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All Journal HAYATI Journal of Biosciences Jurnal Agronomi Indonesia (Indonesian Journal of Agronomy) Jurnal Ilmu Pertanian Indonesia 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 International Journal of Oil Palm Annales Bogorienses
Antonius Suwanto
Department Of Biology, Faculty Of Mathematics And Natural Science, IPB University, Bogor, Indonesia
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Civil Engineering, Building, Construction & Architecture Control & Systems Engineering Decision Sciences, Operations Research & Management Earth & Planetary Sciences Economics, Econometrics & Finance Education Engineering Environmental Science Immunology & microbiology Materials Science & Nanotechnology Mathematics Medicine & Pharmacology Physics Veterinary

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Komunitas Mikrob pada Hasil Fermentasi Nata De Coco Berdasarkan Marka Random Amplified Polymorphic DNA Raden Ajie Syahbarie; Antonius Suwanto; Aris Tri Wahyudi
Jurnal Ilmu Pertanian Indonesia Vol. 28 No. 4 (2023): Jurnal Ilmu Pertanian Indonesia
Publisher : Institut Pertanian Bogor

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18343/jipi.28.4.620

Abstract

Traditional nata de coco fermentation often results in inconsistent nata thickness. From the producer's perspective, thin nata sheets are detrimental because most fermentation media will be wasted. The main cause of this condition may be that the microbial population in the starter culture is different in each batch. It is necessary to observe the cultured microbial community on various qualities of available thick and thin nata to design a better nata de coco starter culture. This study showed thick nata had more Komagataeibacter intermedius bacteria (pellicle forming) than thin nata. In traditional nata fermentation, K. intermedius always coexists with other microbes from the bacteria and yeast groups. Random Amplified Polymorphic DNA (RAPD) analysis indicated that the genetic diversity of bacteria was higher than that of the yeast group. Keywords: dendrogram of relationship, fermented food, microbial genetic diversity, nata de coco
Microbiological and Physicochemical Characteristics of Inasua Traditional Fish Fermented from Maluku Islands Ferymon Mahulette; Nisa Rachmania Mubarik; Antonius Suwanto; Widanarni Widanarni
Biosaintifika: Journal of Biology & Biology Education Vol 10, No 2 (2018): August 2018
Publisher : Department of Biology, Faculty of Mathematics and Sciences, Semarang State University . Ro

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15294/biosaintifika.v10i2.13537

Abstract

Based on the raw materials, inasua consists of two types namely inasua with sap and inasua without sap. Research of inasua with sap has never been done and considered as the novelty of this research. The sensory characteristics and shelf life of two types of inasua were different. The research aims to analyze the microbiological and physicochemical characteristics of two types of inasua during fermentation. The microbiological analyzes include the total number of bacteria and lactic acid bacteria, while physicochemical analyzes include temperature, pH, water activity, proximate analysis, salt, alcohol, histamine, amino acids and fatty acids contents. The total number of bacteria and lactic acid bacteria has decreased during fermentation. At the end of the fermentation the total number of bacteria and lactic acid bacteria inasua with sap were 3.2x107 CFU/g and 3.0x107 CFU/g, while inasua without sap were 5.4x105CFU/g and 3.5x105 CFU/g, respectively. The moisture, protein, alcohol contents and water activity decreased, otherwise the salt, fat, ash, amino acids, and fatty acids contents increased during fermentation. Generally, microbiological and physicochemical characteristics of inasua with sap was better than inasua without sap. The results of this research to improve the quality of this fermentation product in the future.
Identifikasi Aktinomiset Selulolitik dan Xilanolitik Indigenous Utarti, Esti; Suwanto, Antonius; Suhartono, Maggy T; Meryandini, Anja
BERKALA SAINSTEK Vol 8 No 1 (2020)
Publisher : Universitas Jember

