Diversity of Culturable Actinomycetes from Deepsea Floor of Makassar Strait, Indonesia

Ariani Hatmanti, Puspita Lisdiyanti, Jaka Widada, Subagus Wahyuono

Abstract


With regard to collaboration research called Widya Nusantara Exploration (EWIN) in May-June 2013 and November 2014, a study on isolation of actinomycetes from sediments of Makassar Strait have been conducted. Actinomycetes is one of microbe which has an excellent track record in producing antimikrob and other active substances. But due to terrestrial actinomycetes has been widely explored, then recently researchers began focusing on wide variety of extreme environments, such as marine environment, to screening aktinomisetes in producing new secondary metabolites. A total of 36 strains of actinomycetes were isolated from 10 samples obtained from deepsea floor in Makassar Strait, Indonesia, Direct Dillution Method were best used to isolate the actinomycetes compare to Sodium Dodecyl Sulfida – Yeast Extract Method (SDS-YE Method) and Rehidration Centrifugation Method (RC Method). NBRC-802 media and Actinomycetes Isolation Agar(AIA)(Himedia)media were used as the isolation media. All the isolates were identified by morphological characteristic and by analysis of 16S rRNA gene sequence. Actinomycetes isolated from deepsea floor of Makassar Strait have been dominated by Micromonospora (58%), Verrucosispora (14%)Streptomyces (8%) and Luteipulveratus (5%), however genus Nocardiopsis, Micrococcus, Gordonia, Kytococcus, and Arthrobacter were not dominant (3%). Station 25 in 1.547 m depth was the most abundant of actinomycetes, 18 strains and dominated by the genus Micromonospora which is isolated using Direct Dillution Method and both NBRC 802 or AIA media.

10.14203/oldi.2018.v3i2.205


Keywords


actinomycetes, deepsea, marine sediment, Makassar Strait

References


Altschul SF, W Gish, W Miller, EW Myers & DJ Lipman. 1990. Basic local allignment search tool. Journal of Molecular Biology, 215(3): 403-410.

Berdy J. 2005. Bioactive microbial metabolites. J. Antibiot, 58:1-26.

Bister B, D Bischoff, M Ströbele, J Riedlinger, A Reicke, F Wolter, AT

Bull, H Zahner, HP Fiedler & RD Süssmuth. 2004. Abyssomicin C—A Polycyclic Antibiotic from a Marine Verrucosispora Strain as an Inhibitor of the p‐Aminobenzoic Acid/Tetrahydrofolate Biosynthesis Pathway. Angew Chem. Int Ed., 43(19): 2574-2576.

Bredholdt H, OA Galatenko, K Engelhardt, E Fjærvik, LP Terekhova & SB Zotchev. 2007. Rare actinomycete bacteria from the shallow water sediments of the Trondheim fjord, Norway: isolation, diversity and biological activity. Environmental microbiology, 9(11): 2756-2764.

Bull AT, JEM Stach, AC Ward & M Goodfellow. 2005. Marine actinobacteria: perspectives, challenges, future directions. Antonie Van Leeuwenhoek, 87: 65-79.

Cragg GM, DGI Kingston & DJ Newman. 2011. Development and Future Trend in Anticancer Natural Product Drug Discovery. In Cragg GM, DGI Kingston, & DJ Newman (Eds). Anticancer Agents from Natural Products. Taylor & Francis Group, LLC, Boca Rotan, US p 699 – 728.

Felsenstein J. 1985. Confident limits on phylogenies : an approach using the bootstrap. Evolution, 39 : 783-791.

Fenical W, D Baden, M Burg, CV De Goyet, JD Grimes, M Katz, NH Marcus, S Pomponi, P Rhines, P Tester & J Vena. 1999. Marine derived pharmaceuticals and related bioactive compounds. From monsoons to microbes: understanding the ocean’s role in human health, 71-86.

Fiedler HP, C Bruntner, AT Bull, AC Ward, M Goodfellow, O Potterat, C Puder & G Mihm. 2005. Marine actinomycetes as a source of novel secondary metabolites. Antonie Van Leeuwenhoek, 87: 37-42.

Fiedler HP, C Bruntner, J Riedlinger, AT Bull, G Knutsen, M Goodfellow, A Jones, L Maldonado, W Pathom-Aree, W Beil & K Schneider. 2008. Proximicin A, B and C, novel aminofuran antibiotic and anticancer compounds isolated from marine strains of the actinomycete Verrucosispora. The Journal of Antibiotics, 61(3): 158.

