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All Journal ILMU KELAUTAN: Indonesian Journal of Marine Sciences BULETIN OSEANOGRAFI MARINA Bioma : Berkala Ilmiah Biologi SAINS DAN MATEMATIKA Jurnal Akademika Biologi Jurnal Kesehatan Masyarakat Current Biochemistry Journal of Tropical Biodiversity and Biotechnology Biosaintifika: Journal of Biology & Biology Education Berkala Bioteknologi Jurnal Biologi Tropika Jurnal Pascapanen dan Bioteknologi Kelautan dan Perikanan Greensphere: Journal of Environmental Chemistry Prosiding Seminar Kesehatan Masyarakat Jurnal Bioteknologi & Biosains Indonesia (JBBI)
Anto Budiharjo
Departemen Biologi, Fakultas Sains Dan Matematika, Universitas Diponegoro, Semarang, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemistry Dentistry Earth & Planetary Sciences Education Environmental Science Health Professions Immunology & microbiology Mathematics Medicine & Pharmacology Nursing Public Health Veterinary

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PELACAKAN FRAGMEN GEN PENYANDI ENZIM ß-KETOASIL-ACP SINTASE II (KAS II) DARI MESOKARP KELAPA SAWIT (ELAEIS GUINEENSIS JACQ. L.) Yohanes Chandrawijaya; Teuku Tajuddin; Hermin Pancasakti Kusumaningrum; Anto Budiharjo
Jurnal Akademika Biologi Vol. 2 No. 2 April 2013
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

        The standard of quality is one of the determining values of crude palm oil as an international trade commodity. Better standard of quality for crude palm oil is a constant demand of the market. Quality improvement can be made by increasing the contents of oleic acid in the mesocarp of  E. guinensis. Among the uses of oleic acid are as follows: anti-carcinogenic agent, anti-oxidant, source of pro-vitamin A, and source of Vitamin E. Oleic acid is a form of non-saturated fatty acid encoded by KAS II genes. The expression profiling of KAS II is achieved through isolation of total RNA by Trizol reagent, RNA purification, using DNAse RNAse free, synthesis of cDNA using Reverse Transcriptation PCR approach, and amplification of KAS II genes with Nested PCR approach. The amplification process of KAS II genes is carried out using both internal and external primers. The first step of the external primer PCR is F-KAS-1 and R-KAS-1. Internal primer of PCR in the second step is F-KAS-2 and R-KAS-2. The results of this research are fragments of KAS II genes between 1500–2000 bp. These amplicons are suitable with primers designed at the approximation of 1796 bp. Selection of three amplicons at the annealing temperatures of 54oC, 55.9oC, and 58oC shows good DNA band visualizations. Annealing at 58oC shows the best result with high intensity DNA band and no smear. Further research is needed to determine the accuracy of the amplicons through sequencing step.  Keywords: KAS II, Elaeis guineensis, annealing, Nested PCR, RT-PCR
ISOLASI, KARAKTERISASI BAKTERI ASAM LAKTAT, DAN ANALISIS PROKSIMAT DARI MAKANAN FERMENTASI BEKASAM IKAN MUJAIR (Oreochromis mossambicus Peters) Olivia Nisa Mumtianah; Endang Kusdiyantini; Anto Budiharjo
Jurnal Akademika Biologi Vol. 3 No. 2 April 2014
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Bekasam is one of the traditional fermented food made from freshwater fish with the addition of salt and carbohydrate sources. Mozambique fish is used as a raw material, because it has high protein content and can be easily obtained in the market at affordable prices. Mozambique fish is used to make bekasam with the addition of salt as much as 18% of the weight of the fish and brooded for 48 hours, then added with toasted rice as much as 15% of the weight of the fish and fermented for 7 days. This study aimed to isolate and characterize lactic acid bacteria and analyze the nutritional value of mozambique fish bekasam. The methods used were  isolation, characterization and proximate analysis of the mozambique fish bekasam. Isolation of lactic