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All Journal HAYATI Journal of Biosciences MEDIA PETERNAKAN - Journal of Animal Science and Technology Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Ilmu Pertanian Indonesia Jurnal Fitopatologi Indonesia Jurnal Akuakultur Indonesia Jurnal Pengolahan Hasil Perikanan Indonesia Jurnal Ilmu dan Teknologi Kelautan Tropis Jurnal Akuatika Microbiology Indonesia BIOTROPIA - The Southeast Asian Journal of Tropical Biology Medical Journal of Indonesia Jurnal AgroBiogen Current Biochemistry Journal Jurnal Pengelolaan Sumberdaya Alam dan Lingkungan (Journal of Natural Resources and Environmental Management) JSDH Elkawnie Journal of Tropical Biodiversity and Biotechnology JURNAL BIOLOGI INDONESIA Jurnal Biodjati Omni-Akuatika Jurnal Penelitian Pendidikan IPA (JPPIPA) Jurnal Biologi Tropis ANNALES BOGORIENSES LIMNOTEK - Perairan Darat Tropis di Indonesia Biosaintifika: Journal of Biology & Biology Education Jurnal Teknik Pertanian Lampung (Journal of Agricultural Engineering) Jurnal Riset Akuakultur Menara Perkebunan Jurnal Mangifera Edu Grouper: Jurnal Ilmiah Perikanan Makara Journal of Science Jurnal Ilmu Kehutanan Jurnal Ilmu Kehutanan

Iman Rusmana

Departemen Biologi, Fakultas Matematika Dan Ilmu Pengetahuan Alam, Institut Pertanian Bogor, Kampus IPB Darmaga, Bogor 16680

Author-ID : 286105

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Decision Sciences, Operations Research & Management Earth & Planetary Sciences Economics, Econometrics & Finance Education Engineering Environmental Science Immunology & microbiology Library & Information Science Materials Science & Nanotechnology Medicine & Pharmacology Physics Veterinary

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Characterization of Bacteriophage Specific to Bacillus pumilus from Ciapus River in Bogor, West Java, Indonesia ANIK KUSMIATUN; IMAN RUSMANA; SRI BUDIARTI
HAYATI Journal of Biosciences Vol. 22 No. 1 (2015): January 2015
Publisher : Bogor Agricultural University, Indonesia

Bacillus pumilus is a spore-forming bacteria that is rod-shaped, gram positive, and aerobic. B. pumilus produced pumilacidins, known to have toxic effects on epithelial cells. Antibiotics were usually used to treat the disease caused by bacteria. Antibiotic typing test of B. pumilus indigenous from sewage water showed that this isolate was resistant to ampicillin and clindamycin. An alternative way was by application of bacteriophages as biocontrol agents to reduce B. pumilus in environment. The aim of this study were to isolate and characterize B. pumilus bacteriophage isolated from Ciapus River in Bogor, West Java. Bacteriophages infecting B. pumilus were isolated from river water using the double agar overlay method. Phages were defined by plaque morphology, structure, host range, and characteristic of molecular weight protein phage. Phage FBa1, FBa2, and FBa3 had narrow host range and they were specific for infecting B. pumilus. Electron microscope observation showed that phage FBa1 had icosahedral head without tail (166.67 nm in diameter), so it is called phage-like particles. Characterization of phage FBa1 by SDS-PAGE showed five proteins band. Molecular weight of FBa1 proteins was 70.9, 54.9, 33.8, 28.3, and 21.4 kDa.

Analysis of Intestinal Mucosal Immunoglobulin A in Sprague Dawley Rats Supplemented with Tempeh SUSAN SOKA; ANTONIUS SUWANTO; IMAN RUSMANA; DONDIN SAJUTHI; DIAH ISKANDRIATI; KATHARINA JESSICA
HAYATI Journal of Biosciences Vol. 22 No. 1 (2015): January 2015
Publisher : Bogor Agricultural University, Indonesia

Tempeh is a well-known Indonesian fermented food made from soybean. During the fermentation process, microorganisms play an important role in the flavor, texture, and nutritional quality of tempeh. Tempeh has been show to have immuno-modulatory and immune-stimulating properties that may also be caused by the microorganisms in tempeh as they interact between the microbial population in the intestinal tract. The objective of this study was to quantify IgA gene expression at both the transcription and translation levels in Sprague Dawley (SD) rats supplemented with tempeh. A total of 6 female SD rats were divided into 3 groups of 2 rats. The first group was the control and was fed a standard diet without tempeh. The second- and third group were fed with a standard diet supplemented with raw and cooked tempeh, respectively. Ileum tissue samples were collected after tempeh supplementation for 28 days. RNA was extracted from ileum samples, and measurement of IgA gene expression was further analyzed using semi quantitative real-time PCR. The concentration of IgA protein was quantified from ileum lysate using the half sandwich ELISA method. IgA gene expressions in rats supplemented with raw, and with cooked tempeh, were 1.18 and 1.17 fold higher, respectively, compared to the control group. Moreover, IgA protein secretion levels also increased 2.46 and 2.08 fold, respectively, compared to the control group. The result of this study indicates that both raw and cooked tempeh may stimulate IgA secretion, and also that both viable and non-viable microorganisms might stimulate IgA gene expression.

