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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.
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Articles 7 Documents
 1 
Search results for , issue "Vol 29, No 2 (2024)" : 7 Documents clear
Performance of salt‐bridge microbial fuel cell (SB‐MFC) with various microorganism cultures on the generation of electricity from tofu wastewater Dani Permana; Herlian Eriska Putra; Oman Rohman; Mahyar Ependi; Djaenudin Djaenudin
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.80928

Abstract

A suitable wastewater treatment system is required due to the high organic compound content in tofu wastewater, which can harm the environment. Biological treatment methods are effective for treating tofu wastewater due to its characteristics. Microbial fuel cells (MFCs) represent one such biological treatment option, effectively removing organic contaminants while generating low‐power electricity through bioenergetic reactions. In MFCs, microorganisms are used as biocatalysts to degrade the organic compounds present in wastewater. This study aimed to assess the efficacy of Salt‐bridge microbial fuel cells (SB‐MFC) using various acclimatized microbe cultures for reducing organic compounds and generating energy from tofu wastewater. Tofu wastewater was sterilized prior to introduction into the reactor. Additional microbes, including the native microbe consortium from tofu wastewater, Escherichia coli, Saccharomycopsis fibuligera, and a mixed culture of E. coli and S. fibuligera, were then introduced as biocatalysts. Carbon electrodes were utilized as both the anode and cathode. The results indicate that the mixed culture of E. coli and S. fibuligera significantly reduced COD and BOD5 levels, with removal rates of 82.74% and 76.53%, respectively, after 48 h. Furthermore, the culture generated a voltage of 676 mV, a current of 2.53 mA, a power density of 428 mWatt/m2, and 4.789×10‐2 kWh of energy. This study contributes to the advancement of SB‐MFC by utilizing wastewater and a combination of bacteria and yeast as biocatalysts.
The effect of non‐contact electro capacitive cancer therapy on DMBA‐induced rat breast tumor angiogenesis Endah Sri Palupi; Bambang Retnoaji; Pudji Astuti; Firman Alamsyah; Warsito Purwo Taruno; Rarastoeti Pratiwi
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.87396

Abstract

Alternating Current‐Electric Field (AC‐EF) generated by non‐contact Electro Capacitive Cancer Therapy (ECCT) can inhibit breast tumor growth. However, its effect on breast tumor angiogenesis remains unclear. Since angiogenesis is involved in normal physiology and tumors, it is crucial to investigate the effect of ECCT on normal and breast tumor angiogenesis. Samples consisting of rat breast normal tissue and breast tumors were obtained from the biobank, with tumors induced by 7,12‐dimethylbenz (α) anthracene (DMBA) at 20 mg/kg BW 10 times over five weeks. Meanwhile, ECCT exposure of 150 kHz and 18 Vpp was conducted for 21 days at 10 hours/day. The qPCR method was used for gene expression analysis, while immunohistochemistry used antibody anti‐Vegfr2 that was used to detect Vegfr2 protein expression. Data were analyzed using one‐way ANOVA and t‐tests performed with GraphPad Prism ver.9.5.1 software. The results revealed no impact of ECCT exposure on normal breast tissue angiogenesis. Interestingly, there was a significant increase in the number of blood vessels following the upregulation of Vascular Endothelial Growth Factor Receptor‐2 (Vegfr2) as opposed to its primary signal, Vascular Endothelial Growth Factor‐A (Vegfa). Furthermore, gene expression of Hypoxia Inducible Factor‐1α (Hif1α) and Specificity Protein‐1 (Sp1) was similar to that of the control group, suggesting that Vegfr2‐dependent angiogenesis regulates ECCT‐treated breast tumor angiogenesis.
Elimination of ineffective inorganic salt component in medium for indole‐3‐acetic acid synthesis by Serratia plymuthica UBCF_13 and its effect on the growth of chili seedlings Liza Aulia Yusfi; Djong Hon Tjong; Irawati Chaniago; Muhamad Irsyad; Jamsari Jamsari
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.88774

