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INDONESIA
Indonesian Journal of Biotechnology
Published by Universitas Gadjah Mada
ISSN : 08538654     EISSN : 20892241     DOI : -
Core Subject : Science,
Biochemistry, Genetics & Molecular Biology Immunology & microbiology Materials Science & Nanotechnology
The Indonesian Journal of Biotechnology (IJBiotech) is an open access, peer-reviewed, multidisciplinary journal dedicated to the publication of novel research in all aspects of biotechnology, with particular attention paid to the exploration and development of natural products derived from tropical—and especially Indonesian—biodiversity. IJBiotech is published biannually and accepts original research articles featuring well-designed studies with clearly analyzed and logically interpreted results. A strong preference is given to research that has the potential to make significant contributions to both the field of biotechnology and society in general.
Arjuna Subject : -
Articles 518 Documents
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Characterization and antibacterial activity of biosynthesized silver nanoparticles using Stachytarpheta jamaicensis leaf extract as bioreduction Sandy Samsul Bahry; Ari Susilowati; Artini Pangastuti
Indonesian Journal of Biotechnology Vol 30, No 1 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.88438

Abstract

Their nanometer size, broad spectrum, and antibacterial mechanism give silver nanoparticles (NPAg) the potential to be used to inhibit the growth and spread of methicillin‐resistant Staphylococcus aureus (MSRA) in medical devices. Synthesis of AgNPs from Stachytarpheta jamaicensis leaf extract is considered more environmentally friendly and has low production costs. The objective of this study was to investigate the properties and antibacterial potential of AgNPs by utilizing S. jamaicensis leaf extract at concentrations of 0.5%, 1.0%, and 1.5% in a 1 mM AgNO3 precursor. Nanoparticle characterization was performed on the AgNP supernatant obtained by centrifuging the synthesis solution at 100 rpm for 5 min. Characterization of the NPAg size was confirmed by surface plasmon resonance (SPR) analysis in UV‐Vis spectrophotometer, while the size distribution was measured by a particle size analyzer. Surface morphology was performed using scanning electron microscopy (SEM), and antibacterial activity was evaluated by the disc diffusion method. The results showed that AgNPs had the best nanoparticle characteristics in an extract concentration of 0.5%, the synthesis indicated by SPR at a wavelength of 434 nm and an average size of 80.67 nm. SEM analysis showed the formation of clusters at variations of 1.0% and 1.5%. The antibacterial activity of AgNPs against MRSA was the highest at 0.5%, with an inhibition zone diameter of 0.77 mm. The higher concentration of S. jamaicencis leaf extract increases the risk of cluster formation, which enlarges the AgNPs, while antibacterial activity was reduced.
Green synthesis of hyaluronic acid‐silver nanoparticles using microalgae extracts, with evaluation of antimicrobial activity Nur Imanina Abdullah Thaidi; Muhammad Azmirul Yusuf; Zahir Haizat Muhamad Zamani; Joo Shun Tan; Ahmad Badruddin Ghazali; Rosfarizan Mohamad; Helmi Wasoh; Murni Halim
Indonesian Journal of Biotechnology Vol 30, No 1 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.93346

Abstract

Silver nanoparticles (AgNPs) exhibit excellent antimicrobial activity but face challenges such as aggregation and reduced effectiveness when used alone. To address these limitations, green synthesis methods utilizing biological agents as reducing agents have been explored to develop AgNP nanocomposites. This study synthesized AgNPs by incorporating hyaluronic acid (HA) with microalgae extracts from Arthrospira platensis, Chlorella vulgaris, and Nannochloropsis sp., resulting in HA‐AgNP nanocomposites. The experimental parameters, including pH, extract concentration, temperature and synthesis time, were optimized for the preparation of the HA‐AgNPs nanocomposites. The best HA‐AgNPs nanocomposites, synthesized by A. platensis (HA‐SP‐AgNPs), exhibited a Z‐average size of 66.98 nm and polydispersity index (PDI) of 0.494, indicating uniformity and stability. FTIR analysis confirmed the presence of functional groups associated with AgNPs, HA and A. platensis, ensuring structural stability. A key finding of the study is that HA‐SP‐AgNPs demonstrated enhanced antimicrobial activity against bacteria such as Staphylococcus aureus, Escherichia coli, and Bacillus subtilis. Notably, the HA‐SP‐AgNPs were particularly effective against S. aureus and E. coli compared to AgNPs alone. The results underscore the critical role of HA in enhancing nanoparticle stability and antibacterial efficacy, positioning HA‐SP‐AgNPs as a promising antimicrobial agent.
Thrombolytic activity and antibacterial activity optimize staphylokinase enzyme production from Staphylococcus aureus Bilal Husam Jasim; Rand Jabbar Sattar; Maryam Dhary Kamel; Entesar Hussein Ali; Majid Sakhi Jabir; Maryam Hussein Saddi; Bassam Shaker Mahmood; Zahraa Abbas Fadhil
Indonesian Journal of Biotechnology Vol 30, No 1 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.95686

