Investigation of bacteria with polyketide synthase genes and antimicrobial activity isolated from South China Sea sponges

Journal of Applied Microbiology

Volumn 107, Issue 2, 2009, Pages 567-575

  Zhang, W ^a   Zhang, F ^a   Li, Z ^a   Miao, X ^a   Meng, Q ^a   Zhang, X ^a  

^a SHANGHAI JIAO TONG UNIVERSITY   (China)

Author keywords

Antimicrobial activity; Bacteria; Fosmid library; PCR; Phylogenetic analysis; Polyketide synthase; Sponge.

Indexed keywords

BACTERIOLOGY; BIOACTIVITY; GENES; KETONES; POLYMERASE CHAIN REACTION; RNA;

ANTI-MICROBIAL ACTIVITY; FOSMID LIBRARY; GENE ACTIVITIES; KETOSYNTHASE; PHYLOGENETIC ANALYSIS; POLYKETIDE SYNTHASE GENES; POLYKETIDE SYNTHASES; SEA SPONGE; SOUTH CHINA SEA; SPONGE.;

BACTERIA;

POLYKETIDE SYNTHASE;

ANTIMICROBIAL ACTIVITY; BACTERIUM; BIOASSAY; ENZYME ACTIVITY; POLYMERASE CHAIN REACTION; SPONGE;

ALCALIGENES; ARTICLE; BACILLUS; CRANIELLA AUSTRALIENSIS; DYSIDEA AVARA; FIRMICUTES; HALICHONDRIA RUGOSA; NONHUMAN; NUCLEOTIDE SEQUENCE; PROTEOBACTERIA; SPONGE (PORIFERA); STAPHYLOCOCCUS; STAPHYLOCOCCUS LENTUS; STELLETTA TENUIS;

ACTINOBACTERIA (CLASS); ALCALIGENES SP.; BACILLUS (BACTERIUM); BACTERIA (MICROORGANISMS); CRANIELLA; DYSIDEA AVARA; FIRMICUTES; FUNGI; HALICHONDRIA; NEGIBACTERIA; POSIBACTERIA; PROTEOBACTERIA; STAPHYLOCOCCUS LENTUS; STELLETTA;

EID: 68049130022     PISSN: 13645072     EISSN: 13652672     Source Type: Journal    
DOI: 10.1111/j.1365-2672.2009.04241.x     Document Type: Article

References (56)