Metagenomic of Actinomycetes Based on 16S rRNA and nifH Genes in Soil and Roots of Four Indonesian Rice Cultivars Using PCR-DGGE . Mahyarudin; Iman Rusmana; Yulin Lestari
HAYATI Journal of Biosciences Vol. 22 No. 3 (2015): July 2015
Publisher : Bogor Agricultural University, Indonesia

The research was conducted to study the metagenomic of actinomycetes based on 16S ribosomal RNA (rRNA) and bacterial nifH genes in soil and roots of four rice cultivars. The denaturing gradient gel electrophoresis profile based on 16S rRNA gene showed that the diversity of actinomycetes in roots was higher than soil samples. The profile also showed that the diversity of actinomycetes was similar in four varieties of rice plant and three types of agroecosystem. The profile was partially sequenced and compared to GenBank database indicating their identity with closely related microbes. The blast results showed that 17 bands were closely related ranging from 93% to 100% of maximum identity with five genera of actinomycetes, which is Geodermatophilus, Actinokineospora, Actinoplanes, Streptomyces and Kocuria. Our study found that Streptomyces species in soil and roots of rice plants were more varied than other genera, with a dominance of Streptomyces alboniger and Streptomyces acidiscabies in almost all the samples. Bacterial community analyses based on nifH gene denaturing gradient gel electrophoresis showed that diversity of bacteria in soils which have nifH gene was higher than that in rice plant roots. The profile also showed that the diversity of those bacteria was similar in four varieties of rice plant and three types of agroecosystem. Five bands were closely related with nifH gene from uncultured bacterium clone J50, uncultured bacterium clone clod-38, and uncultured bacterium clone BG2.37 with maximum identity 99%, 98%, and 92%, respectively. The diversity analysis based on 16S rRNA gene differed from nifH gene and may not correlate with each other. The findings indicated the diversity of actinomycetes and several bacterial genomes analyzed here have an ability to fix nitrogen in soil and roots of rice plant.

Characterization and Identification of Cellulolytic Bacteria from gut of Worker Macrotermes gilvus Andri Ferbiyanto; Iman Rusmana; Rika Raffiudin
HAYATI Journal of Biosciences Vol. 22 No. 4 (2015): October 2015
Publisher : Bogor Agricultural University, Indonesia

As a social insect, termite colony consists of three castes, i.e. reproductive, soldier, and worker castes. In their role of cellulose digestion, the worker termites use two sources of cellulolytic enzyme that include cellulases produced by the termite and the gut symbions. Macrotermes gilvus classified in mound builder termite, mostly depend on cellulolytic bacteria for cellulose digestion. This study aims to characterize cellulolytic bacteria of termite gut symbionts of worker M. gilvus and to identify the cellulolytic bacteria based on sequences of 16S ribosomal RNA (rRNA) gene. Cellulolytic bacteria of termite gut were isolated and cultured in CMC (Carboxymethyl cellulose) media. The biochemical characters of bacterial isolates were assayed using Microbact 12A and 12B. Cellulolytic activity was determined based on formation of clear zone and cellulolytic index on CMC plate media. The bacterial isolate that has the highest cellulolytic index was analyzed for its 16S rRNA gene sequences. Four isolates of cellulolytic bacteria were successfully isolated from gut of M. gilvus with aerobic and anaerobic conditions. The highest formation of cellulolytic index (2.5) was revealed by RA2. BLAST-N (Basic Local Alignment Search Tool for Nucleotides) result of 16S rRNA gene sequences of RU4 and RA2 isolates showed that the isolate has similarity with Bacillus megaterium and Paracoccus yeei, respectively. This result indicated that RA2 isolate was P. yeei, a cellulolytic bacterium of a termite gut of M. gilvus.

