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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Fitopatologi Indonesia Jurnal Pengolahan Hasil Perikanan Indonesia Jurnal Akuatika Jurnal Ilmu Dasar Microbiology Indonesia BIOTROPIA - The Southeast Asian Journal of Tropical Biology BERKALA SAINSTEK Biota: Jurnal Ilmiah Ilmu-Ilmu Hayati Indonesian Journal of Agricultural Science Indonesian Journal of Biotechnology Jurnal Perlindungan Tanaman Indonesia Journal of Tropical Biodiversity and Biotechnology UNEJ e-Proceeding JURNAL HAMA DAN PENYAKIT TUMBUHAN TROPIKA ANNALES BOGORIENSES Marine Research in Indonesia Biosaintifika: Journal of Biology & Biology Education Menara Perkebunan International Journal of Environment, Engineering, and Education International Journal of Environment, Engineering & Education

Antonius Suwanto dan Meity S. Sinaga . Budi Tjahjono Andi Khaeruni R

Department Of Biology, Faculty Of Mathematics And Natural Sciences, Bogor Agricultural University

Author-ID : 431485

Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Civil Engineering, Building, Construction & Architecture Control & Systems Engineering Earth & Planetary Sciences Economics, Econometrics & Finance Education Engineering Environmental Science Immunology & microbiology Materials Science & Nanotechnology Mathematics Medicine & Pharmacology Physics Veterinary

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Horizontal Gene Transfer and Population of Phyllosphere Bacteria on Transgenic and Nontransgenic Cotton ROHANI CINTA BADIA GINTING; ANTONIUS SUWANTO; ARIS TJAHJOLEKSONO
HAYATI Journal of Biosciences Vol. 12 No. 3 (2005): September 2005
Publisher : Bogor Agricultural University, Indonesia

The possibility of horizontal gene transfer of plant genomic DNA and bacteria in the soil, particularly as this relates to the possible transfer of genes encoding antibiotic resistance, has been seen as hazard associated with genetically engineered plants. It is hypothesized that introduction of bacterial genes into the plant genome leads to a higher probability of gene transfer from plants to bacteria due to the presence of homologous sequences. Bollgard (BG) cotton was constructed through the introduction of cry1A(c) gene, encodes for insecticidal activity againts Lepidopteran pests, together with genes for spectinomycin/streptomycin resistant (aad) and kanamycin resistant (nptII), into the genome of a conventional cotton variety, Delta Pine (DP). The aim of this study were to evaluate the ability of naturally competent Acinetobacter calcoaceticus strain ADP1 to take up and integrate transgenic plant DNA based on homologous recombination under optimized laboratory condition, and to compare phyllosphere microbial population resistant to antibiotic on leaves of transgenic and nontransgenic plant. The results showed that transformation of ADP1 cells with Bollgard DNA was not detected on nitrocellulose membrane nor in sterile soil. Total phyllosphere bacterial population on leaves collected from one month after planting were 1.3 x 108 and 1.6 x 108 cfu/g leave fresh weight for BG and DP, respectively. Samples collected after three month contained 5.9 x 107 and 7.1 x 107 cfu/g leave fresh weight for BG and DP, respectively. This study also showed that there was no significant difference of phyllosphere bacterial population resistant to streptomycin and kanamycin on leaves of BG or DP samples collected from one or three month after planting.

Rapid Detection of Bacterial Pustule Disease on Soybean Employing PCR Technique with Specific Primers ANDI KHAERUNI; ANTONIUS SUWANTO; BUDI TJAHJONO; MEITY SURADJI SINAGA
HAYATI Journal of Biosciences Vol. 14 No. 2 (2007): June 2007
Publisher : Bogor Agricultural University, Indonesia

A rapid polymerase chain reaction (PCR)-based procedure was developed for detection of Xanthomonas axonopodis pv. glycines, the causal agent of bacterial pustule disease on soybean. A set of primers was designed from partial sequence of the pathogenicity gene of X. axonopodis pv. glycines strain YR32. Specific PCR product of 490 base pairs was produced from strains of X. axonopodis pv. glycines originally from Indonesia as well as from Taiwan. No other pathovars and bacterial species among those tested showed amplification product under optimized PCR conditions. Shaking infected soybean leaves in phosphate buffer saline during six hours was proved to be an essential in order to increase cell number of the bacterial. The procedure was applicable and reliable for detecting of pathogens in infected plant materials. The procedure was proved to be more effective than that of conventional detection and could be of great help for monitoring of pustule bacterial disease in the soybean fields. Key words: Xanthomonas axonopodis pv. glycines, bacterial pustule disease, rapid detection, PCR, specific primer

