Streptomyces associated with a marine sponge Haliclona sp.; biosynthetic genes for secondary metabolites and products

Environmental Microbiology

Volumn 13, Issue 2, 2011, Pages 391-403

  Khan, Shams Tabrez ^a   Komaki, Hisayuki ^a,b   Motohashi, Keiichiro ^a   Kozone, Ikuko ^a   Mukai, Akira ^a   Takagi, Motoki ^a   Shin Ya, Kazuo ^c  

^a Koto ku   (Japan)

^b NATIONAL INSTITUTE OF TECHNOLOGY AND EVALUATION   (Japan)

^c NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; INDOLE DERIVATIVE; JBIR 34; JBIR 35; JBIR-34; JBIR-35; OLIGOPEPTIDE; RNA 16S;

ANIMAL; ARTICLE; BACTERIAL GENE; BIOSYNTHESIS; CLASSIFICATION; GENE LIBRARY; GENETICS; HALICLONA; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; PHYLOGENY; STREPTOMYCES;

ANIMALS; GENE LIBRARY; GENES, BACTERIAL; HALICLONA; INDOLES; MOLECULAR SEQUENCE DATA; OLIGOPEPTIDES; PHYLOGENY; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; STREPTOMYCES;

ACTINOBACTERIA; HALICLONA SP.; STREPTOMYCES;

EID: 79551487445     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2010.02337.x     Document Type: Article

References (57)

1. Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J. (1990) Basic local alignment search tool. J Mol Biol 215: 403-410.
2. Atlas, R.M., and Park, L.C. (2000) Handbook of Microbiological Media. Boca Raton, FL, USA: CRC Press.
3. Bertino, P., Carbone, M., and Pass, H. (2009) Chemotherapy of malignant pleural mesothelioma. Expert Opin Pharmacother 10: 99-107.
4. Bredholt, H., Fjaervik, E., Johnsen, G., and Zotchev, S.B. (2008) Actinomycetes from sediments in the Trondheim Fjord, Norway: diversity and biological activity. Mar Drugs 6: 12-24.
5. Brosius, J., Palmer, M.L., Kennedy, P.J., and Noller, H.F. (1978) Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci USA 75: 4801-4805.
6. Buchanan, A.U., Williams, P.G., Feling, R.H., Kauffman, C.A., Jensen, P.R., and Fenical, W. (2005) Sporolides A and B: structurally unprecedented halogenated macrolides from the marine actinomycete Salinispora tropica. Org lett 13: 2731-2734.
7. Bull, A.T., Ward, A.C., and Goodfellow, M. (2000) Search and discovery strategies for biotechnology: the paradigm shift. Microbiol Mol Biol Rev 64: 573-606.
8. Charan, R.D., Schlingmann, G., Bernan, V.S., Feng, X., and Carter, G.T. (2005) Fumaquinone, a new prenylated naphthoquinone from Streptomyces fumanus. J Antibiot 58: 271-274.
9. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S., Kim, B.K., and Lim, Y.W. (2007) EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57: 2259-2261.
10. Feling, R.H., Buchanan, G.O., Mincer, T.J., Kauffman, C.A., Jensen, P.R., and Fenical, W. (2003) Salinosporamide A: a highly cytotoxic proteasome inhibitor from a novel microbial source, a marine bacterium of the new genus salinospora. Angew Chem Int Ed Engl 42: 355-357.
11. Felsenstein, J. (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
12. Fenical, W., and Jensen, P.R. (2006) Developing a new source for drug discovery: marine actinomycete bacteria. Nat Chem Biol 2: 666-673.
13. Fiedler, H.-P., Bruntner, C., Bull, A., Ward, A., Goodfellow, M., Potterat, O., etal. (2005) Marine actinomycetes as source of novel secondary metabolites. Antonie Van Leeuwenhoek 87: 37-42.
14. Ger. Pat. (1978) 2 804 495; CA, 89, 195401z.
15. Hentschel, U., Hopke, J., Horn, M., Friedrich, A.B., Wagner, M., Hacker, J., and Moore, B.S. (2002) Molecular evidence for a uniform microbial community in sponges from different oceans. Appl Environ Microbiol 68: 4431-4440.
16. Izumikawa, M., Khan, S.T., Komaki, H., Takagi, M., and Shin-ya, K. (2010a) JBIR-31, a new teleocidin analogue, produced by a salt-requiring Streptomyces sp. NBRC 105896 isolated from a marine sponge. J Antibiot 63: 33-36.
17. Izumikawa, M., Khan, S.T., Takagi, M., and Shin-ya, K. (2010b) Sponge-derived Streptomyces producing isoprenoids via the mevalonate pathway. J Nat Prod 73: 208-212.
18. Jensen, P.R., Mincer, T.J., Williams, P.G., and Fenical, W. (2005) Marine actinomycete diversity and natural product discovery. Antonie Van Leeuwenhoek 87: 43-48.
19. Jensen, P.R., Williams, P.G., Oh, D.C., Zeigler, L., and Fenical, W. (2007) Species specific secondary metabolite production in marine actinomycetes of the genus Salinispora. Appl Environ Microbiol 73: 1146-1152.
20. Jiang, S., Sun, W., Chen, M., Dai, S., Zhang, L., Liu, Y., etal. (2007) Diversity of culturable actinobacteria isolated from marine sponge Haliclona sp. Antonie Van Leeuwenhoek 92: 405-416.
21. Jiang, S., Xiang, L., Zhang, L., Sun, W., Dai, S., Xie, L., etal. (2008) Culturable actinobacteria from marine sponge Iotrochota sp. Mar Biol 153: 945-952.
22. Keller-Schierlein, W., Sauerbier, J., Vogler, U., and Zahner, H. (1970) Metabolites of microorganisms. Aranciamycin. Helv Chim Acta 53: 779-789.
23. Kennedy, J., Codling, C.E., Jones, B.V., Dobson, A.D.W., and Marchesi, J.R. (2008) Diversity of microbes associated with the marine sponge, Haliclona simulans, isolated from Irish waters and identification of polyketide synthase genes from the sponge metagenome. Environ Microbiol 10: 1888-1902.
24. Khan, S.T., Izumikawa, M., Motohashi, K., Mukai, A., Takagi, M., and Shin-ya, K. (2010a) Distribution of the 3-hydroxyl-3-methyl glutaryl coenzyme A reductase gene and isoprenoid production in marine derived Actinobacteria. FEMS Microbiol lett 304: 89-96.
25. Khan, S.T., Tamura, T., Takagi, M., and Shin-ya, K. (2010b) Streptomyces tateyamensis sp. nov., Streptomyces marinus sp. nov. and Streptomyces haliclonae sp. nov., three novel species of Streptomyces isolated from marine sponge Haliclona sp. Int J Syst Evol Microbiol (in press): doi:10.1099/ijs.0.019869-0.
26. Komaki, H., and Harayama, S. (2006) Sequence diversity of type-II polyketide synthase genes in Streptomyces. Actinomycetologica 20: 42-48.
27. Komaki, H., Fudou, R., Iizuka, T., Nakajima, D., Okazaki, K., Shibata, D., etal. (2008) PCR detection of type-I polyketide synthase genes in myxobacteria. Appl Environ Microbiol 74: 5571-5574.
28. Komaki, H., Izumikawa, M., Ueda, J.-Y., Nakashima, T., Khan, S.T., Takagi, M., and Shin-ya, K. (2009) Discovery of a pimaricin analogue JBIR-13, from Streptomyces bicolor NBRC 12746 as predicted by the presence of corresponding Type-I polyketide synthase gene. Appl Microbiol Biotechnol 83: 127-133.