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.19184/bst.v8i1.15941

Abstract

Lignoselulosa merupakan penyusun utama dinding sel tumbuhan, sehingga keberadaannya berlimpah di alam. Aktinomiset indigenous yang memiliki aktivitas selulolitik dan xilanolitik ekstraseluler berpeluang sebagai agens biokonversi limbah berlignoselulosa menjadi produk bermanfaat. Penelitian ini bertujuan untuk mendapatkan aktinomiset potensial yang memiliki aktivitas selulolitik dan xilanolitik. Penelitian ini diawali dari isolasi dan pemurnian aktinomiset indigenous asal lahan perkebunan kelapa sawit dan Taman Nasional Bukit Duabelas Jambi.Tahapan selanjutnya adalah penapisan aktivitas selulolitik dan xilanolitik dari aktinomiset, uji pertumbuhan aktinomiset pada mikrokristalin selulosa, dan identifikasi aktinomiset potensial berdasarkan karakter morfologi, fisiologi dan biokimia. Hasil penelitian menunjukkan bahwa aktinomiset isolat S2 yang diisolasi dari lahan perkebunan kelapa sawit mempunyai aktivitas selulolitik dan xilanolitik lebih baik dari keempat isolat lain. Aktinomiset isolat S2 juga mampu tumbuh secara lebih baik pada mikrokristalin selulosa. Aktivitas selulolitik, xilanolitik dan kemampuan tumbuh pada mikrokristalin selulosa dari aktinomiset isolat S2 menunjukkan potensinya sebagai agens pendegradasi material belignoselulosa. Berdasarkan identifikasi morfologi, fisiologi dan biokimia, aktinomiset isolat S2 tergolong dalam genus Streptomyces.
Bacterial and Fungal Communities in Tempeh as Reveal by Amplified Ribosomal Intergenic Sequence Analysis SEUMAHU, CECILIA ANNA; SUWANTO, ANTONIUS; RUSMANA, IMAN; SOLIHIN, DEDY DURYADI
HAYATI Journal of Biosciences Vol. 20 No. 2 (2013): June 2013
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (142.073 KB) | DOI: 10.4308/hjb.20.2.65

Abstract

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.
Effect of Synthetic Fertilizer on Diazotrophic Bacteria in Secondary Forest and Oil Palm Soils in Central Kalimantan Agustina, Delia; Purnamasari, Maria Indah; Karmawan, Listya Utami; Suwanto, Antonius
HAYATI Journal of Biosciences Vol. 32 No. 1 (2025): January 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.1.106-116

Abstract

Soil microorganisms, especially diazotrophic bacteria, are vital for ecosystem sustainability, significantly contributing to nitrogen cycling and biodiversity conservation. Understanding the impact of different land-use practices on soil microorganisms, especially synthetic fertilizer addition, is essential for sustainable agriculture. This study compares soil properties, bacterial densities, and responses to fertilization in secondary forest soils and adjacent oil palm plantation soils located in PT Kerry Sawit Indonesia, Central Kalimantan. A greenhouse experiment was conducted using both secondary forest and oil palm plantation soils to evaluate the impacts of different synthetic fertilizers on nitrogen-fixing bacteria and soybean agronomic performance. Total soil bacteria and diazotrophic bacteria, essential for nitrogen fixation, were analyzed through microbiological assays and qPCR focusing on the nifH gene. Our findings show that oil palm plantation soils had higher levels of nitrogen, phosphate, and nitrate, while secondary forest soils had a higher abundance of diazotrophic bacteria. Furthermore, excessive nitrogen fertilization was found to reduce microbial density, negatively impacting plant sustainability, highlighting the importance of customized fertilizer management. The study highlights the intricate connections between land-use practices and microbial populations, providing valuable insights for balancing agricultural productivity with ecological sustainability.
Effect of Multiple Gene Copy Number of Bacterial Lipase to Increase Lipase Production in Pichia pastoris Puspitasari, Esti; Rustam, Yepy Hardi; Satya, Andreas Adhi; Suwanto, Antonius; Wahyudi, Aris Tri; Astuti, Rika Indri
HAYATI Journal of Biosciences Vol. 32 No. 2 (2025): March 2025
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.32.2.310-319

