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All Journal HAYATI Journal of Biosciences PROSIDING SEMINAR NASIONAL JOURNAL OF COASTAL DEVELOPMENT ILMU KELAUTAN: Indonesian Journal of Marine Sciences BULETIN OSEANOGRAFI MARINA Saintek Perikanan : Indonesian Journal of Fisheries Science and Technology Jurnal Ilmu Lingkungan Journal of Marine Research Microbiology Indonesia Jurnal Matematika & Sains Indonesian Journal of Biotechnology Jurnal Kelautan Tropis Squalen Bulletin of Marine and Fisheries Postharvest and Biotechnology Marine Research in Indonesia Jurnal Segara ACROPORA: Jurnal Ilmu Kelautan dan Perikanan Papua Jurnal Perikanan
Agus Sabdono
Departemen Ilmu Kelautan, Fakultas Perikanan Dan Ilmu Kelautan, Universitas Diponegoro
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Earth & Planetary Sciences Education Environmental Science Immunology & microbiology Materials Science & Nanotechnology Mathematics Medicine & Pharmacology

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Journal : JOURNAL OF COASTAL DEVELOPMENT

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BACTERIAL SYMBIONTS OF REEF’S INVERTEBRATES: A MARINE NATURAL DRUG’S FACTORY Agus Sabdono
JOURNAL OF COASTAL DEVELOPMENT Vol 12, No 1 (2008): Volume 12, Number 1, Year 2008
Publisher : JOURNAL OF COASTAL DEVELOPMENT

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Abstract

Marine invertebrates that are mainly accumulating within coral reef ecosystems such as soft corals, sponges, tunicates, and bryozoans have long been recognized as the prolific sources of structurally unique and diverse natural products since they provide a large proportion of bioactive compounds with different biological activities.Unfortunately, the supply of these bioactive natural products is usually insufficient to meet the ultimate development of most marine natural products. The concentrations of many highly active compounds in reef’s invertebrates are often minute, accounting for less than 10-6% of the wet weight. This problem has been viewed as the most significant threat regarding the development of pharmaceutical from reef’s invertebrates. The secondary metabolites from bacterial symbionts, on the other hand,is a rapidly growing field, due to the suspicion that bioactive metabolites obtained from invertebrates may be produced by their bacterial symbionts. In particular, from sustainability point of view, isolating bioactive-producing bacteria is obviously offers a much better approach than cultivating and harvest invertebrates, which are in most cases extremely difficult.Bacteria isolated from living surfaces, in particular from reef’s invertebrates, are a promising source of natural products. It is expected that still quite a few parts of unexplored culturable bacterial symbionts exists in the reefs. Such information might be desirable, as these bacterial symbionts may serve beneficial purposes as the source of secondary metabolites including novel marine natural products. 
ANTIFOULING ACTIVITY OF BACTERIA ASSOCIATED WITH SOFT CORAL Sarcophyton sp. AGAINST MARINE BIOFILM-FORMING BACTERIA Agus Sabdono; Ocky Karna Radjasa
JOURNAL OF COASTAL DEVELOPMENT Vol 10, No 1 (2006): Volume 10, Number 1, Year 2006
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Abstract

Marine bacteria associated with soft coral Sarcophyton sp collected from vicinity of Peucang island, Ujung Kulon, West Java, were successfully screened for antifouling activity against marine biofilm-forming bacteria isolated from the surrounding colonies of Sarcophyton sp. Six bacterial isolates were found to inhibit the growth of at least one of 7 biofilm-forming isolates.  The most active strain USP3.37 was identified as Pelagiobacter variabilis by using 16S rDNA gene sequence analysis. Similarly, the active strains USP3.3, USP8.43, USP3.12, USP3.16 and USP8.6 were identified as Arthrobacter nicotianae,  Shewanella alga, Pseudomonas synxantha, Pseudomonas falgida, Pseudovibrio denitrificans and Bacillus aquamaris, respectively. USP3.37 strain was found to amplify gene fragments of non-ribosomal peptide synthetase (NRPS).  This raises the possibility the use of softcoral bacteria as the source of antibacterial compounds for controlling the antifouling in the sea. Therefore,  this bacterium would be better to select eco-friendly antifouling compounds than the other antibacterial activities.
ANTIBACTERIAL ACTIVITY OF A SECONDARY METABOLITE-PRODUCING CORAL BACTERIUM Pseudoalteromonas SPECIES ocky radjasa; Torben Marten; Thorsten Brinkoff; Hans-Peter Grossart; Agus Sabdono; Meinhard Simon
JOURNAL OF COASTAL DEVELOPMENT Vol 7, No 2 (2004): Volume 7, Number 2, Year 2004
Publisher : JOURNAL OF COASTAL DEVELOPMENT

