Skip to main content

Streptomyces mangrovi sp. nov., isolated from mangrove forest sediment

An Erratum to this article was published on 01 October 2015

Abstract

A Streptomyces strain isolated from a mangrove sediment was classified using a polyphasic approach. The organism, isolate GY1T, was found to have chemical and morphological properties typical of members of the genus Streptomyces. The isolate was shown to form a distinct phyletic line within the Streptomyces radiopugnans 16S rRNA gene subclade and to be closely related to the type strain of Streptomyces fenhuangensis (98.7 % similarity). It is also closely related to the type strain of Streptomyces bakulensis which was also closely related to members of the Streptomyces glaucosporus 16S rRNA gene subclade. Isolate GY1T was distinguished readily from the S. barkulensis type strain and from species classified in the S. radiopugnans clade using a combination of morphological and physiological properties, including a requirement for seawater for growth. Based on the genotypic and phenotypic data, it is proposed that isolate GY1T (=NCIMB 14980T, NRRL B-69296T) be classified in the genus Streptomyces as Streptomyces mangrovi sp. nov.

This is a preview of subscription content, access via your institution.

Fig. 1
Fig. 2

References

  1. Ahmed L, Jensen PR, Freel KC, Brown R, Al Jones, Kim B-Y, Goodfellow M (2013) Salinispora pacifica sp. nov., an actinomycete from marine sediments. Antonie Van Leeuwenhoek 103:1069–1078

    Article  PubMed  Google Scholar 

  2. Antony-Babu S, Goodfellow M (2008) Biosystematics of alkaliphilic streptomycetes isolated from seven locations across a beach and dune system. Antonie Van Leeuwenhoek 94:581–591

    Article  PubMed  Google Scholar 

  3. Bérdy J (2012) Thoughts and facts about antibiotics; where we are now and where are we heading. J Antibiot (Tokyo) 51:1–26

    Google Scholar 

  4. Busti E, Monciardini P, Cavaletti L, Bamonte R, Lazzarini A, Sosio M, Donadio S (2006) Antibiotic-producing ability by representatives of newly discovered lineages of actinomycetes. Microbiology 152:675–683

    CAS  Article  PubMed  Google Scholar 

  5. Carro L, Zūníga P, de la Calle F, Trujillo ME (2012) Streptomyces pharmamarensis sp. nov. isolated from a marine sediment. Int J Syst Evol Microbiol 62:1165–1170

    CAS  Article  PubMed  Google Scholar 

  6. Collins MD (1994) Isoprenoid quinones. In: Goodfellow M, O’Donnell AG (eds) Chemical methods in prokaryotic systematics. Wiley Colchester, Chichester, pp 265–309

    Google Scholar 

  7. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum-likelihood approach. J Mol Evol 17:368–376

    CAS  Article  PubMed  Google Scholar 

  8. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  Google Scholar 

  9. Fiedler H-P, Bruntner C, Bull AT, Ward AC, Goodfellow M, Potterat O, Puder C, Mihm M (2005) Marine actinomycetes as a source of novel secondary metabolites. Antonie Van Leeuwenhoek 87:37–42

    CAS  Article  PubMed  Google Scholar 

  10. Fitch WM (1971) Towards designing a course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416

    Article  Google Scholar 

  11. Goodfellow M (2012) Phylum XXVI. Actinobacteria phyl. nov. In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-I, Ludwig W, Whitman WB (eds) Bergey’s manual of systematic bacteriology, Part A. Springer, New York, pp 33–34

    Chapter  Google Scholar 

  12. Goodfellow M, Fiedler H-P (2010) A guide to successful bioprospecting: informed by actinobacterial systematics. Antonie Van Leeuwenhoek 98:119–142

    Article  PubMed  Google Scholar 

  13. Goodfellow M, Haynes JA (1984) Actinomycetes in marine sediments. In: Ortiz-Ortiz L, Bojalil L, Yakoleff V (eds) Biological, biochemical and biomedical aspects of actinomycetes. Academic Press, Inc., Orlando, pp 453–472