Abstract

Bacterial lipase poses potential challenges when expressed in eukaryotic protein expression systems such as Pichia pastoris. This research aims to increase extracellular T1.2RQ lipase secretion (free lipase) with multiple gene copy number strategies in Pichia pastoris and it was first performed on lipase from Geobacillus stearothermophilus T1.2. In this study, the T1.2RQ lipase gene from Geobacillus stearothermophilus T1.2 was expressed in Pichia pastoris GS115 through a strategy involving multiple copies of lipase, resulting in increased lipase activity. Three copies of the lipase gene in pPIC9K_T1.2RQ(3x) recombinant plasmid were integrated into the genome of Pichia pastoris GS115, and quantitative analysis using qPCR technique confirmed that the GS115 transformant strain contained six copies of T1.2RQ gene, indicating two integration events. Lipase activity measurement showed that the GS115/T1.2RQ(6x) strain exhibited a 111% increase compared to that containing a copy of the T1.2RQ gene. SDS-PAGE and Zymogram results showed a protein band with a size of 43kDa. Qualitative analysis in LA+TBN media of all strains containing the T1.2RQ gene showed clear zones. Lipase production in flask fermentation took at least 120 hours to produce the best lipase activity. Thus, strategies with multiple copy numbers of gene lipase have significantly increased the expression of the bacterial lipase gene in Pichia pastoris GS115.
Microbiome Structure Analysis of Oil Palm Pollinator Elaeidobius kamerunicus (Coleoptera; Curculionidae) Arina Amalia Putri; Maria Sugiharti; Alfred Michael; Anja Meryandini; Antonius Suwanto
HAYATI Journal of Biosciences Vol. 30 No. 6 (2023): November 2023
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.4308/hjb.30.6.1155-1166

Abstract

The pollination of oil palm by Elaeidobius kamerunicus leads to an increase of over 70% in countries such as India, Malaysia, and Indonesia. The impact of insect-microbiome interactions on the pollination activity and fitness of E. kamerunicus is unknown. Our study aimed to gain insight into the bacterial communities of E. kamerunicus from two different sites with high and low fruit set percentages, using culturable and Terminal Restriction Fragment Length Polymorphism (T-RFLP) analysis. Our result revealed distinctive T-RFs profiles in E. kamerunicus from two different sites. Additionally, the culturable approach showed that some of this microbiome were found only in the weevil population from the high fruit set site. Our findings suggest that these bacteria could contribute to the fitness of E. kamerunicus, leading to a higher fruit set in oil palm plantations.
A Rapid Inoculation Method for Infection of Ganoderma in Oil Palm Maria Indah Purnamasari; Delia Agustina; Cahya Prihatna; Antonius Suwanto
International Journal of Oil Palm Vol. 1 No. 1 (2018): January 2018
Publisher : Indonesian Oil Palm Society /IOPS (Masyarakat Perkelapa-sawitan Indonesia /MAKSI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.35876/ijop.v1i1.1

Abstract

Basal stem rot (BSR) is a major disease of oil palm plantation caused by pathogenic fungus Ganoderma boninense. To overcome the disease, development of resistant or tolerantoil palms is crucial for susta inable production of palm oil. Thus a reliable and rapid method to assess resistance of oil palm to BSR is important. Here we report an inoculation technique designated as mycelium inoculation technique. This method is faster and simpler compared to the traditional technique using rubber wood block. The technique that we developed results in consistency of infection and disease can be evaluated as early as two weeks after inoculation with G. boninense. Furthermore, this method is also able to di?erentially assess resistant and susceptible palm seedlings to BSR. The results show that this new inoculation technique can be used as a routine method to infect oil palm seedlings and can be utilised for development of resistant cultivar of oil palm to G. boninense.
Prospecting of Mannan Degrading Bacteria on Treating Palm Kernel Meal Ludovika Jessica Virginia; Yepy Hardi Rustam; Griselda Herman Natadiputri; Antonius Suwanto
International Journal of Oil Palm Vol. 1 No. 1 (2018): January 2018
Publisher : Indonesian Oil Palm Society /IOPS (Masyarakat Perkelapa-sawitan Indonesia /MAKSI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.35876/ijop.v1i1.3