Abstract

Staphylokinase is a virulence factor produced by Staphylococcus aureus that enhances its ability to degrade proteins, contributing to tissue damage and increased bacterial invasiveness. This investigation studied staphylokinase production by S. aureus isolates obtained from wound and burn patients. Optimal conditions for enhancing staphylokinase production in Sato’s component were determined. These conditions included a carbon source (glucose), a nitrogen source (yeast extract), an inoculum size of 1%, an incubation temperature of 37 °C, and a pH of 7. Optimization of the medium components resulted in a significant increase in staphylokinase production (26.4 U/mL), representing a 2.23‐fold rise compared to production in the unoptimized Sato’s component. The crude staphylokinase enzyme exhibited thrombolytic activity against human blood clots, achieving 42% clot lysis. However, the crude enzyme showed no antibacterial activity against the tested bacteria (Streptomyces and Escherichia coli). This study represents the first report of optimized media for enhancing staphylokinase production from S. aureus. The research is significant because it establishes a method for improving the production of highly active staphylokinase from S. aureus, which has potential applications as a thrombolytic agent.
Black seed oil inhibits the migration of triple‐negative breast cancer cells and regulates MMP‐9 expression Ghina Lintangsari; Alma Nuril Aliyah; Gergorius Gena Maran; Adam Hermawan; Edy Meiyanto
Indonesian Journal of Biotechnology Vol 30, No 1 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.96177

Abstract

Black seed (Nigella sativa L.) is well known for its pharmacological properties, particularly its anticancer activity, with previous studies demonstrating its cytotoxic effects on several cell lines, such as A‐549, DLD‐1, MDA‐MB231, or HCT. This study aims to investigate the effects of black seed oil (BSO) on the migratory activity of 4T1 triple‐negative breast cancer (TNBC) cells, focusing on its bioactive properties. BSO was extracted via hydro‐distillation and analyzed for its phytochemical composition using gas chromatography–mass spectrometry (GC‐MS). The cytotoxicity of BSO and doxorubicin (Dox) was assessed using the MTT assay. The effects of BSO and Dox on cell migration and matrix metalloproteinase‐9 (MMP‐9) expression were evaluated using a scratch wound‐healing assay and gelatin zymography method respectively. Additionally, intracellular reactive oxygen species (ROS) levels were measured using 2’,7’‐dichlorofluorescin diacetate (DCFDA) staining. GC‐MS analysis identified p‐cymene as a major component of BSO, along with various other bioactive compounds. BSO exhibited low toxicity toward 4T1 cells, while its combination with Dox reduced cell viability in a dose‐dependent manner. Furthermore, BSO in combination with Dox inhibited cell migration and suppressed MMP‐9 expressions in 4T1 cells. BSO treatment also led to an increase in ROS levels. In conclusion, BSO exhibits potential anticancer properties by inhibiting cell migration and downregulating MMP‐9 expression, highlighting its possible therapeutic role in TNBC treatment.
Optimized bioethanol production from banana stem waste via simultaneous saccharification and fermentation with Saccharomyces cerevisiae Neil Priharto; Agung Setiawan; Dea Indriani Astuti
Indonesian Journal of Biotechnology Vol 30, No 1 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.98638