acid bacteria was carried out on mozambique fish as a control, mozambique fish before and after the addition of toasted rice. Isolation obtained 6 isolates of Gram positive bacteria, 5 isolates of cocci shaped bacteria and 1 rod shaped bacteria. Based on morphological and physiological tests, six isolates were Gram positive, non motile, catalase negative, positive to produce acid and had proteolytic activity. Bekasam mozambique fish contained as much as 0.64% lactic acid and pH is 5.39. The results of the proximate analysis bekasam mozambique fish showed that the fermentation process increased the nutritional value bekasam quality mozambique fish with 5.5270% water content, 33.0628% ash content, 0.0788% crude fiber content, 45.0546% crude protein content, 7.9419% crude fat content and 13.9407% carbohydrate content. Keywords : bekasam , lactic acid bacteria , isolation, characterization, proximate analysis
ISOLASI DAN IDENTIFIKASI MOLEKULER KHAMIR DARI MOLASE SERTA KEMAMPUANNYA DALAM PRODUKSI ETANOL Fauziah Citra Rahmawati; Endang Kusdiyantini; Anto Budiharjo
Jurnal Akademika Biologi Vol. 6 No. 4 Oktober 2017
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

The need of petroleum is increasing while the availability is limited. Petroleum is an alternative energy source which is produced by fermentation using a sugar-containing substrate with the help of yeast. This research aims to isolate the yeast that can ferment molasses into ethanol and identify morphologically, biochemically, and molecular so the species can be known. The isolation is done into the PDA media by streak method. Morphological identification involves macroscopic and microscopic observation. Biochemical identification involves growth tests on 50% glucose concentration and sugar fermentation. Molecular identification is done by looking at its genome based on Internal Transcribed Spacer (ITS) DNA base order. From Molasses isolation was obtained four isolates of yeast, that are isolates 1C1, 1C2, 2C1, and 3C2. Isolates 2C1 which is used for ethanol fermentation produces 0,9876 g/cm3 or 9,5% of ethanol. 2C1 Isolates was amplified using PCR and Phylogenetic Analysis using Neighbor Joining method. Sequencing results show that Isolates 2C1 has 616 bp Query Length. Based on Homology equation through BLAST method and phylogenetic tree analysis, isolates 2C1 is a Debaryomyces Hansenii.Keywords: Identification, Yeast, Molasses, Molecular, Ethanol
POTENSI RHIZOBAKTERI DARI TANAMAN KUBIS (Brassica oleracea var. capitata L.) DAERAH GETASAN SEMARANG SEBAGAI AGEN BIOBAKTERISIDA TERHADAP PATOGEN Xanthomonas campestris Maya Fitriana Ilul Fahmi; Anto Budiharjo; Agung Suprihadi
Jurnal Akademika Biologi Vol. 3 No. 3 Juli 2014
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Rhizobacteria are bacteria that live around plant roots but do not cause negative effects on their host and are known to act as a biobactericide agent. The use of chemical-based pesticide against plant pathogen can be replaced with rhizobacteria. The objectives of this research were to isolate rhizobacteria from cabbage, explored from Getasan, Semarang  and to determine the ability of the isolates to inhibit pathogens Xanthomonas campestris causing black rot on cabbage in vitro. The research concisted of  rhizobacterial isolation, morphologic bacterial characterization, antibacterial test, and molecular and biochemical identification of the isolates. The isolation obtained seventeen rhizobacterial isolates. Four isolates (K.1, K.3, K.9 and K.12) showed potency as an biobactericide agent against pathogenic X. campestris. K.9 had the best ability to inhibit the growth of X.campestris by 12,6 mm. Based on molecular identification K.9 was Bacillus cereus strains BF15. Morphology and Biochemistry test showed that isolates K.9 is gram positive bacteria shaped bacilli, able to form an endospore, positive in hydrolysing starch , fermentation glucose, motile, aerobic and negative in the fermentation of manitol and arabinosa. Keywords : Antibacterial, Rhizobacteria, Cabbages, black rot disease, Xanthomonas. campestris
