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Annales Bogorienses
Published by Badan Riset dan Inovasi Nasional
ISSN : 05178452     EISSN : 24077518     DOI : https://doi.org/10.55981/ann.bogor
Core Subject :
Annales Bogorienses aims to disseminate high-quality scientific research in the field of life sciences, with a strong emphasis on advancing knowledge and applications in biotechnology, molecular biology, biochemistry, bioinformatics, and bioengineering. The journal serves as a platform for researchers, academicians, and practitioners to share original findings, innovative methodologies, and critical reviews that contribute to scientific progress and sustainable development. The journal covers research in biotechnology, molecular biology, biochemistry, bioinformatics, and bioengineering. It publishes original research articles, reviews, and short communications, and is committed to rigorous peer review and open access for the widest possible dissemination of scientific knowledge.
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Articles 203 Documents
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Study of Putative Pathogenesis-Associated Genes of Rhizoctonia solani AG1-IA Causal Agent of Rice Sheath Blight Pratiwi Hamzah; A Farhanah; Aswar Rustam
Annales Bogorienses Vol. 26 No. 2 (2022): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2022.v26.n2.13-21

Abstract

Rhizoctonia solani (Rs), the causal agent of rice sheath blight, is a notorious soil-borne disease prevalent in many rice-growing regions including in Indonesia. Although several studies of pathogenesis of Rs have been reported, there have been no reports describing the putative pathogenesis-associated genes of Rs AG1-IA in Indonesia. Current study stated that there were 3942 genes that were identified unique to Rs AG1-IA infecting rice. However, information on interaction and the pathogenicity genes of these Rs anastomosis groups during infection of rice is lacking. Therefore, this study is aims to do inceptive detection of putative pathogenesis-associated genes of Rs AG1-IA in Indonesia. Fifty Rs isolates were collected from thirteen districts of three rice producing provinces in Indonesia; DI Yogyakarta, Central Java, and South Sulawesi, and were identified as Rs AG1-IA based on the presence of 137-140 bp AG1-IA specific primers named Rs1F/Rs2R, also based on macroscopic and microscopic observation. Furthermore, the presence of the putative pathogenesis-associated genes were detected using primers Rga1, AG1_AP, AG1_PC and AG1_CFEM that were applied to selected isolates. The presence of a putative pathogenesis-associated genes was detected by the formation of amplicons at 172 bp using AG1_PC and 144 bp using primers AG1_CFEM. The associated bands showed 100% similarity to glycosyltransferase family 2 protein of Rs AG1-IA for AG1_PC primer and clathrin adapter complex small chain domain for AG1_CFEM primer after sequencing and analyzing by BLASTx tools. While primers Rga1 and AG1_PC didn’t show a specific band. Through the present study, pathogenicity genes were found specific to Rs AG1-IA. AG1_PC in MAG B2 and SPG A2 isolates; and AG1_CFEM in SPG A2, KLA D1, MAG B2 and SLE B1 isolates. These two primers can be used to next step study to better understand the molecular aspect of pathogenicity in Rs AG1-IA.
EDITOR'S PREFACE Puspita Lisdiyanti
Annales Bogorienses Vol. 26 No. 2 (2022): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

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

Abstract

Biofilm–Antibiotic Resistance Interplay in Chronic Wound Gram-Negative Pathogens: Insights From an Indonesian Tertiary Hospital: - Dwi Anjarwati; Rebriarina Hapsari; Mujahidah Mujahidah; Hendro Wahjono; Tri Nur Kristina; Titik Nuryastuti
Annales Bogorienses Vol. 29 No. 1 (2025): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2025.v29.n1.11-18