1. Blunt, J.W., Copp, B.R., Hu, W., Munro, M.H.G., Northcote, P.T. Prinsep, M.R. (2007) Marine natural products. Nat Prod Rep 24, 31 86.
2. Blunt, J.W., Copp, B.R., Hu, W., Munro, M.H.G., Northcote, P.T. Prinsep, M.R. (2008) Marine natural products. Nat Prod Rep 25, 35 94.
3. Chen, X.H., Vater, J., Piel, J. Franke, P. (2006) Structural and functional characterization of three polyketide synthase gene clusters in Bacillus amyloliquefaciens FZB42. J Bacteriol 188, 4024 4036.
4. Dunlap, W.C., Battershill, C.N., Liptrot, C.H., Cobb, R.E., Bourne, D.G., Jaspars, M., Long, P.F. Newman, D.J. (2007) Biomedicinals from the phytosymbionts of marine invertebrates: a molecular approach. Methods 42, 358 376.
5. Ehrenreich, I.M., Waterbury, J.B. Webb, E.A. (2005) Distribution and diversity of natural product genes in marine and freshwater cyanobacterial cultures and genomes. Appl Environ Microbiol 71, 7401 7413.
6. Fieseler, L., Hentschel, U., Grozdanov, L., Schirmer, A., Wen, G., Platzer, M., Hrvatin, S., Butzke, D. et al. (2007) Widespread occurrence and genomic context of unusually small polyketide synthase genes in microbial consortia associated with marine sponges. Appl Environ Microbiol 73, 2144 2155.
7. Fontana, A., Ishibashi, M., Shigemori, H. Kobayashi, J. (1998) New cyclic polyketide peroxides from Okinawan marine sponge Plakortis sp. J Nat Prod 61, 1427 1429. (Pubitemid 28555118)
8. Friedrich, A.B., Fischer, I., Proksch, P., Hacker, J. Hentschel, U. (2001) Temporal variation of the microbial community associated with the Mediterranean sponge Aplysina aerophoba. FEMS Microbiol Ecol 38, 105 113.
9. Funa, N., Ohnishi, Y., Fujii, I., Shibuya, M., Ebizuka, Y. Horinouchi, S. (1999) A new pathway for polyketide synthesis in microorganisms. Nature 400, 897 899.
10. Ginolhac, A., Jarrin, C., Gillet, B., Robe, P., Pujic, P., Tuphile, K., Bertrand, H., Vogel, T.M. et al. (2004) Phylogenetic analysis of polyketide synthase I domains from soil metagenomic libraries allows selection of promising clones. Appl Environ Microbiol 70, 5522 5527.
11. Hentschel, U., Schmid, M., Wagner, M., Fieseler, L., Gernert, C. Hacker, J. (2001) Isolation and phylogenetic analysis of bacteria with antimicrobial activities from the Mediterranean sponges Aplysina aerophoba and Aplysina cavernicola. FEMS Microbiol Ecol 35, 305 312.
12. Hentschel, U., Usher, K.M. Taylor, M.W. (2006) Marine sponges as microbial fermenters. FEMS Microbiol Ecol 55, 167 177.
13. Hildebrand, M., Waggoner, L.E. Liu, H. (2004) BryA: an unusual modular polyketide synthase gene from the uncultivated bacterial symbiont of the marine bryozoan Bugula neritina. Chem Biol 11, 1543 1552.
14. Hill, R.A. (2003) Marine natural products. Annu Rep Prog Chem 99, 183 207.
15. Hill, R.A. (2004) Marine natural products. Annu Rep Prog Chem 100, 169 189.
16. Hill, R.A. (2005) Marine natural products. Annu Rep Prog Chem 101, 124 136.
17. Hill, R.A. (2006) Marine natural products. Annu Rep Prog Chem 102, 123 137.
18. Hopwood, D.A. (1997) Genetic contributions to understanding polyketide synthase. Chem Rev 97, 2465 2498.
19. Huang, X.H., van Soest, R., Roberge, M. Andersen, R.J. (2004) Spiculoic acids A and B, new polyketides isolated from the Caribbean marine sponge Plakortis angulospiculatus. Org Lett 6, 75 78.
20. Jensen, P. R. Fenical, W. (1994) Strategies for the discovery of secondary metabolites from marine bacteria: ecological perspectives. Annu Rev Microbiol 48, 559 584.
21. Jiang, S., Sun, W., Chen, M., Dai, S., Zhang, L., Liu, Y., Lee, K.L. Li, X. (2007) Diversity of culturable actinobacteria isolated from marine sponge Haliclona sp. Antonie Van Leeuwenhoek 92, 405 416.