Gartner, A., W Jutta & F. I. Johannes. 2016. Diversity of Micromonospora strains from the deep Mediterranean Sea and their potential to produce bioactive compounds. AIMS Microbiology 2(2):.205-221.

Goodfellow M & JA Haynes. 1984. Actinomycetes in marine sediments. In L. Ortiz-ortiz, L.F. Bojalil & V. Yakoleff (eds) Biological, biochemical, and biomedical aspects of actinomycetes. Academic Press, Inc., New York, N.Y. p. 453-472.

Haefner B. 2003. Drug from deep : marine natural products as drug candidates. Drug Discovery Today, 9: 536-544.

Hamada M, C Shibata, T Tamura & K Suzuki. 2013. Zhihengliuella flava sp. nov., an actinobacterium isolated from sea sediment, and emended description of the genus Zhihengliuella. International Journal of Systematic and Evolutionary Microbiology, 63: 4760-4764.

Hamada M, C Sibata, A Nurkanto, S Ratnakomala, P Lisdiyanti, T Tamura & K Suzuki. 2015a. Tropicihabitans flavus gen. nov., sp. nov., a new member of the family Cellulomonadaceae. Antonie van Leeuwenhoek, 107: 1299-1306.

Hamada M, C Sibata, A Nurkanto, S Ratnakomala, P Lisdiyanti, T Tamura & K Suzuki. 2015b. Serinibacter tropicus sp. nov., an actinobacterium isolated from the rhizosphere of a mangrove, and emended description of the genus Serinibacter. International Journal of Systematic and Evolutionary Microbiology, 65: 1151-1154.

Hayakawa M & H Nonomura. 1989. A new method for the intensive isolation of actinomycetes from soil. Actinomycetologica, 3(2): 95-104.

Hayakawa M, T Sadakata, T Kajiura & H Nonomura. 1991. New methods for the highly selective isolation of Micromonospora and Microbispora from soil. Journal of Fermentation and Bioengineering, 72(5): 320-326.

Hayakawa M, T Takeuchi & T Yamazaki. 1996. Combined use of trimethoprim with nalidixic acid for the selective isolation and enumeration of actinomycetes from soil. Actinomycetologica, 10(2): 80-90.

Hayakawa M, M Otoguro, T Takeuchi, T Yamazaki & Y Iimura. 2000. Application of a method incorporating differential centrifugation for selective isolation of motile actinomycetes in soil and plant litter. Antonie van Leeuwenhoek, 78(2): 171-185.

Helmke E & H Weyland. 1984. Rhodococcus marinonascens sp. nov., an actinomycete from the sea. International Journal of Systematics of Bacteriology, 34: 127-138.

Huang P, F Xie, B Ren, Q Wang, J Wang, Q Wang, WM Abdel-Mageed, M Liu, J Han, A Oyeleye & J Shen. 2016. Anti-MRSA and anti-TB metabolites from marine-derived Verrucosispora sp. MS100047. Applied Microbiology and Biotechnology, 100(17): 7437-7447.

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

Jensen PR, TJ Mincer, PG Williams & W Fenical. 2005. Marine actinomycete diversity and natural product discovery. Antonie Van Leeuwenhoek, 87: 43-48.

Kimura M. 1980. A simple method for estimating evolutionary rates of base subtitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16: 111-120.

Kittiwongwattana C, D Thanaboripat, C Laosinwattana, P Koohakan, N Parinthawong & C Thawai. 2015. Micromonospora oryzae sp. nov., isolated from roots of upland rice. International Journal of Systematic and Evolutionary Microbiology, 65: 3818-3823.

Kumar S, K Tamura & M Nei. 2004. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform., 5:150–163.

Kuncharoen N, P Pittayakhajonwut & S Tanasupawat. Micromonospora globbae sp. nov., an endophytic actinomycete isolated from roots of Globba winitii C. H. Wright. International Journal of Systematic and Evolutionary Microbiology, 68(4) : 1–5. DOI 10.1099/ijsem.0.002625.

Kyeremeh, K, KS Acquah, M Camas, J Tabudravu, W Houssen, H Deng & M Jaspars. 2014. Butrepyrazinone, a New Pyrazinone with an Unusual Methylation Pattern from a Ghanaian Verrucosispora sp. K51G. Mar. Drugs, 12(10): 5197-5208.