Abstract

Indonesia, one of the world’s largest banana producers, generates significant quantities of banana stem waste, leading to environmental challenges. This study explores the potential of converting this lignocellulosic biomass into bioethanol using a combination of steam pretreatment and simultaneous saccharification and fermentation (SSF) with Saccharomyces cerevisiae. The SSF process integrates enzymatic hydrolysis and fermentation, streamlining bioethanol production. The research applied the Taguchi method with an L9(34) orthogonal array to optimize key parameters, including enzyme concentration, particle size, temperature, and pH. Optimal conditions—5% enzyme concentration (v/v), 60 mesh banana powder, 35 °C and pH 5.00—yielded a maximum ethanol concentration of 9 g/L. Enzyme concentration and particle size were identified as critical factors in enhancing bioethanol yield. This study highlights the potential of banana stem waste as a sustainable resource for bioethanol production, contributing to waste reduction and renewable energy development.
Duku peel ethyl acetate extract as an adjunctive treatment of doxorubicin on triple negative breast cancer 4T1 cells Faaza Aulia Rahman; Aulia Nur Septiani; Desty Restia Rahmawati; Novia Permata Hapsari; Edy Meiyanto; Ratna Asmah Susidarti
Indonesian Journal of Biotechnology Vol 30, No 1 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.102112

Abstract

Triple‐negative breast cancer (TNBC) faces significant treatment challenges due to its resistance to chemotherapy and high‐rate metastatic occurrence. Adjunctive treatment is a promising approach to improve chemotherapy effectiveness while reducing toxicity on normal cells. Natural compounds of Lansium domesticum (duku) exhibit potential as adjunctive cancer treatments. This study aims to investigate the potential of duku peel extract (DPE) to be developed as an adjunctive agent. The cytotoxic activity of DPE against 4T1 cells was conducted through MTT assay, both in single and combination treatments. The anti‐migratory effect of DPE was examined by scratch wound healing assay. The molecular mechanism of DPE was confirmed using virtual screening via bioinformatics approaches, including protein target prediction and molecular docking. The results show that DPE has cytotoxic activity with an IC50 value of 47 µg/mL against the 4T1 cell line, in a 24‐hour treatment period. Interestingly, DPE not only had a good synergistic effect (mean CI value, i.e. 0.34), but also showed significant inhibition of cell migration with doxorubicin (Dox). Additionally, virtual bioinformatics screening approaches suggest the potential mechanism of DPE compound action by targeting CDC25B and TOP2A. Overall, DPE holds promise as an adjunctive treatment of Dox against 4T1 TNBC cells.
Identification and genetic study of lactic acid bacteria from intestine of domestic chickens (Gallus gallus domesticus) Ixora Sartika Mercuriani; Heru Nurcahyo; Bernadetta Octavia; Astuti Astuti; Adinda Yuslia Rukmanandita; Fita Nilasari
Indonesian Journal of Biotechnology Vol 30, No 2 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.85963

Abstract

The gastrointestinal tract is one of the habitats of lactic acid bacteria (LAB). This research aims to identify the LAB isolated from the intestines of domestic chickens (Gallus gallus domesticus) based on phenotypic and genotypic characteristics. The LAB was cultivated on enrichment media MRSA + CaCO3 1% and a selection of isolates based on the halo zone. The phenotypic character identification using morphological, physiological and biochemical tests was analyzed by similarity simple matching (SSM) and a dendrogram (MVSP 3.1). Genotypic identification was made by 16S rRNA gene sequences with PCR methods, sequencing and analysis using BLAST at www.ncbi.nlm.nih.gov. The results show that 87 isolates were isolated based on the halo zone. Phenotypic tests were performed on eight isolates (J6, J15, J18, J28, B11, B24, B25 and B26). The results show that four isolates have similarities with the genus Bacillus, two isolates with the genus Lactobacillus, and two with the genus Streptococcus. The identification based on the 16S rRNA gene of four selected isolates (J15, J28, B24 and B26) showed that J15 was identified as Bacillus cereus (98.56% similarity); J28 as Lactobacillus johnsonii (99.67%); B24 as Bacillus cereus (98.30%), and B26 as Streptococcus pluranimalium (96.68%).
Integrated omics for increasing plant production and health‐related nutrition under extreme conditions: The Indonesia perspective Enny Sudarmonowati; Alfia Aini Annur Azizi; Aviv Andriani; Sri Koerniati; Eny Ida Riyanti; Edy Listanto; Carla Frieda Pantouw; Bernadetta Rina Hastilestari; Decintya Jaya Maysha
Indonesian Journal of Biotechnology Vol 30, No 2 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.99156

