Isolation and diversity of natural product biosynthetic genes of cultivable bacteria associated with marine sponge mycale sp. from the coast of Fujian, China

Canadian Journal of Microbiology

Volumn 60, Issue 4, 2014, Pages 217-225

  Su, Pei ^a   Wang, De Xiang ^a   Ding, Shao Xiong ^a   Zhao, Jing ^a  

^a XIAMEN UNIVERSITY   (China)

Author keywords

Antibacterial activity; Cultivable bacteria; Mycale sp.; Phylogeny; PKS KS and (or) NRPS A gene

Indexed keywords

AMINO ACID; ANTIMICROBIAL ACTIVITY; BACTERIUM; COAST; GENETIC DIFFERENTIATION; HOMOLOGY; PEPTIDE; PHYLOGENY; RNA; SPONGE;

CHINA; FUJIAN;

ACTINOBACTERIA; ALPHAPROTEOBACTERIA; AMINO ACID SEQUENCE; ANIMALS; ANTI-BACTERIAL AGENTS; BACTERIA; BACTEROIDETES; BASE SEQUENCE; CHINA; GAMMAPROTEOBACTERIA; GENETIC VARIATION; GRAM-POSITIVE BACTERIA; MOLECULAR SEQUENCE DATA; PEPTIDE SYNTHASES; PHYLOGENY; POLYKETIDE SYNTHASES; PORIFERA; SEAWATER;

EID: 84897566057     PISSN: 00084166     EISSN: 14803275     Source Type: Journal    
DOI: 10.1139/cjm-2013-0785     Document Type: Article

References (55)

