KMITL

Permanent URI for this communityhttps://dspace.kmitl.ac.th/handle/123456789/1

Browse

Settings

Author: search.filters.author.Thawai, ChittiSubject: search.filters.subject.16S rRNA gene

Search Results

Now showing 1 - 10 of 20
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Streptomyces telluris sp. nov., a promising terrestrial actinobacterium with antioxidative potentials
    (2023-06-01)
    Thayanuwadtanawong, Onnicha
    ;
    Duangupama, Thitikorn
    ;
    Bunbamrung, Nantiya
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    An actinomycete strain, AA8<sup>T</sup>, 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 AA8<sup>T</sup> formed a tight taxonomic position in the 16S rRNA gene tree with Streptomyces roseifaciens MBT76<sup>T</sup>. In contrast, the genome-based taxonomic analysis showed that strain AA8<sup>T</sup> 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 MBT76<sup>T</sup>. Moreover, a combination of physiological and biochemical properties indicated that strain AA8<sup>T</sup> was distinguished from all Streptomyces species with effectively published names. Strain AA8<sup>T</sup>, therefore, represents a novel species of Streptomyces, and the name Streptomyces telluris is proposed for the strain. The type strain is AA8<sup>T</sup> (= TBRC 8483<sup>T</sup> = NBRC 113461<sup>T</sup>). 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.
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Streptomyces zingiberis sp. nov., an endophytic actinobacterium isolated from the root tissue of Zingiber montanum
    (2023-06-01)
    Pansomsuay, Rawirat
    ;
    Duangupama, Thitikorn
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    ;
    Suriyachadkun, Chanwit
    An endophytic actinobacterium, designated strain PLAI 1-29<sup>T</sup>, was isolated from the root tissue of Zingiber montanum collected from Pathum Thani province, Thailand. Strain PLAI 1-29<sup>T</sup> was characterized using a polyphasic taxonomic approach. It typically exhibited morphological and chemotaxonomic properties of the genus Streptomyces. Strain PLAI 1-29<sup>T</sup> 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 1-29<sup>T</sup> 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 1-29<sup>T</sup> 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 S187<sup>T</sup>. Furthermore, several differential physiological and biochemical characteristics were detected between strain PLAI 1-29<sup>T</sup> and the closest type strain. Based on the combined phenotypic and genomic features, strain PLAI 1-29<sup>T</sup> (=TBRC 7645<sup>T</sup>=NBRC 113170<sup>T</sup>) is considered to represent a new Streptomyces species, for which we propose the name Streptomyces zingiberis sp. nov.
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Micromonospora solifontis sp. nov., an actinobacterium isolated from hot spring soil
    (2023-05-01)
    Duangupama, Thitikorn
    ;
    Pansomsuay, Rawirat
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    ;
    Suriyachadkun, Chanwit
    An actinobacterium strain, PPF5-17<sup>T</sup>, was isolated from hot spring soil collected from Chiang Rai province, Thailand. The strain exhibited morphological and chemotaxonomic properties similar to those of members of the genus Micromonospora. Colonies of PPF5-17<sup>T</sup> were strong pinkish red and turned black after sporulation in ISP 2 agar medium. Cells formed single spores directly on the substrate mycelium. Growth was observed from 15 to 45 °C and at pH 5–8. Maximum NaCl concentration for growth was 3% (w/v). PPF5-17<sup>T</sup> was found to have meso-diaminopimelic acid, xylose, mannose and glucose in the whole-cell hydrolysate. Diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and phosphatidylinositolmannosides were observed as the membrane phospholipids. MK-10(H<inf>6</inf> ), MK-9(H<inf>6</inf> ), MK-10(H<inf>4</inf> ) and MK-9(H<inf>4</inf> ) were the major menaquinones. The predominant cellular fatty acids were