OPTIMASI PERTUMBUHAN DAN POTENSI ANTAGONISTIK Bacillus pumilus TERHADAP PATOGEN Xanthomonas campestris SERTA IDENTIFIKASI MOLEKULER GEN PENYANDI PKS DAN NRPS Laila Nur Faizah; Anto Budiharjo; Endang Kusdiyantini
Jurnal Akademika Biologi Vol. 6 No. 1 Januari 2017
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Xanthomonas campestris is one of the broccoli pathogen that difficult to be eradicated. B. pumilus is a prospective biocontrol agent due to its ability to produce antibiotical subtances that inhibit the growth of pathogenic bacteri and fungi. Beside that, B. pumilus have a great endurance to extreme environment by its ability to form spores. Some species of Bacillus genus have been reported to have PKS (Polyketide Synthetase) and NRPS (Non-Ribosomal Peptide Synthetase) coding gene which is a mega shyntetase that have a role in the production of antibiotic subtances. This reseach aims to test the inhibitory potency of B. pumilus toward X. campestris, identify the PKS and NRPS coding gene and to knwing the optimum growth of B. pumilus on the medium with different pH and carbon source. Reseach is conducted with Completely Randomized Design (CRD) with three replications on two growth parameters that is pH and carbon source. pH treatment is conducted with pH 5, 6, 7, and 8, while carbon source treatment is conducted with glucose, fructose, and sucrose as the carbon source. The obtained result is analized with ANOVA with significant level of 95%. The result shows B. pumilus ability to inhibits the growth of X. campestris producing inhibitory zone with 1,84 mm of diameter. The reseach showed negative result in NRPS coding gene detection and a positive result in PKS coding gene. PKS coding gene identification which is analized with BLAST shows 98% homology with PKS coding gene of Bacillus subtilis HNS005. Growth optimization shows the optimum groth of B. pumilus at pH 6 and glucose as the carbon source.Keywords: biocontrol, B. pumilus, PKS, NRPS, growth optimization
ISOLASI DAN KARAKTERISASI MORFOLOGI KOLONI BAKTERI ASOSIASI ALGA MERAH (RHODOPHYTA) DARI PERAIRAN KUTUH BALI Aninditia Sabdaningsih; Anto Budiharjo; Endang Kusdiyantini
Jurnal Akademika Biologi Vol. 2 No. 2 April 2013
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Kutuh Beach in Bali is an area established as the Minapolitan algae with a high diversity. Microorganisms associated with marine organisms, usually have secondary metabolites that can be used as a source of drugs, antibiotics, enzymes, and cosmetics. The aimed of this research was to isolate and characterize colony morphology of bacteria associated with red algae based on colony morphology. Seven bacteria were isolated from three samples of red algae that were Kappapycus alvarezii, Gelidiella acerosa and Eucheuma spinosum. The isolates had pigmentation of beige, white and orange. Based on Gram's staining, seven isolates were Gram positive with bacilli and cocci in shape. Keywords : associated bacteria, morphological colony, pigmentation, red algae
IDENTIFIKASI ISOLAT MONASCUS SP. HASIL ISOLASI ANGKAK BERDASARKAN GEN INTERNAL TRANSCRIBED SPACER (ITS) DAN PENGUKURAN KANDUNGAN PIGMEN Mia Tri Wardani; Endang Kusdiyantini; Anto Budiharjo
Jurnal Akademika Biologi Vol. 6 No. 2 April 2017
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