22. Jiang, S., Li, X., Zhang, L., Sun, W., Dai, S., Xie, L., Liu, Y. Lee, K.J. (2008) Culturable actinobacteria isolated from marine sponge Iotrochota sp. Mar Biol 153, 945 952.
23. Kapley, A., Siddiqui, S., Misra, K., Ahmad, S.M. Purohitp, H.J. (2007) Preliminary analysis of bacterial diversity associated with the Porites coral from the Arabian Sea. World J Microbiol Biotechnol 23, 923 930.
24. Kim, T.K. Fuerst, J.A. (2006) Diversity of polyketide synthase genes from bacteria associated with the marine sponge Pseudoceratina clavata: culture-dependent and culture-independent approaches. Environ Microbiol 8, 1460 1470.
25. Kim, T.K., Garson, M.J. Fuerst, J.A. (2005) Marine actinomycetes related to the "Salinospora" group from the Great Barrier Reef sponge Pseudoceratina clavata. Environ Microbiol 7, 509 518.
26. Kobayashi, J. Ishibashi, M. (1993) Bioactive metabolites of symbiotic marine microorganisms. Chem Rev 93, 1753 1769.
27. Lee, Y., Lee, J. Lee, H. (2001) Microbial symbiosis in marine sponges. J Microbiol 39, 254 264.
28. Li, Z.Y. Liu, Y. (2006b) Marine sponge Craniella austrialiensis- associated bacterial diversity revelation based on 16S rDNA library and biologically active actinomycetes screening, phylogenetic analysis. Lett Appl Microbiol 43, 410 416.
29. Li, Z.Y., He, L.M., Wu, J. Jiang, Q. (2006a) Bacterial community diversity associated with four marine sponges from the South China Sea based on 16S rDNA-DGGE fingerprinting. J Exp Mar Bio Ecol 329, 75 85.
30. Li, Z.Y., Hu, Y., Liu, Y., Huang, Y., He, L.M. Miao, X.L. (2007a) 16S rDNA clone library based bacterial phylogenetic diversity associated with three South China Sea sponges. World J Microbiol Biotechnol 23, 1265 1272.
31. Li, Z.Y., Hu, Y., Huang, Y.Q. Huang, Y. (2007b) Three South China Sea sponges associated biologically active bacterial isolation and phylogenetic analysis. Microbiology 76, 494 499. (Pubitemid 47292840)
32. Lopanik, N.B., Targett, N.M. Lindquist, N. (2006) Isolation of two polyketide synthase gene fragments from the uncultured microbial symbiont of the marine bryozoan Bugula neritina. Appl Environ Microbiol 72, 7941 7944.
33. Malpartida, F. Hopwood, D.A. (1984) Molecular cloning of the whole biosynthetic pathway of a Streptomyces antibiotic and its expression in a heterologous host. Nature 309, 462 464.
34. Martens, T., Gram, L., Grossart, H., Kessler, D., Müller, R., Simon, M., Wenzel, S.C. Brinkhoff, T. (2007) Bacteria of the Roseobacter clade show potential for secondary metabolite production. Microbial Ecol 54, 31 42.
35. McDaniel, R., Ebert-Khosla, S., Fu, H., Hopwood, D. Khosla, C. (1994) Engineered biosynthesis of novel polyketides: influence of a downstream enzyme on the catalytic specificity of a minimal aromatic polyketide synthase. Proc Natl Acad Sci USA 91, 11542 11546.
36. Minowa, Y., Araki, M. Kanehisa, M. (2007) Comprehensive analysis of distinctive polyketide and nonribosomal peptide structural motifs encoded in microbial genomes. J Mol Biol 368, 1500 1517.
37. Moffitt, M.C. Neilan, B.A. (2003) Evolutionary affiliations within the superfamily of ketosynthases reflect complex pathway associations. J Mol Evol 56, 446 457.
38. Müller, W.E.G. Müller, I.M. (2003) Analysis of the sponge (Porifera) gene repertoire: implications for the evolution of the metazoan body plan. In Sponges (Porifera) ed. Müller, W.E.G. pp. 1 33. Berlin, Heidelberg, New York : Springer.