iso-C<inf>15:0</inf>, iso-C<inf>17:0</inf>, anteiso-C<inf>17:0</inf> and iso-C<inf>16:0</inf> . PPF5-17<sup>T</sup> shared the highest 16S rRNA gene sequence similarity with Micromonospora fluminis LMG 30467<sup>T</sup> (99.3%). A genome-based taxonomic study revealed that PPF5-17<sup>T</sup> was closely related to Micromonospora aurantinigra DSM 44815<sup>T</sup> in the phylogenomic tree with an average nucleotide identity by blast (ANIb) of 87.7% and a digital DNA–DNA hybridization (dDDH) value of, 36.1% which were below the threshold values for delineation of a novel species. Moreover, PPF5-17<sup>T</sup> could be distinguished from its closest neighbours, M. fluminis LMG 30467<sup>T</sup> and M. aurantinigra DSM 44815<sup>T</sup>, with respect to a broad range of phenotypic properties. Thus, PPF5-17<sup>T</sup> represents a novel species, for which the name Micromonospora solifontis sp. nov. is proposed. The type strain is PPF5-17<sup>T</sup> (= TBRC 8478<sup>T</sup> = NBRC 113441<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Micromonospora thermarum sp. nov., an actinobacterium isolated from hot spring soil
    (2023-04-01)
    Pansomsuay, Rawirat
    ;
    Duangupama, Thitikorn
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    ;
    Suriyachadkun, Chanwit
    An actinomycete, designated strain HSS6-12<sup>T</sup>, was isolated from hot spring sediment collected from Ranong province, Thailand. The strain showed taxonomic characteristics consistent with those of members of the genus Micromonospora. HSS6-12<sup>T</sup> produced a single spore directly on the substrate mycelium, and no aerial mycelium was detected. The isomer of diamino acid presented in cell wall peptidoglycan was meso-diaminopimelic acid. Arabinose, xylose, glucose, and ribose were detected in whole-cell hydrolysates. MK-10(H<inf>4</inf>), MK-9(H<inf>4</inf>), and MK-10(H<inf>6</inf>) were major menaquinones. Major cellular fatty acids were iso-C<inf>16:0</inf>, iso-C<inf>15:0</inf>, and iso-C<inf>17:0</inf>. Phospholipid profile was composed of diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, and phosphatidylinositolmannosides. 16S rRNA gene analysis revealed that HSS6-12<sup>T</sup> shared the highest 16S rRNA gene sequence similarity with Micromonospora inositola DSM 43819<sup>T</sup> (99.3%). In contrast, the genome analysis showed that HSS6-12<sup>T</sup> formed a tight taxonomic position in a phylogenomic tree with Micromonospora endolithica DSM 44398<sup>T</sup>. Moreover, the average nucleotide identity-blast, the digital DNA-DNA hybridization, and the average amino acid identity values between HSS6-12<sup>T</sup> and M. inositola DSM 43819<sup>T</sup> and M. endolithica DSM 44398<sup>T</sup> were 83.1–84.0%, 27.5–28.7%, and 80.4–82.2%, respectively, indicating that HSS6-12<sup>T</sup> was different species with both closely related Micromonospora-type strains. In addition, HSS6-12<sup>T</sup> could be discriminated from its closely related type strains by many physiological and biochemical characteristics. Thus, HSS6-12<sup>T</sup> could be considered a novel species of the genus Micromonospora, and the name Micromonospora thermarum is proposed for the strain. The type strain is HSS6-12<sup>T</sup> (= BCC 41915<sup>T</sup> = JCM 17127<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Gordonia aquimaris sp. nov., a novel marine actinobacterium isolated from seawater in the upper gulf of Thailand
    (2023-03-01)
    Pansomsuay, Rawirat
    ;
    Duangupama, Thitikorn
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    ;
    Suriyachadkun, Chanwit