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Abstract

A bacterium, collected at the surface of coral Acropora sp., TAB4.2 was successfully screened for secondary metabolites production based on PCR amplification of the non-ribosomal peptide synthetase gene. It was identified as closely related to Pseudoalteromonas luteoviolacea based on its 16S rDNA. TAB4.2 was found to inhibit the growth of all 5 coral-associated and all 5 pathogenic bacteria tested. To characterize the inhibiting metabolite, a 279 bp long DNA fragment was obtained and the deduced amino acid sequence showed conserved signature regions for peptide synthetases and revealed a high similarity to NosD (40 % identity), a multifunctional peptide synthetase from Nostoc sp. GSV224, and NdaB (44 % identity), a peptide synthetase module of Nodularia spumigena. �m es�`� ��� on their ecology. Due to this, water quality management in these ecosystems has become a necessity. Regular studies of the hydrological parameters are essential for this purpose, as they can assess the status of pollution and help in deciding the mitigation strategy.  Water quality of 26 km stretch of Thane creek, central-west coast of India was analyzed in 5 regions of the creek from May 1999 to April 2000. The study revealed spatial and temporal patterns. Heavy suspended solid load (avg. 5.736 gm/L), frequent hypoxia (DO<2.5 mg/L) coupled with excess nutrients like Phosphate-Phosphorus (avg. 0.26 mg/L) and Nitrate-Nitrogen (avg. 0.96 mg/L) were the main features of the creek. The Thane city region showed more deterioration of water quality compared to the other regions in the creek. In this region the suspended solid load showed an increase of 713.69% and dissolved oxygen decreased by 21.55% compared to the data of 1992-93. This can be attributed to the severe onslaught of activities in this region like solid waste dumping, construction of 3 new bridges, etc. since 1993, thereby affecting the flushing characteristic. Hence in order to protect and preserve such ecosystems, alterations to the environment should be meticulously planned.  
CADMIUM REMOVAL BY A BIOREDUCPIUN CORAL BACTERIUM Pseudoalteromonas sp. STRAIN CD15 ISOLATED FROM THE TISSUE OF CORAL Goniastrea aspera, JEPARA WATERS Agus Sabdono
JOURNAL OF COASTAL DEVELOPMENT Vol 13, No 2 (2010): Volume 13, number 2, Year 2010
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Abstract

Seventeen strains of bacterial symbionts which are resistant to heavy metals, were isolated from the tissue of coral Goniastrea aspera, from Awur Bay, Jepara Waters. Screening procedures involving solid and liquid synthetic media containing Cd2+, resulted in the selection of seven Cd resistant strains, which showed a quantitative removal of Cd2+  by range of 68-90% of the initial Cd2+  concentrations (5 ppm) tested. One of these strains, CD15, was selected further to examine its molecular and physiological characteristics. Based on 16S ribosomal DNA sequencing and microbial characterization, the CG15 isolate is closely related to Pseudoalteromonas sp. This is the first report on the natural Cd metal tolerance levels of coral bacteria    
ANTIBACTERIAL ACTIVITIES OF BACTERIAL SYMBIONTS OF SOFT CORAL Sinularia sp. AGAINST TUBERCULOSIS BACTERIA S. Sulistiyani; Sri Achadi Nugraheni; Ocky Karna Radjasa; Agus Sabdono; Miftahuddin Majid Khoeri
JOURNAL OF COASTAL DEVELOPMENT Vol 14, No 1 (2010): Volume 14, Number 1, Year 2010
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Abstract