Abstract

Despite Indonesia being a megadiverse country that provides germplasm for breeding to produce improved future varieties, significant threats are faced related to biodiversity extinction. Such threats, for example habitat degradation and climate change, which lead to extreme conditions, must be addressed as they have contributed to stresses at the molecular level and affect plant production and health‐related nutrition. Integrated omics approaches have been applied to address the problems, as well as to produce varieties with superior traits, which are critical factors in achieving improved plant production and better naturally derived human nutrition. The paper discusses the omics research agenda in Indonesia; Indonesian biodiversity of nutraceutical plants and how omics can increase its production. Besides, current progress of omics application in Indonesia, policies and regulations to enhance integrated omics research are elucidated. By applying these approaches in Indonesia, breeding for better traits to support human needs and improve health quality will be greatly accelerated in the future.
Optimization of methanol‐induced expression and His‐tag purification of Saccharomycopsis fibuligera R64 mutant α‐amylase in Pichia pastoris Clara Claudia; Elsa Destiana; Rista Awalia; Mia Tria Novianti; Taufik Ramdani Tohari; Dewi Astriany; Shinta Kusumawardani; Muhammad Yusuf; Umi Baroroh
Indonesian Journal of Biotechnology Vol 30, No 2 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.100845

Abstract

The Sfamy R64 α‐amylase mutant from Saccharomycopsis fibuligera was expressed in Pichia pastoris to explore its industrial potential. The gene encoding the mutant enzyme was cloned into the pPICZαA vector and transformed into P. pastoris SMD1168. Optimal expression was achieved at 1.5% methanol concentration, with the highest enzyme activity observed at 48 h, reaching 24.06 U/mL. The recombinant protein was purified using Ni‐Sepharose affinity chromatography in native and denaturing conditions. The native conditions retained higher protein integrity and activity, while the denaturing process resulted in partial degradation. Molecular dynamics (MD) simulations conducted to assess the structural stability of the His‐tagged Sfamy R64 α‐amylase mutant and its interaction with the maltose substrate. The simulation confirmed the stable binding of maltose in the active site and the solvent accessibility of the His‐tag, supporting its effectiveness in affinity chromatography. The RMSD, RMSF, and time‐evolution snapshots demonstrated that the protein remained structurally stable over 100 ns at an optimum temperature of 50 °C. The findings suggest that the Sfamy R64 mutant α‐amylase is a promising candidate for industrial applications, combining high expression yields, efficient purification, and stable enzyme‐substrate interactions. The results offer a strong basis for further optimization and large‐scale enzyme production.
Agrobacterium‐mediated transformation of yeast using a vir binary vector system Kiao Huio Yap; Shu Ting Chang; Wai Keat Toh; Pek Chin Loh; Boon Hoe Lim; Khomaizon Abdul Kadir Pahirulzaman; Chai-Ling Ho; Hann Ling Wong
Indonesian Journal of Biotechnology Vol 30, No 2 (2025)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.100929

Abstract

Agrobacterium‐mediated transformation (AMT) is a widely used genetic engineering tool for generating transgenic plants for crop improvement and functional genomics. Beyond plants, AMT has been successfully applied to non‐plant organisms, further expanding its utility. Given their broad applications, enhancing AMT systems to improve their usability, simplicity, and efficiency is highly desirable. In this study, we developed a novel AMT system, the vir binary vector system, comprising the following core components: the binary vector pG103‐GDE‐1 and the miniaturized helper tumor‐inducing (Ti) plasmid pRIDE101, together with the auxiliary replication helper plasmid pSoup. Yeast was used as a model organism to evaluate its functionality in stable transformation, with the neomycin phosphotransferase II (NptII) gene serving as a selectable marker. The system’s functionality was assessed by comparing its transformation frequency to that of the widely used pGWB1 binary vector system. The results demonstrate that the vir binary vector system achieved a trans‐ formation frequency of 0.76 × 10‐6, approximately 75 percent of that of pGWB1 (1.01 × 10‐6). Polymerase chain reaction (PCR) analyses confirmed the presence of the transgene in yeast transformants. These findings validate the functionality of the vir binary vector system and highlight the need for further optimization to enhance its efficiency for broader app

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