Impact of Methanotrophic and N2O-reducing Bacterial Inoculation on CH4 and N2O Emissions, Paddy Growth and Bacterial Community Structure in Paddy Field Yuli Siti Fatma; Iman Rusmana; Aris Tri Wahyudi; Hamim Hamim
HAYATI Journal of Biosciences Vol. 27 No. 3 (2020): July 2020
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.27.3.197

Paddy field is one of the anthropogenic sources that produce greenhouse gases emission. This study aimed to investigate the impact of methanotrophic and N2O-reducing bacterial inoculation on CH4 and N2O emissions, paddy growth and bacterial community structure in paddy field. Two treatments of 100% synthetic fertilizer (250 kg urea/ha) without biofertilizer and 50% synthetic fertilizer (125 kg urea/ha) with biofertilizer consisted of methanotrophic and N2O-reducing bacteria were applied in the paddy field. Inoculation of methanotrophic and N2O-reducing bacteria was able to reduce CH4 and N2O emission up to 4.19 mg CH4/m2/day and 351.29 µg N2O/m2/day, respectively. Those bacterial applications were also able to increase paddy growth and yield productivity. According to DGGE profile, inoculation of the biofertilizer seemed to have a transient impact on bacterial communities in paddy soil at 36 days after transplanting (DAT) which showed the lowest similarity with all samples (a similarity index of 0.68). DGGE bands successfully excised have closest relative to uncultured bacteria which comprised 5 phyla, i.e. Proteobacteria (Alphaproteobacteria and Deltaproteobacteria), Nitrospirae, Actinobacteria, Firmicutes, and Acidobacteria. In this study, Alphaproteobacteria was the most dominant phylum. We provide basic information for developing the biofertilizer which supports sustainable agriculture.

Characteristics and Activity of Anti Qourum Sensing Bacillus spp. Isolated from Penaeus vannamei Shrimp Ponds Iman Rusmana; Yuni Puji Hastuti; Rizal Khoirun Alfisah; Alina Akhdiya
HAYATI Journal of Biosciences Vol. 29 No. 1 (2022): January 2022
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.29.1.97-106

Certain strains of V. parahaemolyticus carry a gene that encodes a toxin that causes Acute hepatopancreatic necrosis disease (AHPND) in P. vannamei. AHPND attacks shrimp post larvae within 20-30 days after stocking causing up to 100% mortality. The expression of these virulent genes is controlled by the quorum sensing system. This system is inhibited by an anti-quorum sensing (AQS) mechanism. Several Bacillus strains have AQS mechanism by producing AHL-Lactonase enzyme. Therefore, this study aimed to obtain Bacillus spp. having AQS activity for controlling AHPND. The study was conducted from isolation and selection of Bacillus isolates, as well as determination of AQS activity. From 22 samples consisting of shrimp intestines, water and pond sediment samples, a total of 151 isolates of Bacillus spp. were isolated. The screening test for AQS activity obtained 11 isolates that showed AQS activity on Cromobacterium violaceum. Determination of violacein pigment in liquid cultures of C. violaceum showed the index value of the pigment formation was between 0.025-0.166 and 0.026-0.567 at 24-hour and between 48-hour incubations, respectively. The quantitative analysis of violacein production showed that there were six isolates of Bacillus could inhibit the pigment production more than 75%. The isolates were identified as Bacillus cereus (four isolates), Bacillus thuringiensis (one isolate), and Bacillus velezensis (one isolate), respectively. The molecular analysis had confirmed that the isolates have aiiA genes encoding AHL-lactonase enzyme. These Bacillus isolates have potential application for controlling AHNPD disease.

Characteristics of Lactic Acid Bacteria Isolated from Gastrointestinal Tract of Cemani Chicken and Their Potential Use as Probiotics Siti Nur Jannah; Achmad Dinoto; Komang Gede Wiryawan; Iman Rusmana
Media Peternakan Vol. 37 No. 3 (2014): Media Peternakan
Publisher : Faculty of Animal Science, Bogor Agricultural University

The aims of this study were to screen and characterize lactic acid bacteria (LAB) isolated from gastrointestinal (GI) tract of Cemani chicken, one of Indonesian local chicken and to investigate their potential use as probiotics. LAB were isolated from GI tract using MRSA and GYPA media and incubated anaerobically. Selected LAB were determined their probiotic properties with several assays. Identification of selected LAB was based on 16S rDNA sequences, morphological and biochemical characteristics. Ninety five bacteria were isolated and characterized as lactic acid bacteria (Gram positive, catalase negative, non sporeforming and acid producing). Twenty four isolates of LAB demonstrated antimicrobial activity against Escherichia coli JCM 1649 and Salmonella enteritidis B2586, and three selected isolates, i.e. CCM011, CSP004, and CVM002 showed the highest inhibition activity. The isolates had characters of high cell surface hydrophobicity and inter-isolate coaggregation ability of LAB, high survival at low pH, high phytase and protease activity (but no amylase and lipase activity), weak coaggregation with pathogen and no resistance to the examined antibiotics. The isolates were identified based on sequence analysis of 16S rRNA gene as Lactobacillus salivarius, however, each isolate had different profiles of sugar fermentation. Therefore the three LAB isolates had potential application as probiotics for chicken.Key words: Cemani chicken, gastrointestinal tract, lactic acid bacteria, probiotic