Tuberculosis (TB) is caused by Mycobacterium tuberculosis. Although TB is a curable disease, it continues tobe one of the most important infectious causes of death worldwide. Indonesia ranks 3rd on the list of TB highburden countries in the world with 86,000 cases deaths and the Multi Drug Resistant Tuberculosis (MDR TB)estimated cases in Indonesia is 10,000. This research was aimed to isolate and characterize of soft coralSinularia sp.-associated bacteria having antibacterial activity against Tuberculosis bacteria. There were109 isolates collected from Sinularia sp. Two isolates from Sinularia sp.-associated bacteria, SC4TGZ3 andSC4TGZ4 were successfully screened for antibacterial against Tuberculosis bacteria. SC4TGZ3 was found toinhibit the growth of MDR TB strain HE, MDR TB strain SR and H37Rv. Whereas, SC4TGZ4 was found toinhibit the growth of MDR TB strain HE. Based on PCR amplification 16S rDNA softcoral bacateria wereidentified as follows: SC4TGZ3 was closely related to Pseudovibrio sp. and SC4TGZ4 was closely related toAlpha proteobacterium sp.
NATURAL BIODEGRADATION OF COPROSTANOL IN AN EXPERIMENTAL SYSTEM OF THREE ENVIRONMENTAL CONDITIONS OF JAKARTA WATERS, INDONESIA Tonny Bachtiar; Agus Sabdono
JOURNAL OF COASTAL DEVELOPMENT Vol 8, No 1 (2004): Volume 8, Number 1, Year 2004
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Abstract

Constraint of using bio-indicator (coliform bacteria) as an indicator of domestic (sewage) pollution in the environment with high environmental stress encourages the discovering of other alternate indicators. Coprostanol has been proposed as a chemical indicator of domestic waste pollution, but most research on were conducted in the temperate (high latitude) region. The persistence of coprostanol in tropical region, especially in Indonesia, is still very poor. It is very important to understand the persistence of coprostanol in the nature, as one of the requirements to propose coprostanol as an alternate indicator of domestic waste pollution. In order to better understand the natural biodegradation of coprostanol, experimental system on three environmental conditions (river, river mouth, and coastal waters) was conducted. In April 2004, samples of water and surface bottom sediments were collected from each environmental condition in duplicate. Before the samples were put into aerated and non-aerated aquaria, about 35-40 g of surface bottom sediments were taken to analyze the initial concentration (C0) of coprostanol. The sediments were subsequently sampled from each aquarium within a certain interval day to analyze the concentration of coprostanol (C10, C20, and C40). The results showed that aeration plays not an important role in natural biodegradation of coprostanol. In average, the highest rate of coprostanol biodegradation is 0.438 μg/g day-1 in non aerated coastal water environment, where as the lowest was found in the non aerated river mouth environment (0.021 μg/g day-1). Since coprostanol was degraded very slowly, and could be detected in the sediments of three environmental conditions, coprostanol has an excellent potency to be used as an alternate indicator of domestic wastes.
CHARACTERIZATION AND IDENTIFICATION OF STRAIN KM221, A NOVEL MCPA HERBICIDE-DEGRADING BACTERIUM ISOLATED FROM CORAL SURFACE, MENJANGAN KECIL ISLAND, KARIMUNJAWA Agus Sabdono; Ocky Karna Radjasa; Joedoro Soedarsono
JOURNAL OF COASTAL DEVELOPMENT Vol 6, No 3 (2003): Volume 6, Number 3, Year 2003
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Abstract