    An actinobacterium strain, SW21<sup>T</sup>, was isolated from seawater collected in the upper Gulf of Thailand. Cells were Gram-stain-positive, aerobic and rod-shaped. Growth was observed from 15 to 37 °C and at pH 6–8. Maximum NaCl for growth was 14% (w/v). meso-Diaminopimelic acid, arabinose, galactose, glucose, rhamnose and ribose were detected in the whole-cell hydro-lysate. Diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositol mannoside were detected as the phospholipids in the cells. The major menaquinones were MK-9(H<inf>2</inf> ) and MK-7(H<inf>2</inf> ). The major cellular fatty acids were C<inf>16:0</inf>, C<inf>18:1</inf> ω9c, C<inf>18:0</inf> and C<inf>18:0</inf> 10-methyl (TBSA). The 16S rRNA gene sequence data supported the assignment of strain SW21<sup>T</sup> to the genus Gordonia and showed that Gordonia mangrovi KCTC 49383<sup>T</sup> (98.7%) was the closest relative. Moreover, the average nucleotide identity-blast (85.5%) and digital DNA–DNA hybridization (30.7%) values between strain SW21<sup>T</sup> and its closest neighbour were below the threshold values for delineation of a novel species. The combination of genotypic and phenotypic data indicated that strain SW21<sup>T</sup> is representative of novel species of the genus Gordonia. The name Gordonia aquimaris sp. nov. is proposed for strain SW21<sup>T</sup>. The type strain is SW21<sup>T</sup> (=TBRC 15691<sup>T</sup>=NBRC 115558<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Streptomyces salinarius sp. nov., an actinomycete isolated from solar saltern soil
    (2023-01-01)
    Klanbut, Khanungkan
    ;
    Rattanakavil, Thitiya
    ;
    Duangupama, Thitikorn
    ;
    Suriyachadkun, Chanwit
    ;
    Herron, Paul Robert
    An actinobacterium, designated strain SS06011<sup>T</sup>, 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 SS06011<sup>T</sup> 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 SS06011<sup>T</sup> showed the highest 16S rRNA gene sequence similarity to Streptomyces ardesiacus NRRL B-1773<sup>T</sup> (99.1 %), Streptomyces coelicoflavus NBRC 15399<sup>T</sup> (99.1 %) and Streptomyces hyderabadensis OU-40<sup>T</sup> (99.1 %). Digital DNA–DNA hybridization (dDDH), average nucleotide identity-blast (ANIb) and average amino acid identity (AAI) values between strain SS06011<sup>T</sup> and its closely related type strains, S. ardesiacus NBRC 15402<sup>T</sup>, S. coe-licoflavus NBRC 15399<sup>T</sup> and S. hyderabadensis JCM 17657<sup>T</sup>, 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 SS06011<sup>T</sup> could be discriminated from its closest neighbours. Thus, strain SS06011<sup>T</sup> 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 SS06011<sup>T</sup> (=TBRC 9951<sup>T</sup>=NBRC 113998<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Nocardia coffeae sp. nov., an endophytic actinobacterium isolatefrom the root of Coffea arabica (L.)
    (2022-01-01)
    Nammali, Achararak
    ;
    Duangupama, Thitikorn
    ;
    Suriyachadkun, Chanwit
    ;
    Tanasupawat, Somboon
    ;
    Thawai, Chitti
    The polyphasic taxonomic study of a novel endophytic actinobacterium strain (CA2R105<sup>T</sup>) was carried out. The strain formed fragmented substrate mycelium and showed chemotaxonomic properties typical of members of the genus Nocardia, i.e. the presence of mycolic acid and MK-8 (H<inf>4ω-cycl</inf> ) in its cells. Strain CA2R105<sup>T</sup> exhibited the highest 16S rRNA gene sequence similarity to Nocardia jiangxiensis NBRC 101359<sup>T</sup> (99.2%). The genome-based taxonomic analysis revealed low average nucleotide identity-blast and digital DNA–DNA hybridization values (<93.7, and <65.2%, respectively) to its closest relative. Moreover, many different phenotypic characteristics were observed between strain CA2R105<sup>T</sup> and all related Nocardia-type strains. This taxonomic evidence suggested that strain CA2R105<sup>T</sup> should be judged as representing a novel species of the genus Nocardia and the name, Nocardia coffeae sp. nov. is proposed. The type strain is CA2R105<sup>T</sup> (=TBRC 11247<sup>T</sup>=NBRC 114292<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Streptomyces epipremni sp. nov., an endophytic actinomycete isolated from the root of Epipremnum aureum
    (2022-01-01)
    Duangupama, Thitikorn
    ;
    Intaraudom, Chakapong
    ;