    Chapter  Google Scholar 

  14. Guidon S, Gascuel O (2003) A simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696–704

    Article  Google Scholar 

  15. Han KH, Nedashkovskaya OI, Milhailov VV, Kim SB, Bae KS (2003) Salinibacterium amurskiense gen. nov., a novel genus of the family Microbacteriaceae from the marine environment. Int J Syst Evol Microbiol 53:2061–2066

    CAS  Article  PubMed  Google Scholar 

  16. Hasegawa T, Takizawa M, Tanida S (1983) A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322

    CAS  Article  Google Scholar 

  17. Hong K, Gao A-H, Xie Q-Y, Gao H, Zhuang L, Lin H-P, Yu H-P, Li J, Yao X-S, Goodfellow M, Ruan J-S (2009) Actinomycetes for marine drug discovery isolated from mangrove soils and plants in China. Mar Drugs 7:24–44

    PubMed Central  CAS  Article  PubMed  Google Scholar 

  18. Hu H, Lin H-P, Xie Q, Li L, Xie S-Q, Sun M, Hong K (2011) Streptomyces shenzhenensis sp. nov., a novel actinomycete isolated from mangrove sediment. Antonie Van Leeuwenhoek 100:631–637

    CAS  Article  PubMed  Google Scholar 

  19. Hughes CC, Fenical W (2010) Actinobacteria from the sea. Chemistry 16:12512–12525

    PubMed Central  CAS  Article  PubMed  Google Scholar 

  20. Jensen PR, Dwight R, Fenical W (1991) Distribution of actinomycetes in near-shore tropical marine sediments. Appl Environ Microbiol 57:1102–1108

    PubMed Central  CAS  PubMed  Google Scholar 

  21. Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism. Academic Press, London, pp 21–132

    Chapter  Google Scholar 

  22. Kämpfer P (2012) Genus Streptomyces Waksman and Henrici 1943, 339AL, emend Witt and Stackebrandt 1990, 370, emend Wellington, Stackebrandt, Sanders, Wolstrup and Jorgensen 1992, 159. In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-I, Ludwig W, Whitman WB (eds) Bergey’s manual of systematic bacteriology, Part B. Springer, New York, pp 1455–1767

    Google Scholar 

  23. Kawato M, Shinobu R (1959) On Streptomyces herbaricolor sp. Mem Osaka Univ Lib Arts Educ B 8:114

    Google Scholar 

  24. Kelly KL (1964) Inter-society color council-national bureau of standards color-charts illustrated with centroid colours. US Government Printing Office, Washington

    Google Scholar 

  25. Khan ST, Tamura T, Takagi M, Shin-ya K (2010) Streptomyces tateyamensis sp. nov., Streptomyces marinus sp. nov. and Streptomyces haliclonae sp. nov. isolated from the marine sponge Haliclona sp. Int J Syst Evol Microbiol 60:2775–2779

    CAS  Article  PubMed  Google Scholar 

  26. Kim S-B, Goodfellow M (2002) Streptomyces thermospinisporus sp. nov. a moderately thermophilic carboxydotrophic streptomycete isolated from soil. Int J Syst Microbiol 52:1125–1128

    Google Scholar 

  27. Kim O-S, Cho YJ, Lee K, Yoon S-H, Kim M, Na H, Park SC, Yeon YS, Lee JH, Yi H, Won S, Chun J (2012) Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721

    CAS  Article  PubMed  Google Scholar 

  28. Kroppenstedt RM (1995) Fatty acid and menaquinone analysis of actinomycetes and related organisms. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 179–199

    Google Scholar 

  29. Labeda DP, Goodfellow M, Brown R, Ward AC, Lanoot C, Vancanneyt M, Swings J, Kim S-B, Liu Z, Chun J, Tamura T, Oguchi A, Kikuchi T, Kikuchi H, Nishii T, Tsuji K, Yamaguichi Y, Tase A, Takahashi M, Sakane T, Suzuki KI, Hatano K (2012) Phylogenetic study of the species within the family Streptomycetaceae. Antonie Van Leeuwenhoek 101:73–104

    CAS  Article  PubMed  Google Scholar 

  30. Lechevalier MP, Lechevalier H (1970) Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Evol Microbiol 20:435–443

    CAS  Google Scholar 

  31. Lechevalier MP, De Biévre C, Lechevalier HA (1977) Chemotaxonomy of aerobic actinomycetes, phospholipid composition. Biochem Syst Evol 5:248–260