Pertumbuhan Bibit Tanaman Manggis (Garcinia mangostana L.) Setelah Inokulasi dengan Berbagai Galur Agrobacterium rhizogenes1 , Lizawati; Roedhy Poerwanto; , Sobir; Iman Rusmana; Tri Muji Ermayanti
Indonesian Journal of Agronomy Vol. 35 No. 2 (2007): Jurnal Agronomi Indonesia
Publisher : Indonesia Society of Agronomy (PERAGI) and Department of Agronomy and Horticulture, Faculty of Agriculture, IPB University, Bogor, Indonesia

Growth of mangosteen essentially depends on its root system. Therefore, it needs technology to obtain stringer mangosteen root system. The use of Agrobacterium rhizogenes bacterium is an alternative. The objectives of this experiment were : 1) to find the effective strain of A. rhizogenes bacterium for inoculation of mangosteen seedling root, 2) to find the best inoculation method for inducing mangosteen seedling root. The materials used in this experiment were ; mangosteen fruit and A. rhizogenes collection from Puslit Biotechnology LIPI Cibinong-Bogor. The experiment was arranged in completely randomized design with two factorial treatments. The first factor : 11 strains A. rhizogenes (ATCC-15834, ATCC-8196, R-1000, 07-20001, A4, A4-J, 509, 510, 511, MAFF 01-1724, and control), the second factor : 2 inoculation methods (cutting and dipping). The results showed that A. rhizogenes of ATCC-15834, 509, 07-20001, A4, and R-1000 increased stem diameter, plant height, leaf number, lateral and tertiary root number, better than ATCC-8196, MAFF 01-1724, 510, 511, A4-J, and control. Cutting root method of inoculation resulted in higher live plant percentage compared to dipping root method. Key words : Agrobacterium rhizogenes, Garcinia mangostana, inoculation

Produksi Serasah Musiman pada Berbagai Spesies Mangrove di Pesisir Kabupaten Muna Barat, Sulawesi Tenggara Rahman Rahman; Yusli Wardiatno; Fredinan Yulianda; Iman Rusmana
Jurnal Ilmu Pertanian Indonesia Vol. 25 No. 3 (2020): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18343/jipi.25.3.323

Mangrove litter production is important in the displacement of organic matter from mangrove vegetation to water such as in the coast of West Muna Regency. However, one factor influencing it is the frequency of rainfall. This research, therefore, aims to determine the influence of the frequency of rainfall in mangrove ecosystem by obtaining data through the fractional wet weight. The results showed that the biomass fraction with the largest amount were Rhizophora mucronata, Rhizophora apiculata, and Sonneratia alba with of 31.59; 31.07; and 30.96%, respectively, while the lowest was Rhizophora stylosa, Bruguiera cylindrica, and Bruguiera gymnorrhiza with of 30.07; 30.10; and 31.95%, respectively. The species with the largest leaf litter production was Bruguiera cylindrica, with of 1.72 g.m-2.day-1 which occurred in April and the lowest was Rhizophora apiculata, 0.24 g.m-2.day-1 in August. The species with the largest leaf litter production was Bruguiera cylindrica, 1.96 g.m-2.day-1 which occurred in May and the lowest was Sonneratia alba, 0.29 g.m-2.day-1 in August. In addition, the species with the largest fruit litter production was Rhizophora apiculata, 1.76 g.m-2.day-1 in April and the lowest was Sonneratia alba, 0.32 g.m-2.day-1 in September. The total litter production was 18,75 g.m-2.day-1 consisted of 6,69 g.m2.day-1 leaf litter, 6,54 g.m-2.day-1 branch litter, and 5,52 g.m-2.day-1 fruit litter. The higher the frequency of the rain, the greater the litter production. Keywords: biomass fraction, seasonal litter production, West Muna Regency

Penapisan dan Identifikasi Bakteri Kitinolitik Penghambat Pertumbuhan Ganoderma boninense in Vitro Risky Hadi Wibowo; Nisa Rachmania Mubarik; Iman Rusmana; Maggy Thenawidjaya
Jurnal Fitopatologi Indonesia Vol 13 No 3 (2017)
Publisher : The Indonesian Phytopathological Society (Perhimpunan Fitopatologi Indonesia)