Lam KS. 2006. Discovery of novel metabolites from marine actinomycetes. Current Opinion of Microbiology, 9: 245-251.

Lisdiyanti P, M Otoguro, S Ratnakomala, Y Lestari, RD Hastuti, E Triana, K Ando & Y Widyastuti . 2010. Actinokineospora baliensis sp. nov., Actinokineospora cibodasensis sp. nov. and Actinokineospora cianjurensis sp. nov., isolated from soil and plant litter. International Journal of Systematic and Evolutionary Microbiology, 60(10): 2331-2335.

Lisdiyanti P, T Tamura, S Ratnakomala, R Ridwan, G Kartina, Y Lestari, K Ando & Y Widyastuti. 2012. Diversity of actinomycetes from soil samples collected from Lombok island, Indonesia. Annales Bogorienses, 16(1): 35-40.

Luo Y, J Xiao, Y Wang, J Xu, S Xie & J Xu. 2011. Streptomyces indicus sp. nov., an actinomycete isolated from deep-sea sediment. International Journal of Systematic and Evolutionary Microbiology, 61(11): 2712-2716.

Manivasagan P, V Jayachandran, S Kannan & K See-Kwon. 2013. Marine actinobacterial metabolites: Current status and Future perspective. Microbiological Research, 168: 311–332.

Mann J. 2001. Natural products as immunosuppressive agents. Natural product reports, 18(4), 417-430.

Nybakken, J. W. 1988. Biologi Laut: Suatu Pendekatan Ekologis. PT. Gramedia, Jakarta. 580 pp.

Oldfield C, NT Wood, SC Gilbert, FD Murray & FR Faure. 1998. Desulphurisation of benzothiophene and dibenzothiophene by actinomycete organisms belonging to the genus Rhodococcus, and related taxa. Antonie Van Leeuwenhoek, 74: 119-132.

Orskov J. 1923. Investigations into the Morphology of the Ray Fungi. Copenhagen: Levin and Munksgaard. 174 pp.

Pan HQ, SY Zhang, N Wang, ZI Li, HM Hua, JC Hu & SJ Wang. 2013. New spirotetronate antibiotics Iobophorins H and I from a South China sea derived Streptomyces sp. 12A35. Mar. Drugs, 11:3891-3901. doi : 10.3390/md11103891.

Pan HQ, SY Yu, CF Song, N Wang, HM Hua, JC Hu & SJ Wang. 2015. Identification and characterization of the antifungal substances of a novel Streptomyces cavourensis NA4. J. Ind. Microbiol. Biotechnol., 25:353-357. doi : 10.4014/jmb.1407.07025.

Pathom-Aree W, JEM Stach, AC Ward, K Horikoshi, AT Bull & M Goodfellow. 2006. Diversity of actinomycetes isolated from Challenger Deep sediment (10.898 m) from Mariana Trench. Extremophiles, 10: 181-189.

Peczynska-Czoch W & M Mordarski. 1988. Actinomycete enzymes. In M Goodfellow, ST Williams, M Mordarski (Eds). Actinomycetes in Biotechnology. London: Academic Press p. 219-283.

Phongsopitanun W, T Kudo, M Mori, K Shiomi, P Pittayakhajonwut, K Suwanborirux & S Tanasupawat. 2015. Micromonospora fluostatini sp. nov., isolated from marine sediment. International Journal of Systematic and Evolutionary Microbiology, 65(12), 4417-4423.

Ramesh, S., M Rajesh & N Mathivanan. 2009. Characterization of a thermostable alkaline protease produce by marine Streptomyces fungicidicus MML 1614. Bioprocess Biosyst Eng, 32: 791-800.

Ratnakomala S, P Apriliana, F Fahrurrozi, P Lisdiyanti & W Kusharyoto, 2016. Aktivitas Antibakteri Aktinomisetes Laut Dari Pulau Enggano [Antibacterial Activity of Marine Actinomycetes From Enggano Island]. Berita Biologi, 15(3): 275-283.

Ratnakomala S, P Lisdiyanti & Y Widyastuti. 2016. Collection of Indonesian Actinomycetes and Its Prospect Uses. In E Sukara & P Lisdiyanti (Eds). Exploring Indonesian Microbial Genetic Resources for Industrial Application. LIPI Press, Jakarta. p. 31-54.

