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All Journal HAYATI Journal of Biosciences Majalah Kedokteran Bandung Indonesian Journal of Pharmaceutical Science and Technology Indonesian Journal of Biotechnology JOIV : International Journal on Informatics Visualization Chimica et Natura Acta Jurnal Biologi Tropis ANNALES BOGORIENSES Journal of Tropical Crop Science Aquacultura Indonesiana Edsence: Jurnal Pendidikan Multimedia JPPIPA (Jurnal Penelitian Pendidikan IPA) Annales Bogorienses
SONY SUHANDONO
Sekolah Ilmu dan Teknologi Hayati, Institut Teknologi Bandung, Bandung
Agriculture, Biological Sciences & Forestry Humanities Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Computer Science & IT Earth & Planetary Sciences Education Environmental Science Immunology & microbiology Languange, Linguistic, Communication & Media Materials Science & Nanotechnology Medicine & Pharmacology Social Sciences Other

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Isolation and Molecular Identification of Endophytic Bacteria From Rambutan Fruits (Nephelium lappaceum L.) Cultivar Binjai Suhandono, Sony; Kusumawardhani, Meirina Kartika; Aditiawati, Pingkan
HAYATI Journal of Biosciences Vol. 23 No. 1 (2016): January 2016
Publisher : Bogor Agricultural University, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (505.386 KB) | DOI: 10.4308/hjb.23.1.39

Abstract

Interactions between plants and endophytic bacteria are mutualistic. Plant provides nutrient for bacteria, and bacteria will protect the plant from pathogen, help the phytohormone synthesis and nitrogen fixation, and also increase absorption of minerals. These bacteria called plant growth-promoting bacteria. The aim for this study is to identify endophytic bacteria on rambutan (Nephelium lappaceum L.) cultivar Binjai with 16S rRNA. Sequencing results showed that the bacteria is derived from genus Corynebacterium, Bacillus, Chryseobacterium, Staphylococcus and Curtobacterium,which suspected play a role as plant growth-promoting bacteria.
Construction of Binary Vector With Wound Inducible Promoter for HbsAg Expression: Development of Plant-Based Edible Hepatitis B Vaccine from Indonesian Isolate Suhandono, Sony; Giri-Rachman, Ernawati A.; Zainuddin, Ima M.; Utari, Putri Dwi; Supraba, Apsari; Estiati, Amy
Annales Bogorienses Vol. 11 No. 1 (2007): Annales Bogorienses
Publisher : BRIN

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Abstract

Hepatitis B is a serious infectious disease in the third world countries including Indonesia. Vaccination is the most effective way to prevent the spread of the disease; therefore the demand for HBV vaccine is high. In order to produce more vaccine at lower cost, transgenic plant can be chosen to express the vaccine with the above criteria. Several researches were successfully producing transgenic plants expressing HBsAg that formed virus-like particles and induced immune response in human. However, HBsAg expression in transgenic plant needs to be improved especially on gene expression control system. Here, we describe the construction of HBsAg structural gene under the control of wound inducible promoter, MeEF1 promoter from Manihot esculenta Crantz. The HBsAg gene was amplified using PCR from HBV genome isolated from an Indonesian patient. The gene was subsequently fused with VSPaS signal peptide, which targeted the reticulum endoplasm of plant cell. The construct was cloned into binary expression vector for Agrobacterium plant transformation in near future.
Bioinformatic Analysis in Designing Mega-primer in Overlap Extension PCR Cloning (OEPC) Technique Mardalisa, -; Suhandono, Sony; Yanti, Novi; Rozi, Fazrol; Nova, Fitri; Primawati, -
JOIV : International Journal on Informatics Visualization Vol 5, No 2 (2021)
Publisher : Society of Visual Informatics