Chitinolytic bacteria have been reported as biocontrol agents and have the ability to produce chitinase enzymes. The objective of the research was to obtain chitinase producing bacteria that had antagonistic activity to Ganoderma boninense, a causal agent of basal stem rot on oil palm. A total of 63 isolates of chitinase producing bacteria were isolated from soil of Bukit Dua Belas National Park and oil palm plantation in Jambi Province; all was screened for their potency in inhibiting G. boninense in vitro. Three isolates designated TB04-05, SW01-11, and SW02-08 were potentially suppressed and inhibited the mycelium growth of G. boninense in vitro. Based on their specific chitinase activity, these three isolates produced the highest level of chitinase enzyme of 6.3072 U mg-1 protein, 6.0385 U mg-1 protein and 6.1279 U mg-1 protein, respectively after 24 hr incubation. Based on 16S RNA identification, strain TB04-05 had similarity with Bacillus cereus, whereas strains SW01 and SW02-08 had similarity with Bacillus thuringiensis.

Co-Authors Achmad Dinoto Aliati Iswantari ALINA AKHADIYA Alina Akhdiya Alina Akhdiya ALINA AKHDIYA Amanda, Nisa Widya Andri Ferbiyanto Angela Mariana Lusiastuti Angela Mariana Lusiastuti Ani Suryani Ani Widiyati ANIK KUSMIATUN Anja Meryandini Anja Meryandini Antonius Suwanto dan Meity S. Sinaga . Budi Tjahjono Andi Khaeruni R Ari Fina Bintarti Ari Fina Bintarti, Ari Fina Aris Tri Wahyudi Baskoro S Wibowo Cahyadi Irwan Cahyadi, Alfan Cecep Kusmana CECILIA ANNA SEUMAHU Ciptadi Achmad YUSUP Daniel Djokosetiyanto Darmono Taniwiryono Desniar . Dewi Puspaningsih DIAH ISKANDRIATI Dian Hendrayanti Dinamella Wahjuningrum Dondin Sajuthi Dwi Andreas Santosa DWI ANDREAS SANTOSA Dwi Ningsih Susilowati Eddy Supriyono Emei Widiyastuti Fachriyan Hasmi Pasaribu Fachriyan Hasmi Pasaribu Faturrahman Faturrahman Fredinan Yulianda Fredinan Yulianda Frijona Fabiola Lokollo GALUH WENING PERMATASARI Gunawan Djajakirana Hamim Hamim Happy Widiastuti Hefni Effendi Hessy Novita Hessy Novita I Komang Gede Wiryawan I MADE ARTIKA I Made Samudra Ifa Manzila It Jamilah KATHARINA JESSICA Khairul Syahputra Kukuh Nirmala Lena Novita Lizawati Lizawati Maggy Thenawidjaya Maggy Thenawidjaya Suhartono Maggy Thenawidjaya Suhartono Mahdani, Wilda Mahyarudin, Mahyarudin Masrukhin Masrukhin Masthura, Aderiana Miftahudin . Mukti Ali Munti Yuhana MUTTAQIN, MAFRIKHUL Niken T.M Pratiwi, Niken T.M NISA RACHMANIA MUBARIK Nisa Widya Amanda Novita, Lena PRIHASTO SETYANTO Prihasto Setyanto Priyo Handoyo Wicaksono Rahman Rahman Rahman Rahman Rahminovita Herlis RATNA SETYANINGSIH RATNA SETYANINGSIH RIDWAN AFFANDI RIKA RAFFIUDIN Rina Hesti Utami Risky Hadi Wibowo Risky Hadi Wibowo Risky Hadi wibowo Rizal Khoirun Alfisah ROEDHY POERWANTO Sipriyadi Sipriyadi Sipriyadi Siska Tridesianti Siti Nur Jannah Sobir Sobir Solly Aryza Sri Budiarti Poerwanto SUSAN SOKA SUSI RATNANINGTYAS Syaiful Anwar T. Widiyanto Taruna D. Satwika TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN Tri Eko WAHYONO Tri Handayani Kurniati Tri Muji Ermayanti Tri P. Priyatno Tri Panji Tri Puji Priyatno Tri Widiyanto Utut Widyastuti Wahyu Budi Kuntari Widanarni Widanarni Widiyanto, Tri Wildan Nurusallam Yadi Suryadi Yani Aryati Yohana A Dahliani Yohanna Anisa Indriyani Yuli Siti Fatma Yuli Siti Fatma YULIN LESTARI Yuni Puji Hastuti Yusli Wardiatno Zulfarina Zulfarina Zulfarina,

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