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Characterization, comparative genomics, and metabolome analysis of Streptomyces tuberiscabiei sp. nov., a novel actinomycete causing potato scab disease in Long Khot, Chiang Mai Province, Thailand
(2026-07-01)
Inthong, Tanchanok
;
Wannawong, Thippawan
;
Mhuantong, Wuttichai
;
Hongprasit, Aphinan
;
Tanasupawat, Somboon
Three actinomycete strains, WSLK1–3T, WSLK1–4, and WSLK1–5, associated with scabby potato tuber, were characterized using polyphasic and genome-based taxonomy. All strains were found to be Gram-stain-positive, filamentous bacteria, including LL-diaminopimelic acid in cell-wall peptidoglycan. Whole-cell sugars were glucose, mannose, rhamnose, and ribose. MK-9(H<inf>6</inf>) and MK-9(H<inf>10</inf>) were major menaquinones; C<inf>16:0</inf>, isoC<inf>16:0</inf>, ante iso-C<inf>15:0</inf>, and anteiso -C<inf>17:0</inf> were major cellular fatty acids; diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, and phosphatidylinositol mannoside were major phospholipids; and DNA G + C contents were 71.5 mol%. Phylogenetic analysis based on 16S rRNA gene and genome sequences indicated that strains WSLK1–3T, WSLK1–4, and WSLK1–5 are closely related to Streptomyces canus DSM 40017T (=JCM 4212T), and S. pseudovenezuelae DSM 40212T (=JCM 11516T), respectively. The 16S rRNA gene sequences, average nucleotide identity based on BLAST (ANIb) and MUMmer (ANIm), and digital DNA-DNA hybridization (dDDH) values among the three strains were 100%, 99.12%, 99.33%, and 94.3%, respectively, indicating that these strains belong to the same species. Strains WSLK1–3T, WSLK1–4, and WSLK1–5 showed 88.54–90.62% ANIb, 90.99–92.27% ANIm, and 40.4–45.1% to their closely related type strains: S. canus JCM 4212T, and S. pseudovenezuelae JCM 11516T. All novel strains were pathogenic, causing necrosis on potato tuber slices, inhibiting plant seedlings, and inducing superficial to raised scab lesions on potato tubers. Based on the phenotypic, chemotaxonomic, pathogenic, and genomic data, strains WSLK1–3T, WSLK1–4, and WSLK1–5 could be assigned to the novel species within the genus Streptomyces for which the name Streptomyces tuberiscabiei sp. nov. is proposed. The type strain is WSLK1–3T (=TBRC 19150T = LMG 33893T).
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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
;
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 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
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Suriyachadkun, Chanwit
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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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Micromonospora caldifontis sp. nov., isolated from hot spring soil
(2019-05-01)
Thawai, Chitti
;
Tanasupawat, Somboon
;
Kudo, Takuji
A single spore forming actinomycete, designated strain HSS6-8T, was isolated from a sample of hot spring soil. The strain had the chemotaxonomic properties consistent with its classification in the genus Micromonospora. The strain was found to have meso-diaminopimelic acid in the cell-wall peptidoglycan. The acyl type of the cell-wall muramic acid was glycolyl. The reducing sugars in the cell hydrolysates were glucose, arabinose, xylose, ribose, mannose, galactose and rhamnose. The phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphoglycolipid. The major menaquinones were MK-10(H<inf>6</inf>) and MK-10(H<inf>4</inf>). The major cellular fatty acids were iso-C<inf>16: 0</inf>, anteiso-C<inf>17: 0</inf>, C<inf>17: 0 </inf>and anteiso-C<inf>15: 0</inf>. The G+C content of the genomic DNA was 70.5 mol%. 16S rRNA gene sequence analysis revealed that strain HSS6-8T was closely related to Micromonospora nigra DSM 43818T (98.2%), Micromonospora eburnea DSM 44814T (98.2%) and Micromonospora spongicola S3-1T (98.1%). The physiological and DNA-DNA hybridization data allowed the differentiation of strain HSS6-8T from its related species. Thus, the strain represents a novel species of the genus Micromonospora, for which the name Micromonospora caldifontis sp. nov. is proposed. The type strain is HSS6-8T (=TBRC 8927T=JCM 17126T).