Abstract

Palm kernel meal (PKM) is one of the most abundant by-products from oil palm industries. Although PKM can be used as ruminant feed but unfortunately it can not be applied directly as chicken feed due to its complex structure and lack of mannan degrading enzyme in chicken. Manan is a complex molecule composed of linear mannan, glucomannan, galactomannan, and galactoglucomannan and most nutrition contained in PKM was trapped in mannan structure. To increase the economic value of PKM, utilization of mannan degrading enzyme in pretreatment process of PKM before applying as chicken feed is required. We report here that isolation of potential mannanase as well as its prospective toward application in PKM was successfully conducted in this study. Mannanase producing bacteria (CK7) harboring wild type ?-mannanase activity at 48.03 U mL-1 was obtained and identifed as Bacillus subtilis isolate qd386 (accession number EF473134) with 96.7% pairwise identity through 16s amplifcation. Over expression in Pichia pastoris system by pPICZ?A as vector and KM71 as host (P-CK7) improved its activity into 4207.56 U mL-1 and 5000 U mL-1 within fed batch fermentation at 7.5 L and 500 L, respectively. Recombinant manCK7 generated from P-CK7 was reported as the major expressed extracellular protein through SDS-PAGE in this study, thus make it more benefcial and attractive for further application study due to reduction of cell breaking process. Preliminary study on manCK7 application to PKM showed a promising result with a signifcant sugar released observed between PKM which treated with bu?er, commercial enzyme, and manCK7 for 89 µmole, 460.6 µmole, and 518.2 µmole, respectively.
EgMLP1 Gene Expression in Oil Palm Ramet Infected with Ganoderma boninense Yasinta Ratna Esti Wulandari; Felicia Felicia; Arild Ranlym Arifin; Antonius Suwanto
International Journal of Oil Palm Vol. 1 No. 2 (2018): May 2018
Publisher : Indonesian Oil Palm Society /IOPS (Masyarakat Perkelapa-sawitan Indonesia /MAKSI)