Abstract

Biofilm-forming bacteria hinder wound healing and increase antibiotic resistance, complicating the diagnosis and treatment of chronic wound infections. This study aims to investigate the antimicrobial resistance profiles of biofilm-forming Gram-negative bacteria isolated from chronic wound infections in patients at an Indonesian tertiary hospital. A total of 75 Gram-negative bacterial isolates from 60 patients with chronic wound infections were identified and tested for antimicrobial susceptibility. Biofilm formation was assessed using the microtiter plate assay. The Spearman correlation test was used to analyze the relationship between antimicrobial resistance and biofilm production. Gram-negative bacteria accounted for 80% of all isolates. Surgical site infections (SSIs) were the most common wound type. Biofilm-forming ability varied: 45% of isolates were weak, 38.3% moderate, and 16.7% strong producers. Escherichia coli was the dominant species, mainly linked to SSIs, showed weak or no biofilm formation. Klebsiella pneumoniae and Pseudomonas aeruginosa were also prevalent. A weak positive correlation was found between biofilm formation and resistance to amikacin, gentamicin, and meropenem. An inverse correlation was observed with ceftazidime, while no correlation was found with aztreonam, cefepime, or ciprofloxacin. As a conclusion, a weak but significant correlation exists between biofilm production and resistance to certain antibiotics in Gram-negative bacteria.
Optimization of Growth Media, Antibiofilm Evaluation and Taxonomic Identification of Symbiotic Bacteria from the Sea Anemone Heteractis magnifica Ela Novianti; Syamsul Falah; Kania Salsabila
Annales Bogorienses Vol. 29 No. 1 (2025): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2025.v29.n1.19-28

Abstract

Antibiotic resistance and biofilm-associated infections remain critical global health challenges. Its responsible for up to 65% of infections in humans and have adaptive resistance 10–1000 times higher against conventional antibiotics. Thus, development and finding of new antibiofilm agent is needed. Marine bacteria, particularly symbion of anemone Heteractis magnifica, offer promising yet underexplored sources of bioactive componds as antibiofilm agents. This research aimed to optimize the growth condition, assess the antibiofilm activities and identify potential strain of symbiotic bacteria from H. magnifica in Samalona Island, Indonesia. The growth of two bacterial isolates (CM01 and CM03) were optimized, revealing that CM01 grew best in TSB with 2%NaCl and 2% peptone at 37°C for 48 h incubation, while CM03 exhibited optimal growth in Zobell medium with 2% peptone at 28°C for 48 h. Secondary metabolites produced under these conditions were tested against Escherichia coli, Pseudomonas aeruginosa, Bacillus subtilis, Staphylococcus epidermidis, and Staphylococcus aureus. The 50-hour metabolite of CM03 demonstrated the strongest and broadest antibiofilm activity. Due to its antibiofilm potential, strain CM03 was subjected to genomic characterization using 16S rRNA PCR method. Phylogenetic analysis identified the isolate as Halalkalibacter okhensis. These findings indicate that symbiotic bacteria of H. magnifica, particularly H. okhensis CM03, represent promising candidates for the discovery of new antibiofilm agent.
In Silico Analysis of Turmeric, Tamarind, and Ginger on the Immune System Dowmy Rahmatika; Nabila Swarna Puspa; Ummu Mastna Zuhri; Andriani Noerlita Ningrum; Joko Tri Wibowo
Annales Bogorienses Vol. 29 No. 1 (2025): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2025.v29.n1.35-41

Abstract

Immune system needs to be in optimum condition. However, autoimmune diseases occur when the immune system mistakenly attacks the body’s cells, resulting in chronic conditions that require long-term treatment. Current anti-inflammatory and immunosuppressive drugs have significant side effects, highlighting the need for safer and more specific therapeutic alternatives. This study aimed to evaluate turmeric, ginger, and tamarind that have been used traditionally for the drink with benefit for immune system. Compounds from these plants were retrieved from the COCONUT 2.0 database and screened using SwissADME. Target prediction was performed with SwissTargetPrediction and STITCH 5.0, while molecular docking of AKT1, PTGS2, and TP53 was carried out using AutoDockTools-1.5.7. The results show that catechin and kaempferol strongly interact with AKT1, moderately with TP53, and weakly with PTGS2. The number of hydrogen bonds and the involvement of polar residues contributed to complex stability, particularly with AKT1. The results indicated that cathecin and kaempferol in these plants might play an important role as immunomodulatory agents through an in silico analysis. These compounds are not the major constituents of the studied plants. Further research is needed to analyze the primary phytochemicals of these plants and validate their biological activities experimentally.
Caulerpenyne Compounds from Macroalgae Caulerpa sertularioides against MDM2 p53 Protein as an Anticancer Target Bunga Anggreini Sari
Annales Bogorienses Vol. 29 No. 1 (2025): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2025.v29.n1.29-33