The Identification of Monascus based on their morphological characteristic, this methods is very problematic due to several  specimens share similarity on morphology and colours. Nowadays, the identification of molecular based organisms has been done to complement morphological identification, for example mold identification using the Internal Transcribed Spacer (ITS) gene. The objectives of study were to identify of Monascus isolates the result of angkak isolation using Internal Transcribed Spacer (ITS) gene, phylogenetic analyzing,  determination cell growth and determination of production pigment content. Sequences of  ITS Monascus were amplified using PCR and the molecular phylogenetic  analyses was using Neighbor Joining (NJ) method. Based on homology search by Basic Local Alignment Search Tool (BLAST) program and phylogenetic tree analyses, mold of isolates were identified as the Monascus purpureus (100%). The amplified DNA fragments were about 553 bp. Determination of Monascus mold cell growth were carried out by the method of dry weight cell. Determination of pigment by using spectrophotometer at 390 nm wavelength for yellow pigment and 500 nm for red pigment. The result of determination of Monascus mold pigment content show that have increased during fermentation time until day 13. The amount of yellow extracellular pigment production is 37.358 U / g; While the red color pigment of 2.6545 U / g. The amount of red intracellular pigment production is 7.4175 U / g, while the yellow pigment is 30.176 U / g.Keywords: Monascus, angkak, molecular phylogenetic, pigment
DETEKSI GEN tlh DAN tdh PADA Bakteri Vibrio parahaemolyticus DARI AIR TAMBAK UDANG VANNAME (Litopenaeus vannamei) DI KABUPATEN REMBANG Adila Nawan Hasrimi; Anto Budiharjo; Siti Nur Jannah
Jurnal Akademika Biologi Vol. 6 No. 3 Juli 2017
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Vibrio parahaemolyticus is hallophilic gram-negative bacteria that live as natural inhabitant in aquatic environment. All Vibrio parahaemolyticus strain known to have thermolabile hemolysin encoded by tlh gene as species marker. Thermostable direct hemolysin encoded by tdh gene is responsible for regulating one of the virulence factors in Vibrio parhaemolyticus. The aim of this research is to detect tlh gene and tdh gene from water of vanname shrimp’s aquaculture in Rembang regency. Colonies of green-blueish bacteria grew from the isolation of  vanname shrimp’s aquaculture water in CD-VP media which is identified as Vibrio parahaemolyticus. The isolated bacteria is specifically identified as Vibrio parahaemolyticus bacteria by the detection of tlh gene. Molecular analysis shows tdh negative result that indicates tdh gene is not present in the isolated bacteria. Vibrio parahaemolyticus isolate were cultured in Wagatsuma agar for the tdh gene confirmation test that showed Kanagawa negative result, in which indicated that V. parahaemolyticus did not produce thermostable direct hemolysin. Vibrio parahaemolyticus isolate did not show any virulence factors to initiate host colonization in the aquatic environment. Keywords: Vibrio parahaemolyticus, tdh gene, tlh gene
DETEKSI MRSA (Methicillin Resistant Staphylococcus aureus) PADA PASIEN RUMAH SAKIT DENGAN METODE MALDI-TOF MS DAN MULTIPLEX PCR Dian Wahyu Kemalaputri; Siti Nur Jannah; Anto Budiharjo
Jurnal Akademika Biologi Vol. 6 No. 4 Oktober 2017
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Methicillin Resistant Staplylococcus aureus (MRSA) is a strain of Staphylococcus aureus which has been resistant to methicillin antibiotics and β-lactam group. The mechanism of MRSA resistance occurs because the Staphylococcus aureus produces Penicillin Binding Protein (PBP2a) encoded by the mecA gene that has low affinity to methicillin. Nowadays, MRSA is tested by resistance test using Oxacillin 1 ug. This method requires pure isolate and bacterial culture, so that the results can be seen in 5 days. To find a rapid and precise diagnostic technique for detecting MRSA, mecA gene detection utilizing PCR multiplex technique as the alternative diagnostics. This study aims to find a quick and precise alternative diagnostic technique for MRSA examination, which is utilizing MALDI-TOF MS and multiplex PCR technique.Keywords: MRSA, Staplylococcus aureus, MALDI-TOF MS, Multiplex PCR.