1. Abdelmohsen, U.R., Pimentel-Elardo, S.M., Hanora, A., Radwan, M., Abou-El-Ela, S.H., Ahmed, S., and Hentschel, U. 2010. Isolation, phylogenetic analysis and anti-infective activity screening of marine sponge-associated actinomycetes. Mar. Drugs, 8(3): 399-412. doi:10.3390/md8030399.
2. Anderson, S.A., Northcote, P.T., and Page, M.J. 2010. Spatial and temporal variability of the bacterial community in different chemotypes of the New Zealand marine sponge Mycale hentscheli. FEMS Microbiol. Ecol. 72(3): 328-342. doi:10.1111/j.1574-6941.2010.00869.x.
3. Belarbi El, H., Gómez, A.C., Chisti, Y., Camacho, F.G., and Grima, E.M. 2003. Producing drugs from marine sponges. Biotechnol. Adv. 21(7): 585-598. doi:10.1016/S0734-9750(03)00100-9.
4. Bull, A.T., and Stach, J.E. 2007. Marine Actinobacteria: new opportunities for natural product search and discovery. Trends Microbiol. 15(11): 491-499. doi: 10.1016/j.tim.2007.10.004.
5. 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(10): 2259-2261. doi:10.1099/ijs.0.64915-0.
6. Egan, S., Thomas, T., and Kjelleberg, S. 2008. Unlocking the diversity and biotechnological potential of marine surface associated microbial communities. Curr. Opin. Microbiol. 11(3): 219-225. doi:10.1016/j.mib.2008.04.001.
7. El Sayed, K.A., Kelly, M., Kara, U.A.K., Ang, K.K.H., Katsuyama, I., Dunbar, D.C., et al. 2001. New manzamine alkaloids with potent activity against infectious diseases. J. Am. Chem. Soc. 123(9): 1804-1808. doi:10.1021/ja002073o.
8. Farent, C.M., and Zazopoulos, E. 2005. Improving drug discovery from microorganisms. In Natural products: drug discovery and therapeutic medicine. Edited by L. Zhang and A.L. Demain. Humana Press Inc. pp. 95-106. doi:10. 1007/978-1-59259-976-9_5.
9. Faury, N., Saulnier, D., Thompson, F.L., Gay, M., Swings, J., and Le Roux, F. 2004. Vibrio crassostreae sp. nov., isolated from the haemolymph of oysters (Crassostreagigas). Int. J. Syst. Evol. Microbiol. 54(6): 2137-2140. doi:10.1099/ijs. 0.63232-0.
10. Fu, W., Sun, L., Zhang, X., and Zhang, W. 2006. Potential of the marine sponge Hymeniacidon perleve as a bioremediator of pathogenic bacteria in integrated aquaculture ecosystems. Biotechnol. Bioeng. 93(6): 1112-1122. doi:10.1002/bit. 20823.
11. Fusetani, N., and Matsunaga, S. 1993. Bioactive sponge peptides. Chem. Rev. 93(5): 1793-1806. doi:10.1021/cr00021a007.
12. Gao, Z., Li, B., Zheng, C., and Wang, G. 2008. Molecular detection of fungal communities in the Hawaiian marine sponges Suberites zeteki and Mycale armata. Appl. Environ. Microbiol. 74(19): 6091-6101. doi:10.1128/AEM.01315-08.
13. Haldar, S., Chatterjee, S., and Sugimoto, N. 2011. Identification of Vibrio campbellii isolated from diseased farm-shrimps from south India and establishment of its pathogenic potential in an Artemia model. Microbiology, 157(1): 179-188. doi:10.1099/mic.0.041475-0.
14. Hamdache, A., Azarken, R., Lamarti, A., Aleu, J., and Collado, I.G. 2013. Comparative genome analysis of Bacillus spp. and its relationship with bioactive nonribosomal peptide production. Phytochem. Rev. 112(4): 685-716. doi:10. 1007/s11101-013-9278-4.
15. Hentschel, U., Usher, K.M., and Taylor, M.W. 2006. Marine sponges as microbial fermenters. FEMS Microb. Ecol. 55(2): 167-177. doi:10.1111/j.1574-6941.2005. 00046.x.
16. Hildebrand, M., Waggoner, L.E., Lim, G.E., Sharp, K.H., Ridley, C.P., and Haygood, M.G. 2004. Approaches to identify, clone, and express symbiont bioactive metabolite genes. Nat. Prod. Rep. 21(1): 122-142. doi:10.1039/b302336m.
17. Hood, K.A., West, L.M., Northcote, P.T., Berridge, M.V., and Miller, J.H. 2001. Induction of apoptosis by the marine sponge (Mycale) metabolites, mycalamideA and pateamine. Apoptosis, 6(3): 207-219. doi:10.1023/A:1011340827558.
18. Jiang, S., Sun, W., Chen, M., Dai, S., Zhang, L., Liu, Y., et al. 2007. Diversity of culturable actinobacteria isolated from marine Haliclona sp. Antonie Van Leeuwenhoek, 92(4): 405-416. doi:10.1007/s10482-007-9169-z.
19. Kennedy, J., Baker, P., Piper, C., Cotter, P.D., Walsh, M., Mooij, M.J., et al. 2009. Isolation and analysis of bacteria with antimicrobial activities from the marine sponge Haliclona simulans collected from Irish waters. Mar. Biotechnol. 11(3): 384-396. doi:10.1007/s10126-008-9154-1.