Potential Pseudomonas Isolated from Soybean Rhizosphere as Biocontrol against Soilborne Phytopathogenic Fungi ARI SUSILOWATI; ARIS TRI WAHYUDI; YULIN LESTARI; ANTONIUS SUWANTO; SURYO WIYONO
HAYATI Journal of Biosciences Vol. 18 No. 2 (2011): June 2011
Publisher : Bogor Agricultural University, Indonesia

Plants are liable to be attacked by soilborne fungal pathogens which are responsible to reduce plant growth and losses in yield. In Indonesia, indigenous soybeans’ rhizobacteria such as antifungal producing Pseudomonas sp. have not many been reported yet. Therefore, the potential of the Pseudomonas sp. as biocontrol agent should be deeply explored. The aim of this study was to screen the indigenous soybeans’ rhizobacteria Pseudomonas sp. that possessing biocontrol characters against soilborne mainly i.e. Sclerotium rolfsii, Fusarium oxysporum, and Rhizoctonia solani, in vitro and in planta. Eleven isolates identified Pseudomonas sp. CRB numbered by CRB-3, CRB-16, CRB-17, CRB-31, CRB-44, CRB-75, CRB-80, CRB-86, CRB-102, CRB-109, and CRB-112 were affirmed to be candidates of biocontrol agents toward the soilborne fungal pathogens. Pseudomonas sp. CRB inhibited growth of the pathogenic fungi approximately 11.1-60.0% in vitro. Among of them, 7 isolates were also produced siderophore, 2 isolates produced chitinase, and 4 isolates produced hydrogen cyanide. Seed coating with the Pseudomonas sp. CRB accomplished disease suppression in planta about 14.3-100% in sterile soil condition and 5.2-52.6% in non sterile soil condition. Consistency in high performance more than 30% of disease suppression in non sterile soil condition suggested that 5 isolates i.e. CRB-16, CRB-44, CRB-86, CRB-102, and CRB-109 isolates have great promising to be developed as biocontrol agents of soilborne pathogenic fungi.

Comparison of DNA Extraction Methods for Microbial Community Analysis in Indonesian Tempe Employing Amplified Ribosomal Intergenic Spacer Analysis CECILIA ANNA SEUMAHU; ANTONIUS SUWANTO; IMAN RUSMANA; DEDY DURYADI SOLIHIN
HAYATI Journal of Biosciences Vol. 19 No. 2 (2012): June 2012
Publisher : Bogor Agricultural University, Indonesia

Tempe fermentation involved complex microbial communities which are only revealed partially through culture dependent methods. Culture-independent methods would be potential to unravel this complex microbial fermentation. Appropriate DNA extraction is an essential tool to obtain reliable data from culture independent method. In this study, we employed two commercial DNA extraction methods to find the best one for microbial community characterization employing amplified ribosomal intergenic spacer analysis (ARISA). Our result showed that PowerFood Microbial DNA Isolation Kit-MOBIO (PFMDIK) is an excellent method for microbial DNA extraction from tempe. It gave high quantity and quality of DNA suitable for PCR amplification of 16S-23S rRNA intergenic spacer to yield a diverse and reproducible ARISA profile.

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.19.4.155

Xanthomonas oryzae pv. oryzae (Xoo), a causal agent of bacterial leaf blight (BLB), is one of the most important pathogens of rice. The effectiveness of ten Streptomyces spp. isolates in suppressing Xoo disease was assessed in planta and in vitro. In planta experiments were carried out in a greenhouse and arranged in a randomized completely block design (RCBD) with three replications. Twenty treatments were tested which included plants inoculated with both Streptomyces spp. and Xoo, and plants inoculated with only Streptomyces spp. Plants inoculated with Xoo and sprayed with a chemical bactericide, and plants inoculated with only Xoo served as positive controls, whereas plants not inoculated with either Streptomyces spp. or Xoo were used as negative controls. The results showed that the effect of endophytic Streptomyces spp. on BLB disease expressed as area under disease progress curve (AUDPC) was not significantly different to that on control plants (P > 0.05). However, plants inoculated with endophytic Streptomyces spp. were significantly taller and produced higher tiller number than control plants (P < 0.05). Streptomyces spp. isolate AB131-1 gave the highest plant height. In vitro studies on biocontrol mechanisms of selected Streptomyces spp. isolates showed that isolate LBR02 gave the highest inhibition activity on Xoo growth, followed by AB131-1 and AB131-2. Two isolates (AB131-1 and LBR02) were able to produce chitinase, phosphatase, and siderophore which included biocontrol characteristics. Morphological and colonization studies under SEM and light microscopy confirmed that the three isolates were endophytic Streptomyces spp. from different species. These studies found that the paddy plant which was inoculated with endophytic Streptomyces spp. AB131-1 and infected by Xoo could increase the height of plant and number of tillers.