39. Müller, W.E.G., Grebenjuk, V.A., Pennec, G.L., Schröder, H.C., Brümmer, F., Hentschel, U., Müller, I.M. Breter, H. (2004) Sustainable production of bioactive compounds by sponges - cell culture and gene cluster approach: a review. Mar Biotechnol 6, 105 117.
40. Okada, Y., Matsunaga, S., van Soest, R.W. Fusetani, N. (2002) Nagahamide A, an antibacterial depsipeptide from the marine sponge Theonella swinhoei. Org Lett 4, 3039 3042.
41. Pfeifer, B.A., Admiraal, S.J., Gramajo, H., Cane, D.E. Khosla, C. (2001) Biosynthesis of complex polyketides in a metabolically engineering strain of E. coli. Science 291, 1790 1792.
42. Piel, J. (2006) Bacterial symbionts: prospects for the sustainable production of invertebrate-derived pharmaceuticals. Curr Med Chem 13, 39 50.
43. Piel, J., Hui, D., Wen, G., Butzke, D., Platzer, M., Fusetani, N. Matsunaga, S. (2004a) Antitumor polyketide biosynthesis by an uncultivated bacterial symbiont of the marine sponge Theonella swinhoei. Proc Natl Acad Sci USA 101, 16222 16227.
44. Piel, J., Hui, D., Fusetani, N. Matsunaga, S. (2004b) Targeting modular polyketide synthases with iteratively acting acyltransferases from metagenomes of uncultured bacterial consortia. Environ Microbiol 6, 921 927.
45. Polz, M.F., Harbison, C. Cavanaugh, C.M. (1999) Diversity and heterogeneity of epibiotic bacterial communities on the marine nematode Eubostrichus dianase. Appl Environ Microbiol 65, 4271 4275.
46. Prokofeva, N.G., Kalinovskaya, N.I., Lukyanov, P.A., Shentsova, E.B. Kuznetsova, T.A. (1999) The membranotropic activity of cyclic acyldepsipeptides from bacterium Bacillus pumilus, associated with the marine sponge Ircinia sp. Toxicon 37, 801 813.
47. Proksch, P., Edrada, R.A. Ebel, R. (2002) Drugs from the seas: current status and microbiological implications. Appl Microbiol Biotechnol 59, 125 134.
48. Schirmer, A., Gadkari, R., Reeves, C.D., Ibrahim, F., Delong, E.F. Hutchinson, C.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.
49. Sudek, S., Lopanik, N.B., Waggoner, L.R., Hildebrand, M., Anderson, C., Liu, H.B., Patel, A., Sherman, D.H. et al. (2007) Identification of the putative bryostatin polyketide synthase gene cluster from "Candidatus Endobugula sertula", the uncultivated microbial symbiont of the marine bryozoan Bugula neritina. J Nat Prod 70, 67 74.
50. Tang, G.L., Cheng, Y.Q. Shen, B. (2004) Leinamycin biosynthesis revealing unprecedented architectural complexity for a hybrid polyketide synthase and nonribosomal peptide synthetase. Chem Biol 11, 33 45.
51. Thiel, V., Neulinger, S.C., Staufenberger, T., Schmaljohann, R. Imhoff, J.F. (2007) Spatial distribution of sponge-associated bacteria in the Mediterranean sponge Tethya aurantium. FEMS Microbiol Ecol 59, 47 63.
52. Vacelet, J. Donadey, C. (1977) Electron microscope study of the association between some sponges and bacteria. J Exp Mar Ecol 30, 301 314.
53. Xue, Q., Ashley, G., Hutchinson, C.R. Santi, D.V. (1999) A mutiplasmid approach to preparing large libraries of polyketides. Proc Natl Acad Sci USA 96, 11740 11745.
54. Zhang, X.S., Li, Z.Y. Miao, X.L. (2007) PKS gene screening based on metagenome of Halichondria rugosa. Acta Microbiol Sinica 47, 526 528.
55. Zhang, W., Li, Z., Miao, X. Zhang, F. (2008) The screening of antimicrobial bacteria with diverse novel nonribosomal peptide synthetase (NRPS) genes from South China Sea sponges. Mar Biotechnol
56. Zheng, Z., Zeng, W., Huang, Y., Yang, Z., Li, J., Cai, H. Su, W. (2000) Detection of antitumor and antimicrobial activities in marine organism associated actinomycetes isolated from the Taiwan Strait, China. FEMS Microbiol Lett 188, 87 91.