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.30630/joiv.5.2.459

Abstract

Bioinformatics has developed into an application tool for basic and applied research in the biomedical and biotechnology field. Polymerase Chain Reaction (PCR) is a common technique in the molecular area that has always involved bioinformatics science. PCR cloning techniques such as TA cloning and PCR-mediated cloning exhibit complex processes with low success rates. One easy, effective, and practical solution is to use a mega-primer with the Overlap Extension PCR Cloning (OEPC) technique. The success of PCR cloning using the mega-primer design in the OEPC technique is strongly influenced by the characteristics of the mega-primer used. Knowledge of mega-primer characteristics is one of the important factors in the success of PCR cloning. The design process for the mega-primer str promoter was characterized based on the principle of a genetic algorithm using the web-based bioinformatics tools such as ClustalW, NetPrimer, and BLAST. The success of the mega-primer construction in producing recombinant pSB1C3 vector has been confirmed by the sequencing method and the function of the reporting protein (AmilCP). DNA analysis shows a 100 % homologous sequence on the str promoter, while  E. coli colonies successfully express the purplish-blue color. Mega-primer characters can save costs and time of the research by maintaining the primer parameters that provide optimal values and increase the success value of PCR cloning via bioinformatics software. Hence, implications on biological problems, especially using DNA and amino acid sequences, could solve rapidly.
Application and Evaluation of The Loop Mediated Isothermal Amplification (LAMP) Method to Detect Wild Boar in Meatball Wati, Linda; Suhandono, Sony
Jurnal Biologi Tropis Vol. 25 No. 4b (2025): Special Issue
Publisher : Biology Education Study Program, Faculty of Teacher Training and Education, University of Mataram, Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.29303/jbt.v25i4b.10974

Abstract

The content of meat used in processed meat products such as meatballs must be verified to ensure that the food is halal. Generally, meatballs are made from beef, chicken, and fish. However, some fraudulent practices often occur in the field, which is mixing meatballs with other meats such as wild boar.  DNA-based methods can be used because they can sensitively identify the type of meat in meatballs, such as the Loop Mediated Isothermal Amplification (LAMP) method. The LAMP primers designed in this study was tested on DNA isolated from samples of meatballs containing wild boar, chicken, beef, lamb, and rat meat. Positive results were visualized using SYBR green dye, with positive results showing a color change from orange to green. The objective of this study was to design primers capable of detecting wild boar meat DNA in meatballs using simple equipment. The specific wild boar primers successfully detected wild boar meat DNA from meatballs, but the results often showed false positives. Thus, the primers designed in this study are not yet stable and applicable for use in wild boar DNA testing. The combination of the LAMP method with other methods is expected to reduce false positives from the LAMP method.
Co-Authors Ahmad Faizal Anandayu Pradita Ari Widodo Diah - Kusumawaty DWIYANTARI, DWIYANTARI DWIYANTARI, DWIYANTARI Edhyana Sahiratmadja Elfahmi Elfahmi, Elfahmi Ernawati A. Giri-Rachman Estiati, Amy Estiati, Amy Fazrol Rozi, Fazrol FENNY MARTHA DWIVANY Firas Atqiya Fitri Nova, Fitri Hamami Alfasani Dewanto Hamdani, Anti Damayanti HERLINA, LENI HERLINA, LENI Herman Susanto Ihsani, Nisa Iskandar, Hayati Minarsih Khairunnisa Sy Khairunnisa W.R., Riesa KRISTIAWAN, ONIE KRISTIAWAN, ONIE Kusumawardhani, Meirina Kartika Kusumawardhani, Meirina Kartika Lestary, Refiana Linda Wati Mardalisa, - Muhammad Rizqi Sholahuddin Novi Yanti Nugroho, Syarul Pasarai, Usman Pasarai, Usman PINGKAN ADITIAWATI Primawati, - Rachman, Ernawati A.Giri RIZKITA RACHMI ESYANTI Rohmat, Riesa K. W Rohmat, Riesa K. W SARI, CUT NANDA Sari, Cut Nanda Suliandari, Ken Sawitri Suliandari, Ken Sawitri Supraba, Apsari Supraba, Apsari Syafrizal Syafrizal TATI KRISTIANTI Usman Usman Utari, Putri Dwi Utari, Putri Dwi Widyaningrum, Dwiyantari Zainuddin, Ima M. Zainuddin, Ima M.