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Volume 72, Issue 2

and sp. nov., two new coral-derived marine actinobacteria No Access

Abstract

Two new marine actinobacteria, designated as J2-1 and J2-2, were isolated from a coral, , collected from Rayong Province, Thailand. The taxonomic positions of the two strains were identified based on polyphasic taxonomy. Based on morphological characteristics and chemotaxonomy, strains J2-1 and J2-2 were identified as members of the genus and , respectively. Strains J2-1 and J2-2 showed the highest 16S rRNA gene sequence similarity to T44 (98.62 %) and VN05A0415 (98.08 %), respectively. Strain J2-1 had chemotaxonomic properties resembling members of the genus . -Diaminopimelic acid, glucose and ribose were detected in the whole-cell hydrolysate. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositolmannoside, unidentified aminolipid and five unidentified phospholipids were detected as the polar lipids. The major cellular fatty acids were C iso, C anteiso, C iso, C, C anteiso, C iso and C iso. Strain J2-2 a showed similar cell composition to members of the genus . Both isomers of - and -diaminopimelic acid were detected in the peptidoglycan. Arabinose, galactose, madurose and xylose were observed in the whole-cell hydrolysate. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside, phosphatidylcholine, an unidentified phospholipid and an unidentified glycolipid. The major cellular fatty acids were C, C ω9, C 10-methyl, tuberculostearic acid, C and C. Both strains could be distinguished from their closely related type strains according to their phenotypic characteristics. Comparative genome analysis indicated the delineation of two novel species based on digital DNA–DNA hybridization and average nucleotide identity values, which were below 70 and 95 %, respectively. The names proposed are sp. nov. (J2-1=TBRC 13503=NBRC 115066) and sp. nov. (J2-2=TBRC 13504=NBRC 114885).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): coral , Favites pentagona , Kineosporia , marine actinobacteria and Streptomyces
Funding
This study was supported by the:
  • Faculty of Pharmaceutical Sciences, Chulalongkorn University (Award (Phar2564-RG004))
    • Principle Award Recipient: WongsakornPhongsopitanun
© 2022 The Authors
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/content/journal/ijsem/10.1099/ijsem.0.005249
2022-02-21
2024-04-25
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References

  1. Matsumoto A, Takahashi Y. Endophytic actinomycetes: promising source of novel bioactive compounds. J Antibiot 2017; 70:514–519 [View Article]
     [Google Scholar]
  2. Manivasagan P, Kang KH, Sivakumar K, Li-Chan EC, Oh HM et al. Marine actinobacteria: an important source of bioactive natural products. Environ Toxicol Pharmacol 2014; 38:172–188 [View Article]
     [Google Scholar]
  3. Maldonado LA, Fenical W, Jensen PR, Kauffman CA, Mincer TJ et al. Salinispora arenicola gen. nov., sp. nov. and Salinispora tropica sp. nov., obligate marine actinomycetes belonging to the family Micromonosporaceae. Int J Syst Evol Microbiol 2005; 55:1759–1766 [View Article]
     [Google Scholar]
  4. Román-Ponce B, Millán-Aguiñaga N, Guillen-Matus D, Chase AB, Ginigini JGM et al. Six novel species of the obligate marine actinobacterium Salinispora, Salinispora cortesiana sp. nov., Salinispora fenicalii sp. nov., Salinispora goodfellowii sp. nov., Salinispora mooreana sp. nov., Salinispora oceanensis sp. nov. and Salinispora vitiensis sp. nov., and emended description of the genus Salinispora. Int J Syst Evol Microbiol 2020; 70:4668–4682 [View Article]
     [Google Scholar]
  5. Phongsopitanun W, Thawai C, Suwanborirux K, Kudo T, Ohkuma M et al. Streptomyces chumphonensis sp. nov., isolated from marine sediments. Int J Syst Evol Microbiol 2014; 64:2605–2610 [View Article]
     [Google Scholar]