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Identification and antimicrobial activity of Micromonospora strains from Thai peat swamp forest soils
(2018-04-01)
Thawai, Chitti
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Kanchanasin, Pawina
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Ohkuma, Moriya
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Kudo, Takuji
;
Tanasupawat, Somboon
The identification and antimicrobial activity of thirteen actinomycete strains isolated from peat swamp forest soils collected from Narathiwat, Patthaloong and Yala provinces, the southern part of Thailand were carried out. Based on the phenotypic and chemotaxonomic characteristics, all isolates were belonged to genus Micromonospora. They were separated into six groups based on 16S ribosomal RNA gene sequence analysis and were identified as M. narathiwatensis (Group 1, 5 isolates), M. humi (Group 4, 3 isolates), M. aurantiaca (Group 5, 2 isolates), one of each isolate as M. chalcea (Group 2) and M. maritima (Group 6). The isolate LK6-12 (Group 3) showed low similarity (99.16%) with the type strains of Micromonospora siamensis that will be the novel species of the genus Micromonospora. Meso-diaminopimelic acid (cell wall type II), xylose and arabinose (pattern D) were detected in their whole-cell hydrolysates. The major polar lipid was phosphatidylethanolamine (type II). The predominant cellular fatty acids were C<inf>17:0</inf>, C<inf>17:1</inf>ω8c, iso-C<inf>16:0</inf>, iso-C<inf>15:0</inf>, iso-C<inf>17:0</inf>, anteiso-C<inf>15:0</inf>, and anteiso-C<inf>17:0</inf>. The predominant menaquinones were MK-9(H<inf>4</inf>), MK-9(H<inf>6</inf>), or MK-10(H<inf>4</inf>). The DNA G+C contents of the isolates ranged from 71.6-72.6 mol%. On the primary screening, 2 isolates exhibited the antimicrobial activity against Bacillus subtilis ATCC 6633 and Kocuria rhizophila ATCC 9341.
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Nocardia xestospongiae sp. nov., isolated from a marine sponge in the Andaman sea
(2017-05-01)
Thawai, Chitti
;
Rungjindamai, Nattawut
;
Klanbut, Khanungkan
;
Tanasupawat, Somboon
A marine sponge-derived actinomycete, strain ST01-07T, was isolated from Xestospongia sp. collected from the Andaman Sea. The strain was characterised taxonomically using a polyphasic approach. The strain contained meso-diaminopimelic acid in the peptidoglycan, whole-cell sugars were arabinose, galactose, glucose, mannose and ribose. Mycolic acids that co-migrated with those from Nocardia araoensis NBRC 100135T were observed in whole-cell extracts. MK-8(H<inf>4ω-cycl</inf>) was the predominant menaquinone. Major cellular fatty acids were C<inf>17: 1</inf>ω8c, C<inf>16: 0</inf> and C<inf>17: 0</inf>. The diagnostic phospholipids in the cell consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain ST01-07T belonged to the genus Nocardia and was most closely related to N. araoensis IFM 0575T (98.71% 16S rRNA gene sequence similarity), Nocardia niwae W9241T (98.56%), Nocardia beijingensis AS4.1521T (98.41%) and Nocardia arthritidis IFM 10035T (98.36%). In addition, low DNA–DNA relatedness values (13.6±0.1% to 40.1±0.6%) confirmed that strain ST01-07T represents a novel species of the genus Nocardia, for which the name Nocardia xestospongiae sp. nov., is proposed. The type strain is ST01-07T (=BCC 45622T=NBRC 109069T).

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