    Article  Google Scholar 

  32. Maldonado L, Fenical W, Goodfellow M, Jensen PR, Kauffman CK, Ward AC (2005) Salinispora gen. nov., Salinispora arenicola sp. nov., Salinispora tropica asp. nov., obligate marine actinomycetes belonging to the family Micromonosporaceae. Int J Syst Evol Microbiol 55:1759–1766

    CAS  Article  PubMed  Google Scholar 

  33. Mao J, Tang Q, Zhang Z, Wang W, Wei D, Huang Y, Liu Z, Shi Y, Goodfellow M (2007) Streptomyces radiopugnans sp. nov., a radiation-resistant actinomycete isolated from radiation polluted soil in China. Int J Syst Evol Microbiol 57:2578–2582

    CAS  Article  PubMed  Google Scholar 

  34. Meier-Kolthoff JP, Göker M, Spöer C, Klenk H-P (2013) When should a DDH experiment be mandatory in microbial taxonomy? Arch Microbiol 95:413–418

    Article  Google Scholar 

  35. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241

    CAS  Article  Google Scholar 

  36. O’Donnell AG, Falconer C, Goodfellow M, Ward AC, Williams E (1993) Biosystematics and diversity amongst novel carboxydotrophic actinomycetes. Antonie Van Leeuwenhoek 64:325–340

    Article  PubMed  Google Scholar 

  37. Okami Y, Okazaki T (1972) Studies on marine microorganisms 1. Actinomycetes in Sagami Bay and their antibiotic substances. J Antibiot (Tokyo) 25:456–460

    CAS  Article  Google Scholar 

  38. Okoro CK, Brown R, Jones AL, Andrews BA, Asenjo JA, Goodfellow M, Bull AT (2009) Diversity of culturable actinomycetes in hyper-arid soils of the Atacama Desert, Chile. Antonie Van Leeuwenhoek 95:121–133

    Article  PubMed  Google Scholar 

  39. Parte AC (2013) LPSN-list of prokaryotic names with standing in nomenclature. Nucleic Acids Res 42:D613–D616

    PubMed Central  Article  PubMed  Google Scholar 

  40. Phongsopitanun W, Thawai C, Suwanborirux K, Kudo T, Ohkuma M, Tanasupawat S (2014) Streptomyces chumphonensis sp. nov., isolated from marine sediements. Int J Syst Evol Microbiol 64:2605–2610

    CAS  Article  PubMed  Google Scholar 

  41. Pimentel-Elardo SM, Scheuemayer M, Kozytska S, Hentschel U (2009) Streptomyces axinellae sp. nov. isolated from the Mediterranean sponge Axinella polypoides (Porifera). Int J Syst Evol Microbiol 59:1433–1437

    CAS  Article  PubMed  Google Scholar 

  42. Ray L, Mishra SR, Panda AN, Rastogi G, Pattanaik AK, Adhya TK, Suar M, Raina V (2014) Streptomyces barkulensis sp. nov., isolated from an estuarine lake. Int J Syst Evol Microbiol 64:1365–1372

    CAS  Article  PubMed  Google Scholar 

  43. Saitou N, Nei M (1987) The neighbor-joining method: a new method for constructing phylogenetic trees. Mol Biol Evol 4:406–425

    CAS  PubMed  Google Scholar 

  44. Santhanam R, Okoro CK, Rong X, Huang Y, Bull AT, Weon H-Y, Andrews BA, Asenjo JA, Goodfellow M (2012) Streptomyces atacamensis sp. nov., isolated from an extreme hyper-arid soil of the Atacama Desert. Chile. Int J Syst Evol Microbiol 62:2680–2684

    CAS  Article  PubMed  Google Scholar 

  45. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101 MIDI Inc

  46. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340

    Article  Google Scholar 

  47. Songsumanus A, Tanasupawat S, Igarashi Y, Kudo T (2013) Micromonospora maritima sp. nov., isolated from mangrove soil. Int J Syst Evol Microbiol 63:554–559