  6. Thawai C, Rungjindamai N, Klanbut K, Tanasupawat S. Nocardia xestospongiae sp. nov., isolated from a marine sponge in the Andaman Sea. Int J Syst Evol Microbiol 2017; 67:1451–1456 [View Article]
     [Google Scholar]
  7. Wu Z, Xie L, Xia G, Zhang J, Nie Y et al. A new tetrodotoxin-producing actinomycete, Nocardiopsis dassonvillei, isolated from the ovaries of puffer fish Fugu rubripes. Toxicon 2005; 45:851–859 [View Article] [PubMed]
     [Google Scholar]
  8. Ma L-F, Chen M-J, Liang D-E, Shi L-M, Ying Y-M et al. Streptomyces albogriseolus SY67903 produces eunicellin diterpenoids structurally similar to terpenes of the gorgonian Muricella sibogae, the bacterial source. J Nat Prod 2020; 83:1641–1645 [View Article] [PubMed]
     [Google Scholar]
  9. Marchbank DH, Ptycia-Lamky VC, Decken A, Haltli BA, Kerr RG. Guanahanolide a, a meroterpenoid with a sesterterpene skeleton from coral-derived sstreptomyces sp. Org Lett 2020; 22:6399–6403 [View Article]
     [Google Scholar]
  10. Zhang Z, Zhou T, Harunari E, Oku N, Igarashi Y. Iseolides A–C, antifungal macrolides from a coral-derived actinomycete of the genus Streptomyces. J Antibiot 2020; 73:534–541 [View Article] [PubMed]
     [Google Scholar]
  11. Subramani R, Sipkema D. Marine rare actinomycetes: a promising source of structurally diverse and unique novel natural products. Mar Drugs 2019; 17:249 [View Article] [PubMed]
     [Google Scholar]
  12. Pagani H, Parenti F. Kineosporia, a new genus of the order Actinomycetales. Int J Syst Bacteriol 1978; 28:401–406 [View Article]
     [Google Scholar]
  13. Parte AC, Sardà Carbasse J, Meier-Kolthoff JP, Reimer LC, Göker M. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol 2020; 70:5607–5612 [View Article] [PubMed]
     [Google Scholar]
  14. Lampert Y, Kelman D, Dubinsky Z, Nitzan Y, Hill RT. Diversity of culturable bacteria in the mucus of the Red Sea coral Fungia scutaria. FEMS Microbiol Ecol 2006; 58:99–108 [View Article] [PubMed]
     [Google Scholar]
  15. Nithyanand P, Manju S, Karutha Pandian S. Phylogenetic characterization of culturable actinomycetes associated with the mucus of the coral Acropora digitifera from Gulf of Mannar. FEMS Microbiol Lett 2011; 314:112–118 [View Article] [PubMed]
     [Google Scholar]
  16. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
     [Google Scholar]
  17. Suriyachadkun C, Chunhametha S, Thawai C, Tamura T, Potacharoen W et al. Planotetraspora thailandica sp. nov., isolated from soil in Thailand. Int J Syst Evol Microbiol 2009; 59:992–997 [View Article] [PubMed]
     [Google Scholar]
  18. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. eds Nucleic Acid Techniques in Bacterial Systematics Chichester: Wiley; 1991 pp 115–148
     [Google Scholar]
  19. Yoon S-H, Ha S-M, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article] [PubMed]
     [Google Scholar]
  20. Kumar S, Stecher G, Tamura K. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article] [PubMed]
     [Google Scholar]
  21. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article] [PubMed]
     [Google Scholar]
  22. Wick RR, Judd LM, Gorrie CL, Holt KE. Unicycler: Resolving bacterial genome assemblies from short and long sequencing reads. PLoS Comput Biol 2017; 13:e1005595 [View Article] [PubMed]
     [Google Scholar]
  23. Davis JJ, Wattam AR, Aziz RK, Brettin T, Butler R et al. The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities. Nucleic Acids Res 2020; 48:D606–D612 [View Article] [PubMed]
     [Google Scholar]
  24. Meier-Kolthoff JP, Göker M. TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy. Nat Commun 2019; 10:2182 [View Article] [PubMed]
     [Google Scholar]
  25. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016; 32:929–931 [View Article] [PubMed]
     [Google Scholar]
  26. Medema MH, Blin K, Cimermancic P, de Jager V, Zakrzewski P et al. antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res 2011; 39:W339–46 [View Article] [PubMed]