20. Khan, S.T., Takagi, M., and Shin-ya, K. 2010. Diversity, salt requirement, and antibiotic production of Actinobacteria isolated from marine sponges. Actinomycetologica, 24(1): 18-23. doi:10.3209/saj.SAJ240101.
21. Khan, S.T., Komaki, H., Motohashi, K., Kozone, L., Mukai, A., Takagi, M., and Shin-ya, K. 2011. Streptomyces associated with a marine sponge Haliclona sp.; biosynthetic genes for secondary metabolites and products. Environ. Microbiol. 13(2): 391-403. doi:10.1111/j.1462-2920.2010.02337.x.
22. Kim, C.T., Kim, B.S., Kim, M.J., Park, B.H., Kwon, S., Maeng, H.Y., et al. 2012. Draft genome sequencing of Bacillus sp. strain M2-6, isolated from the roots of Korean ginseng, Panax ginseng C.A. Meyer, after high-hydrostatic-pressure processing. J. Bacteriol. 194(24): 7003-7004. doi:10.1128/JB.01939-12.
23. Kim, T.K., Hewavitharana, A.K., Shaw, P.N., and Fuerst, J.A. 2006. Discovery of a new source of rifamycin antibiotics in marine sponge actinobacteria by phylogenetic prediction. Appl. Environ. Microbiol. 72(3): 2118-2125. doi:10.1128/AEM.72.3.2118-2125.2006.
24. Kimura, M., Wakimoto, T., Egami, Y., Tan, K.C., Ise, Y., and Abe, I. 2012. Calyxamides A and B, cytotoxic cyclic peptides from the marine sponge Discodermia calyx. J. Nat. Prod. 75(2): 290-294. doi:10.1021/np2009187.
25. Lam, K.S. 2006. Discovery of novel metabolites from marine actinomycetes. Curr. Opin. Microbiol. 9(3): 245-251. doi:10.1016/j.mib.2006.03.004.
26. Lane, D.J. 1991. 16S/23S rRNA sequencing. In Nucleic acid techniques in bacterial systematics. Edited by E. Stackebrandt and M. Goodfellow. Wiley, Chichester, UK. pp. 115-175.
27. Lee, Y.K., Lee, J.H., and Lee, H.K. 2001. Microbial symbiosis in marine sponges. J. Microbiol. 39(4): 254-264.
28. Lee, O.O., Lau, S.C.K., and Qian, P. 2006. Consistent bacterial community structure associated with the surface of the sponge Mycale adhaerens Bowerbank. Microb. Ecol. 52(4): 693-707. doi:10.1007/s00248-006-9077-1.
29. Li, Z.Y., He, L.M., Wu, J., and Jiang, Q. 2006. Bacterial community diversity associated with four marine sponges from the South China Sea based on 16S rDNA-DGGE fingerprinting. J. Exp. Mar. Biol. Ecol. 329(1): 75-85. doi:10. 1016/j.jembe.2005.08.014.
30. Mincer, T.J., Jensen, P.R., Kauffman, C.A., and Fenical, W. 2002. Widespread and persistent populations of a major new marine actinomycete taxon in ocean sediments. Appl. Environ. Microbiol. 68(10): 5005-5011. doi:10.1128/AEM.68. 10.5005-5011.2002.
31. Moffitt, M.C., and Neilan, B.A. 2003. Evolutionary affiliations within the superfamily of ketosynthases reflect complex pathway associations. J. Mol. Evol. 56(4): 446-457. doi:10.1007/s00239-002-2415-0.
32. Mohamed, N.M., Enticknap, J.J., Lohr, J.E., Mclntosh, S.M., and Hill, R.T. 2008. Changes in bacterial communities of the marine sponge Mycale laxissima on transfer into aquaculture. Appl. Environ. Microbiol. 74(4): 1209-1222. doi:10. 1128/AEM.02047-07.
33. Montalvo, N.F., Mohamed, N.M., Enticknap, J.J., and Hill, R.T. 2005. Novel Actinobacteria from marine sponges. Antonie Van Leeuwenhoek, 87(1): 29-36. doi:10.1007/s10482-004-6536-x.
34. Neilan, B.A., Dittmann, E., Rouhiainen, L., Bass, R.A., Schaub, V., Sivonen, K., and Börner, T. 1999. Nonribosomal peptide synthesis and toxigenicity of cyanobacteria. J. Bacteriol. 181(13): 4089-4097.
35. Perry, N.B., Blunt, J.W., and Munro, M.H.G. 1988. Mycalamide A, an antiviral compound from a New Zealand sponge of the genus Mycale. J. Am. Chem. Soc. 110(14): 4850-4851. doi:10.1021/ja00222a067.
36. Phelan, R.W., O'Halloran, J.A., Kennedy, J., Morrissey, J.P., Dobson, A.D.W., O'Gara, F., and Barbosa, T.M. 2012. Diversity and bioactive potential of endospore-forming bacteria cultured from the marine sponge Haliclona simulans. J. Appl. Microbiol. 112(1): 65-78. doi:10.1111/j.1365-2672.2011.05173.x.
37. Piel, J. 2006. Bacterial symbionts: prospects for the sustainable production of invertebrate-derived pharmaceuticals. Curr. Med. Chem. 13(1): 39-50. doi:10. 2174/092986706775197944.