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

Oil palm (Elaeis guineensis) is an important crop commodity in Indonesia. However, the effort to increase its production is hindered by basal stem rot (BSR), a devastating disease caused by Ganoderma boninense. The early symptoms of G. boninense infection cannot be observed with naked eyes. It can only be observed at the later stage of the infection. By the time the symptoms appear, the palm is beyond recovery. Hence an early detection technique is essential for effective management of BSR in oil palm. The aim of this research is to analyze and compare the gene expression profile of a defense-related gene encoding early methionine-labeled polypeptide (EgEMLP1) by using quantitative reverse-transcription PCR between the leaves of untreated and treated oil palm cultures with G. boninense. First, G. boninense was isolated and inoculation on oil palm cultures, then RNA isolation was conducted on both oil palm cultures from 3 to 7 weeks post infection (wpi) and purified RNA was used for cDNA synthesis. Finally, EgEMLP1 gene expression was measured using qRT-PCR. The result showed that the expression of EgEMLP1 gene had increased 5.65, 15.66 and 17.96 fold at 3, 5 and 7 wpi compared to those of controls. Furthermore, the result also showed that direct infection method on in vitro oil palm cultures shorten the time needed to infect G. boninense to oil palm compared to rubber wood block method. With less process, direct inoculation method can be an alternative in gene expression in oil palm ramets infected with G. boninense research and up-regulated EgEMLP1 gene expressed has the potential to be developed as a biomarker for early detection of G. boninense infection.
Co-Authors . EFRIWATI . Melani . NURHAIMI-HARIS A A Hermosaningtyas A A Hermosaningtyas, A A ADI YULANDI Agus PURWANTARA Agus Purwito Agustin Wydia Gunawan Agustina, Delia Aini Nurul Alfred Michael ALINA AKHDIYA RUSMANA Amarila Malik Andi Khaeruni Andi Khaeruni Andreas Adhi Satya Andreas Adhi Satya Anja Meryandini ARI SUSILOWATI Arifudin Rafif , Muhammad Ghildan Arild Ranlym Arifin Arina Amalia Putri Aris Tjahjoleksono Aris Tri Wahyudi ARTINI PANGASTUTI Asmini Budiani Basil J NIKOLAU BIBIANA W LAY Budi Tjahjono Budinarta, Widyah C Hanny Wijaya CAHYA PRIHATNA Cahya Prihatna Cahya Prihatna CECILIA ANNA SEUMAHU CECILIA ANNA SEUMAHU DEBORA HADISUSANTO Delia Agustina Desniar - - DIAH ISKANDRIATI DIANA ELIZABETH WATURANGI Djoko Santoso Dondin Sajuthi DWI SURYANTO Dyah Kusuma Anggraini Edi Husen Edi Husen EDI HUSEN ERDELEN, WALTER ERNIN HIDAYATI Esti Puspitasari ESTI PUSPITASARI Esti Utarti Eunice Limantara EVELINE AYU Felicia Felicia Felicia Kartawidjajaputra Ferymon Mahulette Ferymon Mahulette Ferymon Mahulette, Ferymon G. A. Wattimena Gayuh Rahayu Griselda Griselda Griselda Herman Natadiputri Griselda, Griselda Hajrial ASWIDINNOO HAJRIAL ASWIDINNOOR Hariyatun Hariyatun Hariyatun, Hariyatun Hariyatun, Hariyatun HARLING, ROB HENAWIDJAJA, MAGGY T Hermosaningtyas, Anastasia Aliesa Iman Rusmana Inez H.S. Loeddin Suharsono It Jamilah IVAN HANJAYA JOANITA SADELI Jr., Muhammad Zairin KATHARINA JESSICA Kusharyoto, Wien Kusharyoto, Wien Lilis Nuraida Linda Wati LISTYA UTAMI KARMAWAN Ludovika Jessica Virginia Maggy T Suhartono Maggy T Suhartono MAGGY T. SUHARTONO Maggy T. Suhartono MAGGY THENAWIJAYA SUHARTONO Maria Dita Febriani Lumban Gaol Maria Indah Purnamasari Maria Indah Purnamasari Maria Indah Purnamasari Maria Sugiharti Meity S. Sinaga MEITY SURADJI SINAGA Muhamad Azwar Syah Muhammad Agus Muljanto Ni Nyoman Tri Puspaningsih NISA RACHMANIA MUBARIK NURITA TORUAN-MATHIUS PRIHASTO SETYANTO Prihasto Setyanto Prihatna , Cahya Puspitasari, Esti QURROTA A’YUN R. Sapto Hendri Boedi Soesatyo Raden Ajie Syahbarie RAHAYU WIDYASTUTI RASTI SARASWATI Rasti Saraswati RASTI SARASWATI Rasti Saraswati RATIH DEWI HASTUTI RATNA SETYANINGSIH RATNA SETYANINGSIH RIDWAN AFFANDI Rika Indri Astuti ROHANI CINTA BADIA GINTING Rustam, Yepy Hardi Satya, Andreas Adhi Sheila Sutanto Sheila Sutanto, Sheila Sumardi Suryo Wiyono SUSAN SOKA SUSILOWATI1 SUSILOWATI1 Tan Watumesa Agustina TARUNI SRI PRAWAST MIEN KAOMINI ANY ARYANI DEDY DURYADI SOLIHIN Tati Barus URWADARIA, T RESNAWATI P VICKY MEICY WIDANARNI WIDANARNI Widanarni Widanarni Wien Kusharyoto Yasinta Ratna Esti Wulandari Yepy Hardi Rustam Yogiara Yogiara YULIN LESTARI Yusminah Hala