POTENSI RIZOBAKTERI PEMBENTUK ENDOSPORA DARI TANAMAN PADI SEBAGAI BIOKONTROL FITOPATOGEN Xanthomonas oryzae Maerani Sumarno; Anto Budiharjo; Sri pujiyanto
Jurnal Akademika Biologi Vol. 3 No. 3 Juli 2014
Publisher : Departemen Biologi, Fakultas Sains dan Matematika Undip

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Abstract

Xanthomonas oryzae is phytopathogen causing bacterial leaf blight which decreases in agricultural product reaching 20-70 % in Asia. Bacterial leaf blight symptoms is characterized by the formation of lines in the leaf blade turnings yellow, then white, causing the plant to wither and die. Endospore-forming rhizobacteria are soil microbes potential as biocontrol to inhibit phytopathogen growth. The aims of this study were to isolate endospore-forming rhizobacteria from rice plant and determine its ability as biocontrol against X. oryzae. The methods used consisted of isolation, antibacterial activity test, molecular identification, and biochemical characterization. Twenty isolates of endospore-forming rhizobacteria were obtained from the isolation of the rice crop. Isolate P-10 had the greatest ability against X. oryzae with inhibition zone of 18.89 mm. Molecular identification using 16S rRNA gene showed that isolates P-10 had 98 % homology with Bacillus pumilus. Biochemical characterization showed the isolate P-10 had a rod-shaped with center of endospores, gram-positive, catalase positive, are motile, negative in starch hydrolyze, not forming gas on glucose, these characteristics fitted with B. pumilus character. Keywords : Rice plant, antibacterial, Xanthomonas oryzae, endospore-forming, rhizobacteria
Co-Authors AB SUSANTO Abhinaya, Danendra Daryl Ade Fajrian Adila Nawan Hasrimi Agung Suprihadi Agung Suprihadi Ahmad Thontowi Anggoro, Naufal Sebastian Aninditia Sabdaningsih Ariani, Nur Frida Asgasatya, Syahid Fattah Barri Pratama Budi Raharjo Bunga Fajriani CATUR RIANI Christina Ratna Handayani, Christina Ratna Christina Retna Handayani, Christina Retna Deverina Mergypta Dian Wahyu Kemalaputri Dudi Hardianto, Dudi Dyah Ayu Riani Dyah Wulandari Edwin Setiawan Elfira, Yolanda Elke Gildantia Elvi Yetti Endang Kusdiyantini Endang Kusdiyantini Fahmi, Maya Fitriana Ilul Fauziah Citra Rahmawati Fitri Arum Sasi, Fitri Arum Fitria, Lutfiah Rahmadini Florentina Kusmiyati HARTAJANIE, LAKSMI Hasrimi, Adila Nawan Heni Wijayanti, Heni Hermanto, Michael Einstein Hermin P. Kusumaningrum Hermin Pancasakti Kusumaningrum Hermin Pancasakti Kusumaningrum Husna, Faza Laili IS HELIANTI Khoirul Huda Kristina Kristina Kurniawati, Mufida Budi Kusumaningrum, Hermin Laila Nur Faizah Lasria Pardede Lindayani, Lindayani Luthfy AN M Masfuroh Maerani Sumarno Mahmudah, Hawari Rosdiana Maria, Atina Maulana, Anand Reyna Mawarni, Risa Arum Maya Fitriana Ilul Fahmi MG Isworo Rukmi Mia Tri Wardani Monalita, Ramadhebi Muhammad Adib Mubarok Muhammad Mulyadi, Muhammad Muhammad Zainuri Norma Sainstika Pangestu Novita Rahmawati, Novita Nur Endah Wahyuningsih Nurhayati Nurhayati Nurlita Abdulgani Octavia Dewi Christiningrum Olivia Nisa Mumtianah Pardede, Lasria Prayogo, Fitra Adi Rahayu, Annisa Rizky Rahmah Putri Sunarno Ratna Cempaka Lingga Rejeki Siti Ferniah Risky Panji Nugroho Risma Wiharyanti Safirah, Dearesty Saniha Adini, Saniha Sayono Setyo Nugroho Shabrina, Jauhara Siti Nur Jannah Siti Nur Jannah Siu S.S Langden Sonny Abdi Setiyawan, Sonny Abdi Soowanayan, Chumporn Sri Pujiyanto Suetrong, Satinee Sumarno, Maerani Suprihadi Susiana Purwantisari Teuku Tajuddin Thu'ti Alawiyyah Tony Hadibarata, Tony w wijanarka Wahyu Dewi U. Haryanti Wien Kusharyoto Wijanarka Wijanarka Yason Lukman Sudjito, Yason Lukman Yohanes Chandrawijaya Yopi Yopi Yuliandini Pangestika