38. Pimentel-Elardo, S.M., Grozdanov, L., Proksch, S., and Hentschel, U. 2012. Diversity of nonribosomal peptide synthetase genes in the microbial metagenomes of marine sponges. Mar. Drugs, 10(6): 1192-1202. doi:10.3390/md10061192.
39. Piñeiro-Vidal, M., Carballas, C.G., Gómez-Barreiro, O., Riaza, A., and Santos, Y. 2008. Tenacibaculum soleae sp. nov., isolated from diseased sole (Solea senegalensis Kaup). Int. J. Syst. Evol. Microbiol. 58(4): 881-885. doi:10.1099/ijs. 0.65539-0.
40. Radwan, M., Hanora, A., and Zan, J. 2010. Bacterial community analyses of two Red Sea sponges. Mar. Biotechnol. 12(3): 350-360. doi:10.1007/s10126-009-9239-5.
41. Schlaberg, R., Huard, R.C., and Della-Latta, P. 2008. Nocardia cyriacigeorgica, an emerging pathogen in the United States. J. Clin. Microbiol. 46(1): 265-273. doi:10.1128/JCM.00937-07.
42. Schmidt, E.W., Obraztsova, A.Y., Davidson, S.K., Faulkner, D.J., and Haygood, M.G. 2000. Identification of the antifungal peptide-containing symbiont of the marine sponge Theonella swinhoei as a novel δ-proteobacterium, "Candidatus Entotheonella palauensis". Mar. Biol. 136(6): 969-977. doi: 10.1007/s002270000273.
43. Shirling, E.B., and Gottlieb, D. 1966. Methods for characterization of Streptomyces species. Int. J. Syst. Bacteriol. 16: 313-340. doi:10.1099/00207713-16-3-313.
44. Siegl, A., and Hentschel, U. 2010. PKS and NRPS gene clusters from microbial symbiont cells of marine sponges by whole genome amplification. Environ. Microbiol. Rep. 2(4): 507-513. doi:10.1111/j.1758-2229.2009.00057.x.
45. Singh, A.J., Xu, C.X., Xu, X., West, L.M., Wilmes, A., Chan, A., et al. 2010. Peloruside B, a potent antitumor macrolide from the New Zealand marine sponge Mycale hentscheli: Isolation, structure, total synthesis, and bioactivity. J. Org. Chem. 75(1): 2-10. doi:10.1021/jo9021265.
46. Taylor, M.W., Radax, R., Steger, D., and Wagner, M. 2007. Sponge associated microorganisms: evolution, ecology and biotechnological potential. Microbiol. Mol. Biol. Rev. 71(2): 295-347. doi:10.1128/MMBR.00040-06.
47. Thomas, T.R.A., Kavlekar, D.P., and LokaBharathi, P.A. 2010. Marine drugs from sponge-microbe association - a review. Mar. Drugs, 8(4): 1417-1468. doi:10. 3390/md8041417.
48. Thoms, C., Horn, M., Wagner, M., Hentschel, U., and Proksch, P. 2003. Monitoring microbial diversity and natural product profiles of the sponge Aplysina cavernicola following transplantation. Mar. Biol. 142(4): 685-692. doi:10.1007/ s00227-002-1000-9.
49. Vicente, J., Stewart, A., Song, B., Hill, R.T., and Wright, J.L. 2013. Biodiversity of actinomycetes associated with Caribbean sponges and their potential for natural product discovery. Mar. Biotechnol. 15(4): 413-424. doi:10.1007/s10126-013-9493-4.
50. Wang, G., Yoon, S.H., and Lefait, E. 2009. Microbial communities associated with the invasive Hawaiian sponge Mycale armata. ISME J. 3(3): 374-377. doi:10.1038/ ismej.2008.107.
51. Webster, N.S., and Hill, R.T. 2001. The culturable microbial community of the Great Barrier Reef sponge Rhopaloeides odorabile is dominated by an α-Proteobacterium. Mar. Biol. 138(4): 843-851. doi:10.1007/s002270000503.
52. Webster, N.S., and Taylor, M.W. 2012. Marine sponges and their microbial symbionts: love and other relationships. Environ. Microbiol. 14(2): 335-346. doi: 10.1111/j.1462-2920.2011.02460.x.
53. Webster, N.S., Wilson, K.J., Blackall, L.L., and Hill, R.T. 2001. Phylogenetic diversity of bacteria associated with the marine sponge Rhopaloeides odorabile. Appl. Environ. Microbiol. 67(1): 434-444. doi:10.1128/AEM.67.1.434-444.2001.
54. Webster, N.S., Taylor, M.W., Behnam, F., Lücker, S., Rattei, T., Whalan, S., et al. 2010. Deep sequencing reveals exceptional diversity and modes of transmission for bacterial sponge symbionts. Environ. Microbiol. 12(8): 2070-2082. doi:10.1111/j.1462-2920.2009.02065.x.
55. Zhang, W., Li, Z.Y., Miao, X.L., and Zhang, F. 2009. The screening of antimicrobial bacteria with diverse novel nonribosomal peptide synthetase (NRPS) genes from South China Sea sponges. Mar. Biotechnol. 11(3): 346-355. doi:10.1007/ s10126-008-9148-z.