Abstract

Indole‐3‐acetic acid (IAA) is an essential phytohormone that controls a variety of plant growth mechanisms. Bacteria can produce IAA to stimulate plant growth, with its production influenced by the culture conditions. Serratia plymuthica UBCF_13 is recognized as an IAA‐producing bacterium, exhibiting maximum IAA production in a yeast medium comprising yeast extract, sucrose, K2HPO4, MgSO4, NaCl, and CaCO3. However, prior studies optimizing individual inorganic salt components indicated minimal impact on IAA synthesis within this medium. This study aimed to eliminate the unnecessary inorganic salt components and the medium was then applied to investigate the IAA biosynthesis pathway and the plant growth‐promoting assay. The elimination assay consisted of yeast sucrose medium devoid of K2HPO4, MgSO4, NaCl, or CaCO3, and yeast sucrose medium containing only MgSO4 and CaCO3. Various indole compounds were then added to the revised medium composition to investigate the IAA biosynthesis pathway of UBCF_13 using high‐performance liquid chromatography (HPLC). Furthermore, the effect of UBCF_13 culture supernatant, cultivated in the new medium, on chili plant growth was evaluated. The highest IAA production (138.8 µg/mL) was observed in the yeast sucrose with CaCO3 and MgSO4 (elimination of K2HPO4 and NaCl). The presence of indole‐3‐acetamide (IAM) compound from the medium extracts, supplemented with multiple indole compounds, revealed that UBCF_13 may use the IAM pathway. The application of UBCF_13 supernatant enhanced the shoot, root length, fresh weight, and germination time of chili seeds by 37.7%, 49.3%, 204.3%, and 38.6%, respectively. This study demonstrated that eliminating K2HPO4 and NaCl provided a new culture medium composition conducive to IAA production by UBCF_13. Moreover, the UBCF_13 extract has the potential to promote plant growth.
Expression profiles of XIK1 and OsSWEET14 genes in parental and back‐ crossing rice lines after Xanthomonas oryzae pv. oryzae infection Atirada Boondech; Kawee Sujipuli; Kumrop Ratanasut; Tepsuda Rungrat; Thanita Boonsangsrom; Niran Aeksiri; Wittaya Tawong; Pongsanat Pongcharoen
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.89092

Abstract

Oryza sativa L. ssp. indica (RD47 cultivar) is a major commercial rice variety known for its highly stable yields. However, it is highly susceptible to bacterial blight disease caused by Xanthomonas oryzae pv. oryzae (Xoo). While previous research has focused on improving rice cultivars through breeding programs, no reports involved the interaction between Xoo infection and gene expression. This study aimed to analyze the relationship between bacterial blight disease and gene expression, focusing on two resistance genes (Xa21 and XIK1) and one susceptible gene (OsSWEET14). Gene expression analysis revealed that the Xa21 gene conferred effective resistance against bacterial blight Xoo16PK002 infection, providing high and moderate resistance to bacterial blight symptoms in two rice varieties carrying the Xa21 gene, IRBB21 and the near–isogenic RD47–Xa21 BC4F4, respectively. Additionally, the Xa21 gene directly induced XIK1 expression in both resistance rice cultivars. Moreover, one susceptible gene, OsSWEET14, was consistently up–regulated in only the bacterial blight–susceptible indica rice cultivar RD47. Therefore, the up–regulation of resistance genes and the suppression of susceptible genes contributed to the improvement of bacterial blight disease in the RD47 cultivar. Xa21 emerged as a criti‐ cally important gene in directly inducing mechanisms against Xoo, thereby promoting the reduction of bacterial blight disease.
Specific PCR primers for rapid detection of five rat and mouse species in Java, Indonesia Pramana Yuda; Stephanie Rani Tiurma Siregar; Sena Adi Subrata
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.89125