Population Dynamics of Yeasts and Lactic Acid Bacteria (LAB) During Tempeh Production . EFRIWATI; ANTONIUS SUWANTO; GAYUH RAHAYU; LILIS NURAIDA
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Yeasts and lactic acid bacteria (LAB) are commonly found in tempeh and has been studied separately. However, comprehensive study on population dynamics of yeasts and LAB during tempeh production, including the effect of the difference tempeh production methods has not been reported. This research was aimed in studying the effect of different methods of tempeh production applied in tempeh home industry on the dynamics of yeast and LAB communities. Population dynamics was expressed as both changes of colony number and its phylotype. Samples were obtained from five stages and from two different methods of tempeh production. Observations were carried out employing colony counting on selective media followed by Terminal Restriction Fragment Length Polymorphism (T-RFLP). The study indicated that the population of yeasts and LAB during tempeh production were dynamic and different between these methods. Tempeh production methods affected the presence of yeasts and LAB population as indicated by difference in colony number, the number and diversity of phylotype, as well as number of specific phylotypes grew on plates.

Bacterial and Fungal Communities in Tempeh as Reveal by Amplified Ribosomal Intergenic Sequence Analysis CECILIA ANNA SEUMAHU; ANTONIUS SUWANTO; IMAN RUSMANA; DEDY DURYADI SOLIHIN
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Tempeh is an Indonesian traditional fermented food produced using Rhizopus as a starter culture. In practice, however, the starter culture as well as fermentation processes would yield a polymicrobial fermentation, which generated a unique tempeh flavor and texture. This condition makes Indonesian tempeh as one of the most complex fermented food, while at the same time would make it difficult to scale up tempeh production with uniform quality and consistency. The aim of this study was to compare a number of tempeh microbial communities employing Amplified Ribosomal Intergenic Sequence Analysis (ARISA). Fresh tempeh samples were obtained from tempeh producers in Java and Moluccas. 16S rRNA gene libraries and DNA sequencing were employed to analyze further the nature of bacterial diversity in two selected tempeh samples. The results of our study showed that different tempeh producer possessed different Bacterial ARISA (BARISA) or fungi ARISA (FARISA) profiles. However, BARISA profiles were found to be more discriminative than FARISA, and therefore BARISA would be more useful for tempeh genetic fingerprint or barcoding.

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.

Diversity of Protease-Producing Bacillus spp. From Fresh Indonesian Tempeh Based on 16S rRNA Gene Sequence Tati Barus; Linda Wati; . Melani; Antonius Suwanto; . Yogiara
HAYATI Journal of Biosciences Vol. 24 No. 1 (2017): January 2017
Publisher : Bogor Agricultural University, Indonesia

Tempeh is a type of traditional fermented food in Indonesia. The fermentation can be performed by Rhizopus microsporus as a main microorganism. However, Bacillus spp. is found in abundance in tempeh production. Nevertheless, information regarding the diversity of Bacillus spp. in tempeh production has not been reported yet. Therefore, the aim of this investigation was to study the genetic diversity of Bacillus spp. in tempeh production based on the 16S ribosomal RNA sequence. In this study, about 22 of 24 fresh tempeh from Jakarta, Bogor, and Tangerang were used. A total of 52 protease-producing Bacillus spp. isolates were obtained. Based on 16S ribosomal RNA results, all 52 isolates were identified to be similar to B. pumilus, B. subtilis, B. megaterium, B. licheniformis, B. cereus, B. thuringiensis, B. amyloliquefaciens, Brevibacillus brevis, and Bacillus sp. All the identified isolates were divided into two large clusters: 1) a cluster of B. cereus, B. thuringiensis, Bacillus sp., and B. brevis and 2) a cluster of B. pumilus, B. subtilis, B. megaterium, B. licheniformis, and B. amyloliquefaciens. Information about the Bacillus spp. role in determining the quality of tempeh has not been reported and this is a preliminary study of Bacillus spp. from tempeh.