29. Küster, E., and Williams, S.T. (1964) Selective media for isolation of streptomycetes. Nature 202: 928-929.
30. Li, J.W.-H., and Vederas, J.C. (2009) Drug discovery and natural products: end of an era or an endless frontier? Science 325: 161-165.
31. McVeigh, H.P., Divers, M., Warwick, S., Munro, J., and Embley, T.M. (1994) Exploration of actinomycete diversity using ribosomal RNA sequences. Biotechnologia 7-8: 253-260.
32. Mesbah, M., Premchandran, U., and Whitman, W.B. (1989) Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39: 159-167.
33. Metsä-ketalä, M., Salo, V., Halo, L., Hautala, A., Hakala, J., Mäntsälä, P., andYlihonko, K. (1999) An efficient approach for screening minimal PKS genes from Streptomyces. FEMS Microbiol Lett 180: 1-6.
34. Minamisawa, K. (1990) Division of rhizobitoxine-producing and hydrogen-uptake positive strains of Bradyrhizobium japonicum by nifDKE sequence divergence. Plant Cell Physiol 31: 81-89.
35. Mincer, T.J., Jensen, P.R., Kauffman, C.A., and Fenical, W. (2002) Widespread and persistent populations of a major new marine actinobacteria taxon in ocean sediments. Appl Environ Microbiol 68: 5005-5011.
36. Montalvo, N.F., Mohamed, N.M., Enticknap, J.J., and Hill, R.T. (2005) Novel actinobacteria from marine sponges. Antonie Van Leeuwenhoek 87: 29-36.
37. Moore, A.J., Parker, R.J., and Wiggins, J. (2008) Malignant mesothelioma. Orphanet J Rare Dis 3: 34.
38. Motohashi, K., Hwang, J.H., Sekido, Y., Takagi, M., and Shin-ya, K. (2009) JBIR-23 and -24, novel anticancer agents from Streptomyces sp. AK-AB27. Org Lett 11: 285-288.
39. Motohashi, K., Takagi, M., and Shin-ya, K. (2010a) Tetrapeptides possessing unique skeleton, JBIR-34 and JBIR-35, isolated from a sponge-derived actinomyces, Streptomyces sp. Sp080513GE-23. J Nat Prod 73: 226-228.
40. Motohashi, K., Takagi, M., and Shin-ya, K. (2010b) Tetracenoquinocin and 5-imino-aranciamycin from a sponge-derived Streptomyces sp. Sp080513GE-26. J Nat Prod 73: 628-631.
41. Newman, D.J., and Hill, R.T. (2006) New drugs from marine microbes: the tide is turning. J Ind Microbiol Biotechnol 33: 539-544.
42. Pandey, R.C., Toussaint, M.W., Stroshane, R.M., Kalita, C.C., Aszalos, A.A., Garretson, A.L., etal. (1981) Fredericamycin A, a new antitumor antibiotic. I. Production, isolation and physicochemical properties. J Antibiot 34: 1389-1401.
43. Rintala, H., Nevalainen, A., Rönkä, E., and Suutari, M. (2001) PCR primers targeting the 16S rRNA gene for the specific detection of Streptomycetes. Mol Cell Probes 15: 337-347.
44. Saitou, N., and Nei, M. (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4: 406-425.
45. Shirling, E.B., and Gottlieb, D. (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16: 313-340.
46. Schirmer, A., Gadkari, R., Reeves, C.D., Ibrahim, F., Delong, E.F., and Hutchinson, R. (2005) Metagenomic analysis reveals diverse polyketide synthase gene clusters in microorganisms associated with the marine sponge Discodermia dissoluta. Appl Environ Microbiol 71: 4840-4849.
47. Sipkema, D., Holmes, B., Nichols, S.A., and Blanch, H.W. (2009) Biological characterization of Haliclona (?gellius) sp.: sponge and associated microorganisms. Microb Ecol 58: 903-920.
48. Stackebrandt, E., and Ebers, J. (2006) Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 8: 6-9.
49. Swofford, D.L. (2000) PAUP* Version 4. Phylogenetic Analysis Using Parsimony (*and Other Methods). Sunderland, MA, USA: Sinauer.
50. Tamura, T., Nakagaito, Y., Nishii, T., Hasegawa, T., Stackebrandt, E., and Yokota, A. (1994) A new genus of the order Actinomycetales, Couchioplanes gen. nov., with the description of Couchioplanes caeruleus (Horan and Brodsky 1986) comb. nov. and Couchioplanes caeruleus subsp. azureus subsp. nov. Int J Syst Bacteriol 44: 193-203.
51. Taylor, M.W., Radax, R., Steger, D., and Wagner, M. (2007) Sponge-associated microorganisms: evolution, Ecology and biotechnological potential. Microbiol Mol Biol Rev 71: 295-347.
52. Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. (1997) The clustal-x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882.
53. Usami, N., Fukui, T., Kondo, M., Taniguchi, T., Yokoyama, T., Mori, S., etal. (2006) Establishment and characterization of four malignant pleural mesothelioma cell lines from Japanese patients. Cancer Sci 97: 387-394.
54. Vogel, S. (1977) Current induced flow through living sponges in nature. Proc Natl Acad Sci USA 74: 2069-2071.
55. Wehrl, M., Steinert, M., and Hentschel, U. (2007) Bacterial uptake by the marine sponge Aplysina aerophoba. Microbial Ecol 53: 355-365.
56. Yu, Y., Brietbart, M., McNairnie, P., and Rohwer, F. (2006) FastGroupII: a web-based bioinformatics platform for analyses of large 16S rDNA libraries. BMC Bioinformatics 7: 57-65.
57. Zhang, H., Lee, Y.K., Zhang, W., and Lee, H.K. (2006) Culturable actinobacteria from the marine sponge Hymeniacidon perleve: isolation and phylogenetic diversity by 16S rRNA gene-RFLP analysis. Antonie Van Leeuwenhoek 90: 159-169.