    CAS  Article  PubMed  Google Scholar 

  48. Sui J-L, Xu X-X, Qu Z, Wang H-L, Lin H-P, Xie Q-Y, Ruan J-S, Ruan J-S, Hong K (2011) Streptomyces sanyensis sp. nov., isolated from mangrove sediment. Int J Syst Evol Microbiol 61:1632–1637

    CAS  Article  PubMed  Google Scholar 

  49. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) Mega 6: molecular evolutionary genetics analysis version 6. Mol Biol Evol 30:2725–2729

    PubMed Central  CAS  Article  PubMed  Google Scholar 

  50. Tan GYA, Robinson S, Lacey E, Goodfellow M (2006) Exploration of Amycolatopsis diversity in soil using genus specific primers and novel selective media. Syst Appl Microbiol 29:557–569

    CAS  Article  PubMed  Google Scholar 

  51. Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680

    PubMed Central  CAS  Article  PubMed  Google Scholar 

  52. Tian X-P, Long L-J, Wang F-Z, Xu Y, Li J, Zhang J, Zhang C-S, Zhang S, Li W-J (2012a) Streptomyces nanhaiensis sp. nov., a marine streptomycete isolated from a deep-sea sediment. Int J Syst Evol Microbiol 62:864–868

    CAS  Article  PubMed  Google Scholar 

  53. Tian X-P, Xu Y, Zhang J, Li J, Chen Z, Kim C-J, Li W-J, Zhang C-S, Zhang S (2012b) Streptomyces oceani sp. nov., a new obligate marine actinomycete isolated from a deep-sea sample of seep authigenic carbonate nodule in South China Sea. Antonie van Leuewenhoek 102:335–343

    CAS  Article  Google Scholar 

  54. Veyisoglu A, Sahin N (2014) Streptomyces hoynatensis sp. nov., isolated from deep marine sediment. Int J Syst Evol Microbiol 64:819–826

    CAS  Article  PubMed  Google Scholar 

  55. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE et al (1987) International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

  56. Weyland H (1981) Distribution of actinomycetes on the sea-floor. Zbl Bakt Suppl 11:185–193

    Google Scholar 

  57. Williams ST, Goodfellow M, Alderson G, Wellington EMH, Sneath PHA, Sackin MJ (1983) Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743–1813

    CAS  PubMed  Google Scholar 

  58. Xiao J, Wang Y, Luo Y, Xie S-J, Ruan J-S, Xu J (2009) Streptomyces avicenniae sp. nov., a novel actinomycete isolated from the rhizosphere of the mangrove plant Avicenna mariana. Int J Syst Evol Microbiol 59:2624–2628

    CAS  Article  PubMed  Google Scholar 

  59. Zhu H, Jiang S, Yao O, Wang Y, Chen M, Chen Y, Guo J (2011) Streptomyces fenghuangensis sp. nov., isolated from seawater. Int J Syst Evol Microbiol 61:2811–2815

    CAS  Article  PubMed  Google Scholar 

  60. Zotchev SB (2012) Marine actinomycetes as an emerging resource for the drug development pipelines. J Biotechnol 158:168–175

    CAS  Article  PubMed  Google Scholar 

Download references

Acknowledgments

Ghada Yousif is grateful for support from the Egyptian Government to allow her to study in the UK on a ParOwn scholarship and for advice from Wael Hozzein and from her master supervisors Medhat abdel Fattah, Sherif Hassan and Ahmed Reyad. Kanungnid Busarakam gratefully thanks the Thai Royal Government for a scholarship.

Author information

Affiliations

Authors

Corresponding author

Correspondence to Michael Goodfellow.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOCX 14 kb)

Rights and permissions

Reprints and Permissions

About this article

Verify currency and authenticity via CrossMark

Cite this article

Yousif, G., Busarakam, K., Kim, BY. et al. Streptomyces mangrovi sp. nov., isolated from mangrove forest sediment. Antonie van Leeuwenhoek 108, 783–791 (2015). https://doi.org/10.1007/s10482-015-0533-0

Download citation

Keywords

  • Streptomyces
  • Polyphasic taxonomy
  • Mangrove sediment