ISOLASI DAN REGENERASI PROTOPLAS DARI MESOFIL DAUN KENT ANG (Solanum tuberosum L) DIHAPLOID Agus Purwito; G. A. Wattimena; Antonius Suwanto; Inez H.S. Loeddin Suharsono; Hajrial Aswidinnoor
Indonesian Journal of Agronomy Vol. 27 No. 1 (1999): Buletin Agronomi
Publisher : Indonesia Society of Agronomy (PERAGI) and Department of Agronomy and Horticulture, Faculty of Agriculture, IPB University, Bogor, Indonesia

The isolation and regeneration of potato (Solanum tuberosum L) protoplasts have been carried out. Mesophyl cell protoplast were isolated from two dihaploid cultivars of potato BF 15 and SVP 10 leaves used four different enzymes solution. Protoplast were cultured onto four different cultures media to increase plating efficiency. Calli were then transferred to ten different regeneration media. Using cellulose RS 0.5 % and pectolyase Y-23 0.05 % protoplast yield of both cultivars were improved. Medium VKM supplemented with 0.2 mg/l 2, 4-D, 1.0 mg/l NAA and 0.5 mg/l zeatin or 2iP were increase recovery of colonies from protoplast up to 5.9%. Regeneration medium containing zeatin did always produce more shoots than those of 2iP. Genotypes dependant regeneration frequencies have also been showed in this experiments

Co-Authors . EFRIWATI . Melani . NURHAIMI-HARIS A A Hermosaningtyas A A Hermosaningtyas, A A ADI YULANDI Agus PURWANTARA Agus Purwito Agustin Wydia Gunawan ALINA AKHDIYA RUSMANA AMARILA MALIK AMARILA MALIK Andi Khaeruni Andi Khaeruni ANJA MERYANDINI Anja Meryandini Anja Meryandini ARI SUSILOWATI ARIS TJAHJOLEKSONO Aris Tri Wahyudi ARTINI PANGASTUTI Asmini Budiani Basil J NIKOLAU BIBIANA W LAY Budi Tjahjono Budi Tjahjono BUDI TJAHJONO BUDI TJAHJONO C Hanny Wijaya Cahya Prihatna CAHYA PRIHATNA CECILIA ANNA SEUMAHU DEBORA HADISUSANTO Desniar . DIAH ISKANDRIATI DIANA ELIZABETH WATURANGI Djoko Santoso Dondin Sajuthi DWI SURYANTO Dyah Kusuma Anggraini Edi Husen EDI HUSEN Edi Husen ERNIN HIDAYATI ESTI PUSPITASARI Esti Utarti Eunice Limantara Felicia Kartawidjajaputra Ferymon Mahulette Ferymon Mahulette, Ferymon G. A. Wattimena Gayuh Rahayu Griselda Griselda Griselda, Griselda Hajrial ASWIDINNOO HAJRIAL ASWIDINNOOR Hariyatun, Hariyatun Iman Rusmana Inez H.S. Loeddin Suharsono It Jamilah IVAN HANJAYA JOANITA SADELI KATHARINA JESSICA Kusharyoto, Wien Lilis Nuraida Linda Wati Maggy T Suhartono Maggy T Suhartono MAGGY T. SUHARTONO Maggy T. Suhartono MAGGY T. SUHARTONO MAGGY THENAWIJAYA SUHARTONO Maria Indah Purnamasari Meity S. Sinaga MEITY SURADJI SINAGA MUHAMMAD ZAIRIN Jr. Ni Nyoman Tri Puspaningsih NISA RACHMANIA MUBARIK NURITA TORUAN-MATHIUS NURUL AINI PRIHASTO SETYANTO Prihasto Setyanto QURROTA Aâ€™YUN R. Sapto Hendri Boedi Soesatyo RAHAYU WIDYASTUTI Rasti Saraswati RASTI SARASWATI Rasti Saraswati RASTI SARASWATI RATIH DEWI HASTUTI RATNA SETYANINGSIH RATNA SETYANINGSIH RIDWAN AFFANDI ROB HARLING ROHANI CINTA BADIA GINTING Sheila Sutanto Sheila Sutanto, Sheila Suryo Wiyono SUSAN SOKA SUSILOWATI1 SUSILOWATI1 Tan Watumesa Agustina TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN Tati Barus TEMMY DESILIYARNI TRESNAWATI PURWADARIA VICKY MEICY WALTER ERDELEN Widanarni Widanarni Yogiara Yogiara YULIN LESTARI YUSMINAH HALA

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