In this study, bacterial strain KM221 was isolated from coral   tissue in Menjangan Kecil Island, Karimunjawa, Indonesia. This strain is  facultative anaerobic  with MCPA (2-methyl-4-chlorophenoxy acetic acid) serving as the only known energy sources.  Microscopy  of isolate revealed that strain KM221 is gram-positive, catalase-positive,  rod, spore-forming bacterium, motile,  opaque, hair-like outgrowth and unpigmented colonies. The bacterium could not be identified on the basis of its carbon-source-utilization pattern, but a partial sequencing of the 16S rDNA analysis suggest that this strain is closely related to Bacillus iodinum.The ability to degrade MCPA herbicide was examined qualitatively in EMBA indicator medium.  This bacterium grew exponentially with MCPA as  the sole source of energy and carbon. The maximum growth rate (m max)  and the  saturated concentration on MCPA (Cs) were determined to be  0.8024 h-1 and  5.10 mg/l MCPA, respectively.
ANTIBACTERIAL ACTIVITY OF A PIGMENT PRODUCING-BACTERIUM ASSOCIATD WITH Halimeda sp. FROM ELAND-LOCKED MARINE LAKE KAKABAN, INDONESIA Ocky Karna Radjasa; Leenawaty Limantara; Agus Sabdono
JOURNAL OF COASTAL DEVELOPMENT Vol 12, No 2 (2009): Volume 12, Number 2, Year 2009
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Abstract

A pigment producing-bacterium associated with green alga Halimeda sp., was successfully isolated from a land-locked marine lake Kakaban, East Borneo, Indonesia and screened for an antibacterial activity against pathogenic Staphylococcus aureus. The bacterium was identified as Pseudoalteromonas piscicida based on its 16S rDNA and was found to produce xanthophyll pigments and to amplify gene fragments of Non-ribosomal peptide synthetase (NRPS).
ETHICAL PERSPECTIVES OF SUSTAINABLE USE OF REEF’S INVERTEBRATES AS A SOURCE OF MARINE NATURAL PRODUCTS S Sukarmi; Agus Sabdono
JOURNAL OF COASTAL DEVELOPMENT Vol 11, No 3 (2008): Volume 11, Number 1, Year 2008
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Abstract

Among marine animals, reef’s invertebrates are the most prolific producers of secondary metabolites and have become sources of great interest to natural product chemistry, since they provide a large proportion of bioactive compounds with different biological activities. Supply’s problem has hampered the investigation of secondary metabolites from marine invertebrates, and  many highly active compounds produced contribute to<10-6 % of the body-wet weight. Providing sufficient amounts of these biologically active substances, hence, may be a difficult task. In addition, it has often proven extremely difficult, and some cases impossible, to provide from invertebrates sufficient amounts of many of these substances due to limited amounts found in the producing organism, or to limited quantity of the organism itself, or to geographic, seasonal or sexual variations in the amounts and in the nature of produced secondary metabolites. There has an increasing concerns regarding the collecting reef’s organisms for the discovery and development of pharmaceuticals since it has been perceived variously as sustaining and threatening conservation. There is an urgent need to take into account the bioethical considerations in anticipating the potential consequences of these activities and proposing management options for sustainable use of reef’s invertebrates as the sources of bioactive compounds.
BIODEGRADATION OF CHLORPYRIFOS BY A MARINE BACTERIUM Bacillus firmus Strain BY6 ASSOCIATED WITH BRANCHING CORAL Acropora sp. Agus Sabdono
JOURNAL OF COASTAL DEVELOPMENT Vol 10, No 2 (2007): Volume 10, Number 2, Year 2007
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Abstract

