK-9(H<inf>6</inf>), and MK-9(H<inf>8</inf>) as major menaquinone, iso-C<inf>16:0,</inf>iso-C<inf>15:0,</inf> C<inf>16:0</inf> as major fatty acids. Diphosphatidylglycerol, phosphatidylethanolamine, hydroxy-phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositolmannoside were detected in the cell. The chemotaxonomic characteristics possessed the typical properties of the genus Streptomyces. A low digital DNA–DNA hybridization (< 55.7%) and average nucleotide identity-blast (ANIb) (< 92.2%) values revealed that strain CA3R110T could be distinguished from any known Streptomyces species. With the differences in phenotypic and genotypic data, strain CA3R110T represents a novel species of genus Streptomyces, for which the name Streptomyces endocoffeicus sp. nov. is proposed. The type strain is CA3R110T (= TBRC 11245T = NBRC 114296T).
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Streptomyces coffeae sp. Nov., an endophytic actinomycete isolated from the root of coffea arabica (l.)
(2021-01-01)
Nammali, Achararak
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Intaraudom, Chakapong
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Pittayakhajonwut, Pattama
;
Suriyachadkun, Chanwit
;
Tadtong, Sarin
An endophytic actinobacterium, designated strain CA1R205T, was isolated from the surface-sterilized root of Coffea arabica L. collected from Ratchaburi province, Thailand. The taxonomic position of this strain was evaluated using a polyphasic approach. The strain produced light yellowish brown to dark brownish black substrate mycelium and greyish white aerial mycelium. The spiral spore chains were produced directly on aerial mycelium. CA1R205T was found to have ll-diaminopimelic acid in the cell peptidoglycan, galactose, glucose, mannose and ribose as whole-cell reducing sugars, MK-10(H<inf>4</inf>), MK-9(H<inf>6</inf>), MK-10(H<inf>2</inf>), MK-9(H<inf>4</inf>), MK-10(H<inf>6</inf>) and MK-10(H<inf>8</inf>) as menaquinones and iso-C<inf>15:0</inf>, anteiso-C<inf>15:0</inf>, iso-C<inf>16:0</inf> and C<inf>16:0</inf> as major fatty acids. Diphosphatidylglycerol, phosphatidylethanolamine, hydroxyphosphatidylethanolamine, phosphatidylglycerol and phosphatidylinositol were detected in the cells. These characteristics were consistent the typical chemotaxonomic properties of members the genus Streptomyces. The taxonomic affiliation at the genus level of this strain could be confirmed using its 16S rRNA gene sequence data. CA1R205T showed the highest 16S rRNA gene sequence similarity value to Streptomyces rapamycinicus NRRL B-5491T (98.9%), followed by Streptomyces iranensis HM 35T (98.8%). Digital DNA–DNA hybridization and average nucleotide identity-by blast (ANIb) values between CA1R205T and S. rapamycinicus NRRL B-5491T were 27.2 and 81.5%, respectively. The DNA G+C content of genomic DNA was 70.7 mol%. Due to the differences in physiological, biochemical and genotypic data, CA1R205T could be discriminated from its closest neighbour. Thus, CA1R205T should be recognized as representing a novel species of the genus Streptomyces, for which the name Streptomyces coffeae sp. nov. is proposed. The type strain is CA1R205T (=TBRC 11244T=NBRC 114295T).
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Streptomyces musisoli sp. nov., an actinomycete isolated from soil
(2021-01-01)
Duangupama, Thitikorn
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Intaraudom, Chakapong
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Pittayakhajonwut, Pattama
;
Suriyachadkun, Chanwit
;
Tadtong, Sarin
An actinobacterium, strain CH5-8T, which formed spiral chains of spore arising from the aerial mycelium, was isolated from rhizosphere soil of Musa spp. The organism exhibited vivid greenish yellow substrate mycelium and easily produced the medium grey aerial spore mass on ISP2 medium. The typical chemotaxonomic properties of members of the genus Streptomyces were observed for strain CH5-8T, e.g. ll-diaminopimelic acid in cell peptidoglycan, MK-9(H<inf>8</inf>), MK-9(H<inf>6</inf>), and MK-9(H<inf>4</inf>) as major menaquinones and anteiso-C<inf>15:0</inf>, iso-C<inf>16:0</inf>, and anteiso-C<inf>17:0</inf> as major fatty acids. Diphosphatidylglycerol, phosphatidylethanola-mine, hydroxyphosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannoside were detected in the cells. A combination of morphological and chemotaxonomic data supported the assignment to the genus Strep-tomyces. The analysis result obtained for the 16S rRNA gene sequence confirmed the taxonomic affiliation at the genus level of this strain. The novel strain CH5-8T showed the highest 16S rRNA gene sequence values to Streptomyces echinatus NBRC 12763T (98.9%), followed by Streptomyces actinomycinicus RCU-197T (98.9%). The average nucleotide identity by blast (ANIb) and digital DNA–DNA hybridization values between CH5-8T and its closest relatives, S. echinatus CECT 3313T and S. actinomycinicus RCU-197T, were ≤91.6% and ≤47.4%, respectively. The digital DNA G+C content of genomic DNA was 72.1 mol%. On the basis of these phenotypic and genotypic data, strain CH5-8T represents a novel species, for which the name Streptomyces musisoli sp. nov. is proposed. The type strain is CH5-8T (=TBRC 9950T=NBRC 113997T).
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