     [Google Scholar]
  27. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article] [PubMed]
     [Google Scholar]
  28. Kim M, Oh HS, Park SC, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014; 64:346–351 [View Article] [PubMed]
     [Google Scholar]
  29. Kelly KL. Inter-Society Color Council - National Bureau of Standards Color Name Charts Illustrated with Centroid Colors Washington, DC: US Government Printing Office; 1964
     [Google Scholar]
  30. Arai T. Culture Media for Actinomycetes Tokyo: The Society for Actinomycetes Japan; 1975
     [Google Scholar]
  31. Williams ST, Cross T. Chapter XI actinomycetes. Methods Microbiol 1971; 4:295–334
     [Google Scholar]
  32. Staneck JL, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 1974; 28:226–231 [View Article] [PubMed]
     [Google Scholar]
  33. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Meth 1984; 2:233–241 [View Article]
     [Google Scholar]
  34. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article] [PubMed]
     [Google Scholar]
  35. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101 Newark, DE: MIDI Inc; 1990
     [Google Scholar]
  36. Lechevalier HA, Lechevalier MP, Gerber NN. Chemical composition as a criterion in the classification of actinomycetes. Adv Appl Microbiol 1971; 14:47–72 [View Article] [PubMed]
     [Google Scholar]
  37. Lechevalier MP, De Bievre C, Lechevalier H. Chemotaxonomy of aerobic Actinomycetes: phospholipid composition. Biochemical Systematics and Ecology 1977; 5:249–260 [View Article]
     [Google Scholar]
  38. Kudo T, Matsushima K, Itoh T, Sasaki J, Suzuki K. Description of four new species of the genus Kineosporia: Kineosporia succinea sp. nov., Kineosporia rhizophila sp. nov., Kineosporia mikuniensis sp. nov. and Kineosporia rhamnosa sp. nov., isolated from plant samples, and amended description of the genus Kineosporia. Int J Syst Bacteriol 1998; 48:1245–1255 [View Article] [PubMed]
     [Google Scholar]
  39. Mo P, Liu J, Zhao Y, Xu Z. Streptomyces phaeolivaceus sp. nov. and Streptomyces broussonetiae sp. nov., isolated from the leaves and rhizosphere soil of Broussonetia papyrifera. Int J Syst Evol Microbiol 2020; 70:6458–6467 [View Article] [PubMed]
     [Google Scholar]
  40. Mo P, Yu Y-Z, Zhao J-R, Gao J. Streptomyces xiangtanensis sp. nov., isolated from a manganese-contaminated soil. Antonie van Leeuwenhoek 2017; 110:297–304 [View Article] [PubMed]
     [Google Scholar]
  41. Frommer W. Zur Systematik der Actinomycin bildenden Streptomyceten. Archiv Mikrobiol 1959; 32:187–206 [View Article]
     [Google Scholar]
  42. Gause GF, Preobrazhenskaya TP, Sveshnikova MA, Terekhova LP, Maximova TS. A Guide for the Determination of Actinomycetes. Genera Streptomyces, Streptoverticillium, and Chainia Nauka, Moscow: URSS; 1983
     [Google Scholar]
  43. Hu H, Lin H-P, Xie Q, Li L, Xie X-Q et al. Streptomyces shenzhenensis sp. nov., a novel actinomycete isolated from mangrove sediment. Antonie van Leeuwenhoek 2011; 100:631–637 [View Article] [PubMed]
     [Google Scholar]
  44. Esnard J, Potter TL, Zuckerman BM. Streptomyces costaricanus sp. nov., isolated from nematode-suppressive soil. Int J Syst Bacteriol 1995; 45:775–779 [View Article] [PubMed]
     [Google Scholar]
  45. Gordon MA, Lapa EW. Durhamycin, a pentaene antifungal antibiotic from Streptomyces durhamensis sp. n. Appl Microbiol 1966; 14:754–760 [View Article]
     [Google Scholar]
  46. Zheng J, Zhang X, Xin Y, Han X, Ni S et al. Streptomyces yaanensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2013; 63:4719–4723 [View Article] [PubMed]
     [Google Scholar]
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Streptomyces corallincola and Kineosporia corallincola sp. nov., two new coral-derived marine actinobacteria
Int J Syst Evol Microbiol 72, 005249 (2022); https://doi.org/10.1099/ijsem.0.005249
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