A bacterium which utilizes chlorpyrifos as a sole source of carbon and energy was isolated from coral surface. The organism utilized chlorpyrifos up to 25 mg l-1. The lag phase and time for degradation, however, were severely prolonged at chlorpyrifos concentrations above 10 mg l-1 . The growth of kinetics of coral bacterium was studied in batch culture. Estimation of maximum growth rates (μmax), obtained from turbidity measurements, was 0.14 h-1 and half-saturation growth constant (Cs)   was 9.34 mg l-1 chlorpyrifos. This strain demonstrated greatest similarity to members of the order Bacillales and was closest to members of the Bacillus firmus group.
Co-Authors Agus Indarjo Agus Trianto Agus Trianto Agus Trianto Agus Triyanto Agustina Agustina Agustina Aiyen Tjoa Aldion Adin Nugroho Ali Djunaedi Ali Djunaedi Ali Ridlo Ambariyanto , Ambariyanto Ambariyanto Angelina Ferawaty Siregar Angelina Ferawaty Siregar Aninditia Sabdaningsih Azizi, Muhammad Faris B Tyas Susanti B. Tyas Susanti Bambang Yulianto Baskoro Rochaddi Bhaskoro Rochaddi Burhan Habibi Yunus Chrisna A Suryono Chrisna A Suryono Chrisna A Suryono Chrisna Adhi Suryono Chrisna Adhi Suryono Delianis Pringgenies Denny Nugroho Sugianto Desy Wulan Triningsih DIAH AYUNINGRUM Diah Ayuningrum, Diah Diah P Wijayanti Diah P Wijayanti Diah Permata Wijayanti Diah Permata Wijayanti Diah Permata Wijayanti Dio Dirgantara Duhita Sinidhikaraning Kencana Elena Zocchi Endang Sri Lestari Erwin Ivan Riyanto Erwin Ivan Riyanto Eunike Dorothea Hutapea Farrastasya Muflihul Azzami Fauziah Shahul Hamid Gina Saptiani Gina Saptiani Hadi Endrawati Haeruddin Haeruddin Hakim, Muhamad Fikri Hudi Nur Hans Arthur Philips HANS- PETER GROSSART Hans-Peter Grossart Herawati Sudoyo Herida, Azalia Puspa Hermin Pancasakti Kusumaningrum Heru Kurniawan Alamsyah Ibnu Pratikto Ida Ayu Putu Sri Widnyani Intan Budi Setiasih Irwani Irwani Irwani Irwani Irwani Irwani Irwanto, Eko Ita Widowati JOEDORO SOEDARSONO Johannes F Imhoff Jusup Suprijanto Jusup Suprijanto Jutta Wiese Larasati, Stefanie Jessica Henny Leenawaty Limantara Mada Triandala Sibero Mada Triandala Sibero Meinhard Simon Miftahuddin Majid Khoeri Misbakul Munir Muchlissin, Sakti Imam Muhamad Fikri Hudi Nur Hakim Muhamad Ziaul Faiz Muhammad Eka Darmawan Rafsanjani Muhammad Zainuri Nadya Cakasana Norma Afiati Norma Afiati Nur Taufiq Syamsudin Putra Jaya Taufiq Syamsudin Putra Jaya Ocky Karna Radjasa Ocky Karna Radjasa ocky radjasa Popi IL Ayer Prastyo Abi Widyananto Puspa Kapinangasih Putut Har Riyadi Raden Ario Rafsanjani, Muhammad Eka Darmawan Ragil Saptaningtyas Raja Aditya Sahala Siagian Ratna Diyah Palupi Retno Hartati Rignolda Djamaludin Rina Setyowati Sulistiyoningrum Rini Pramesti Rivan Novianto Madilana Romadhon Romadhon Rory Anthony Hutagalung Rosa Amalia Rudhi Pribadi Rudiger Stöhr S Sukarmi S. Sulistiyani Sakti Imam Muchlissin Sakti Imam Muchlissin Sakti Imam Muchlissin Setiasih, Intan Budi Setyani, Wilis Ari Sibero, Mada Triandala Slamet Budi Prayitno Sri Achadi Nugraheni Sri Lintang Artono Sri Redjeki Sri Redjeki Stalis Norma Ethica Stefanie Jessica Henny Larasati Subagiyo Subagiyo Subagiyo Subagiyo Subagyo Subagyo Sugiyanto Sugiyanto Sugiyanto Sugiyanto Sugiyanto Sunaryo Sunaryo Suzana Kristy Satriani Fofied Syauqina Nashihi Aufar Thorsten Brinkoff TONNY BACHTIAR Tonny Bachtiar Tony Bachtiar Tony Bachtiar Torben Marten TORBEN MARTENS Tri Yuni Atmojo Tri Yuni Atmojo Ulfah Amalia Wahyuningsih, Candra Widy Febriansyah Wilis Ari Setyani Yeni Sulistiyani Yesaya Putra Pamungkas