Abstract

Identifying rat and mouse species quickly, affordably, and accurately is crucial for effective population management, as well as for eradication or conservation purposes. However, the sheer diversity of these species poses a challenge. To address this, a molecular approach has been developed, involving the amplification of a short genetic marker from materials commonly left by the animal, such as hairs and feces. Recent available PCR primers were not suitable for the surveillance of large sample sizes. As a solution, this study designed and validated a PCR primer set capable of detecting five species of rats and mice (Mus musculus, Rattus tanezumi, Bandicota indica, Rattus tiomanicus, and Rattus argentiventer) commonly found in Java, Indonesia. The specific primers were derived from the cytochrome c oxidase subunit 1 (COI) gene, designed using the SP‐Designer V7.0 application, and validated using both in silico and in vitro methods. The validation results demonstrated that all five pairs of primers were highly specific, generated correct amplicons, and successfully detected the five distinct species present in a Javan mongoose feces sample. These findings are significantly important as they enable the effective detection of rat and mouse species and potentially provide valuable ecological insights from the field.
Identification of medium‐grain rice based on GS3, a gene linked to rice grain size Bui Phuo Tam; Pham Thi Be Tu; Nguyen Thi Pha
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.89421

Abstract

Previous studies have used molecular markers associated with the GS3 gene to differentiate between short and long rice. However, there are three classifications of grain size: long, short, and medium. The identification of medium‐grain rice using these markers linked to the GS3 gene is yet to be confirmed. Hence, this study aimed to identify medium‐grain rice through phenotyping and genotyping. Grain characteristics including grain length (GL), grain width (GW), and the length‐to‐width ratio (GL/GW) were measured using SmartGrain software. The genotype was then amplified with the GS3 gene‐linked DRR‐GL (double round‐robin for grain length) molecular marker. The results revealed that medium‐grain rice, as identified by the DRR‐GL marker, exhibited DNA bands at the position of 150 bp. These bands differed from those observed in long‐grain rice, but they were consistent with those found in short‐grain rice. The genotypic results further indicated that PCR products obtained with the DRR‐GL marker in medium‐grain rice accounted for 86.8% of the phenotypic variation in grain size. This study provides fundamental genetic insights into the identification of medium‐grain rice and contributes to optimizing effects on rice breeding related to grain size.
Exploring the mechanism of Glycyrrhiza glabra and Curcuma domestica against skin photoaging based on network pharmacology Oktavia Rahayu Adianingsih; Fifi Farida Fajrin; Christopher Kuncoro Johan
Indonesian Journal of Biotechnology Vol 29, No 2 (2024)
Publisher : Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/ijbiotech.93332

Abstract

Excessive exposure to UV radiation results in skin photoaging, which may be prevented or treated using natural plant compounds. Herbal cosmetics and medicines have grown in popularity due to the abundance of relatively safe compounds. This research aims to explore the network pharmacology of Glycyrrhiza glabra (GG) and Curcuma domestica (CD) against skin photoaging. Active compounds from GG‐CD were sourced from databases including TCSMP, KnapSack, TCMID, and published literature, while disease targets were collected from GeneCards and OMIM databases. The STRING database was utilized to construct the protein‐protein interaction (PPI) network. Enrichment analyses for Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway were performed using Metascape. The herb‐compounds‐target‐pathway‐disease (H‐C‐T‐P‐D) network was visualized using Cytoscape software. A total of 529 compounds, 2,335 active compound targets, and 120 skin aging targets were obtained. GO enrichment revealed 1,635 biological processes, 67 cellular components, and 121 molecular functions. The study suggests that GG and CD have the potential to treat skin photoaging by targeting multiple targets, such as TP53, TNF, AKT1, IL6, and IL‐1B, as well as multiple pathways, such as those in cancer, apoptosis, TNF, IL‐17, and the AGE‐RAGE signaling pathway. Experiment validation is necessary to confirm the preliminary network pharmacology results.

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