    Pittayakhajonwut, Pattama
    ;
    Tadtong, Sarin
    ;
    Thawai, Chitti
    An endophytic Streptomyces-like micro-organism, designated strain PRB2-1<sup>T</sup> was isolated from root tissue of Epipremnum aureum (Linden and André) G.S. Bunting. The typical morphological and chemotaxonomic characteristics, i.e. the ability to produce straight spore chains directly on aerial mycelium and the presence of ll-diaminopimelic acid in cell-wall peptidogly-can, were consistent with its assignment to the genus Streptomyces. 16S rRNA gene analysis showed that strain PRB2-1<sup>T</sup> is a member of the genus Streptomyces with the highest similarity to Streptomyces bryophytorum DSM 42183<sup>T</sup> (98.4 %). Moreover, the draft genome sequence of strain PRB2-1<sup>T</sup> exhibited low average nucleotide identity by blast (79.9–83.8 %) and digital DNA– DNA hybridization (24.9–28.3 %) values to the reference strains, which were well below the species circumscription threshold. The DNA G+C content of genomic DNA was 73.6 mol%. Comparison of phenotypic characteristics and whole-genome sequence between strain PRB2-1<sup>T</sup> and its close relatives indicated that strain PRB2-1<sup>T</sup> could be classified as a novel species of the genus Streptomyces. Thus the name, Streptomyces epipremni sp. nov. is proposed for the strain. The type strain is PRB2-1<sup>T</sup> (=TBRC 7642<sup>T</sup>=NBRC 113169<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Streptomyces sennicomposti sp. nov., an actinomycete isolated from compost of Senna siamea (Lam.)
    (2022-01-01)
    Duangupama, Thitikorn
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    ;
    Suriyachadkun, Chanwit
    ;
    Sirirote, Pramote
    A member of the genus Streptomyces, designated RCPT1-4<sup>T</sup>, 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 RCPT1-4<sup>T</sup> 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 12999<sup>T</sup> with the highest 16S rRNA gene sequence similarity of 99.2%, followed by Streptomyces spiralis NBRC 14215<sup>T</sup> (99.0%). In addition, RCPT1-4<sup>T</sup> shared the highest average nucleotide identity by blast (ANIb) (86.0%), and digital DNA–DNA hybridization (dDDH) (32.1%) values with S. spiralis NBRC 14215<sup>T</sup>. Furthermore, several physiological and biochemical differences were observed between RCPT1-4<sup>T</sup> and the closely related type strains of species with validly published names. These taxonomic data indicated that RCPT1-4<sup>T</sup> 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 RCPT1-4<sup>T</sup> (=TBRC 11260<sup>T</sup>=NBRC 114303<sup>T</sup>).
  • Loading...
    Thumbnail Image
    Some of the metrics are blocked by your 
    consent settings
    Item type:Publication,
    Streptomyces acidipaludis sp. nov., an actinobacterium isolated from peat swamp forest soil
    (2022-01-01)
    Nammali, Achararak
    ;
    Duangupama, Thitikorn
    ;
    Pittayakhajonwut, Pattama
    ;
    Intaraudom, Chakapong
    ;
    Suriyachadkun, Chanwit
    An actinobacterium strain PLK6-54<sup>T</sup> was isolated from Lankwai peat swamp forest soil collected from Yala province, Thailand. Strain PLK6-54<sup>T</sup> 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 PLK6-54<sup>T</sup> to the genus Streptomyces and showed that Streptomyces rubidus NBRC 102073<sup>T</sup> (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 PLK6-54<sup>T</sup> and its closest neighbour were below the threshold values for delineation of a novel species. Strain PLK6-54<sup>T</sup> could be distinguished from related validly described Streptomyces species by several phenotypic properties. The combination of genotypic and phenotypic data indicated that strain PLK6-54<sup>T</sup> is representative of a novel species of the genus Streptomyces. The name Streptomyces acidipaludis sp. nov. is proposed for strain PLK6-54<sup>T</sup>. The type strain is PLK6-54<sup>T</sup> (=TBRC 11250<sup>T</sup>=NBRC 114297<sup>T</sup>).