Rheims H, P Schumann, M Rohde & E Stackebrandt. 1998. Verrucosispora gifhornensis gen. nov., sp. nov., a new member of the actinobacterial family Micromonosporaceae. Int. J. Syst. Bacteriol., 48: 1119–1127.

Saitou, H & M. Nei. 1987. The neighbour-joining method : a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4 : 406-425.

Schneider K, S Keller, FE Wolter, L Ro¨glin, W Beil, O Seitz, G Nicholson, C Bruntner, J Riedlinger, HP Fiedler & RD Su¨ssmuth. 2008. Proximicins A, B, and C-antitumor furan analogues of netropsin from the marine actinomycetes Verrucosispora induce upregulation of p53 and the cyclin kinase inhibitor p21. Angew. Chem. Int. Ed. Engl., 47(17): 3258–3261.

Shirai M, M Okuda, K Motohashi, M Imoto, K Furihata, Y Matsuo, A Katsuta, Y Shizuri & H Seto. 2010. Terpenoids produced by actinomycetes: isolation, structural elucidation and biosynthesis of new diterpenes, gifhornenolones A and B from Verrucosispora gifhornensis YM28-088. J. Antibiot., 63(5): 245–250.

Song Y, Q Li,X Liu, Y Chen, Y Zhang, A Sun, W Zhang, J Zhang, & J Ju. 2014. Cyclic hexapeptides from the deep South China Sea derived Streptomyces scopuliridis SCSIO ZJ46 active against pathogenic gram positive bacteria. J. Nat. Prod., 77: 1937-1941. doi: 10.1021/np500399v.

Song Y, G Liu, J Li, H Huang, X Zhang, H Zhang & J Ju. 2015. Cytotoxic and antibacterial Angucycline- and Prodigiosin- analogues from the deep sea derived Streptomyces sp. SCSIO 11594. Mar. Drugs, 13: 1304-1316. doi: 10.3390/md13031304.

Stach JE, LA Maldonado, DG Masson, AC Ward, M Goodfellow and AT Bull. 2003a. Statistical approaches to estimating bacterial diversity in marine sediments. Appl. Env. Microbiol., 69: 6189-6200.

Strohl WR. 2004. Antimicrobials. In Bull AT.(Ed) Microbial Diversity and Bioprospecting. ASM Press, Washington DC. p. 336-355.

Supong K, C Suriyachadkun, P Pittayakhajonwut, K Suwanborirux & C Thawai. 2013. Micromonospora spongicola sp. nov., an actinomycete isolated from a marine sponge in the Gulf of Thailand. J.Antibiot , 66: 505–509.

Tanasupawat S, S Jongrungruangchok & T Kudo. 2010. Micromonospora marina sp. nov., isolated from sea sand. Int. J. Syst. Evo.l Microbiol., 60: 648–652.

Thawai C. 2015. Micromonospora costi sp. nov., isolated from a leaf of Costus speciosus. Int J Syst. Evol. Microbiol., 65: 1456–1461.

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

Trujillo ME, RM Kroppenstedt, P Schumann, L Carro & E Martínez Molina. 2006. Micromonospora coriariae sp. nov., isolated from root nodules of Coriaria myrtifolia. Int J Syst. Evol. Microbiol., 56: 2381–2385.

Valli S, SS Suvathi, OS Aysha, P Nirmala, KP Vinoth & A Reena. 2012. Antimicrobial potential of Actinomycetes species isolated from marine environment. Asian Pac. J. Trop. Biomed., 2(6): 469-473.

Weyland H. 1981. Distribution of actinomycetes on the sea floor. Zentalbl Bacteriol. Supplement, 11: 185-193.

Widawati S, S Suliasih, H Latupapua & A Sugiharto. 2005. Biodiversity of Soil Microbes from Rhizosphere at Wamena Biological Garden (WBiG), Jayawijaya, Papua. Biodiversitas Journal of Biological Diversity, 6(1): 6-11.

Wyche TP, Y Hou, D Braun, HC Cohen, MP Xiong & TS Bugni. 2011. First natural analogs of the cytotoxic thiodepsipeptide thiocoraline A from a marine Verrucosispora sp. J. Org. Chem., 76(16): 6542–6547.

Zhao J, L Guo, C Liu, Y Zhang, X Guan, J Li, S Xu, W Xiang & X Wang. 2016. Micromonospora lycii sp. nov., a novel endophytic actinomycete isolated from wolfberry root (Lycium chinense Mill). J.

Antibiot., 69: 153–158.


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