Abstract

Cancer remains a major global health burden, and limitations of current anticancer therapies highlight the need for safer and more effective alternatives. The MDM2–p53 interaction plays a crucial role in tumor progression by negatively regulating p53 tumor suppressor activity, making it an attractive molecular target for anticancer drug development. Marine macroalgae are recognized as promising sources of bioactive secondary metabolites with potential anticancer properties. This study aimed to investigate the potential of caulerpenyne, a sesquiterpenoid compound derived from the macroalgae Caulerpa sertularioides, as an inhibitor of the MDM2–p53 protein complex using an in silico molecular docking approach. Molecular docking was performed using AutoDock Vina, with validation conducted through redocking of the native ligand, yielding an RMSD value of 0.69 Å, indicating a reliable docking protocol. Drug-likeness and pharmacokinetic properties were evaluated using SwissADME, showing that caulerpenyne fulfills Lipinski’s rule of five with favorable ADME characteristics. Docking results demonstrated that caulerpenyne binds to the MDM2–p53 receptor with a binding free energy of −6.2 kcal/mol and an inhibition constant of 28.5 µM. Interaction analysis revealed hydrogen bonding, hydrophobic, and π-interactions with key amino acid residues involved in p53 binding, including HIS75 and TYR79. Although its binding affinity is lower than that of established synthetic inhibitors, caulerpenyne exhibits a comparable interaction pattern with critical residues of the MDM2 binding pocket. These findings suggest that caulerpenyne has potential as a natural lead compound targeting the MDM2–p53 pathway. Further experimental validation through in vitro and in vivo studies is required to confirm its biological efficacy and therapeutic potential.
Mini Review: Extraction Methods, Phytochemical Profile, and Pharmacological Potential of the Marine Sponge Stylissa carteri Prisnu Tirtanirmala; Bunga Anggreini Sari
Annales Bogorienses Vol. 29 No. 1 (2025): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2025.v29.n1.1-10

Abstract

Stylissa carteri is an Indo-Pacific marine sponge recognized as a prolific source of bioactive secondary metabolites relevant to drug discovery. This mini-review integrates current evidence on extraction strategies, phytochemical diversity, and pharmacological activities reported for this species. Across 12 studies, sample preparation commonly involves freezing, freeze-drying, and pulverization, followed by solvent maceration, predominantly using methanol or ethanol, with polarity-guided fractionation to enrich distinct metabolite classes. Identified constituents include bromopyrrole alkaloids, cyclic peptides, oleanane-type saponins, triterpenes, phenolic diterpenes, fatty acids, ceramides, and cerebrosides, revealing notable geographic and methodological influences on chemical profiles. Biological evaluations demonstrate a broad activity spectrum, including anticancer, antibiofilm, antibacterial, antiviral (anti-HIV), antioxidant, and antiplasmodial effects. Bromopyrrole alkaloids show potent antibiofilm and anti-HIV properties, while cyclic peptides and triterpenes display marked cytotoxicity and antiproliferative action, including effects on drug-resistant cancer cell lines. In addition, metabolites from symbiotic bacteria contribute significant antiplasmodial activity, underscoring the holobiont as a pharmacologically valuable system. Collectively, these findings position S. carteri as a versatile reservoir of marine natural products with multi-target therapeutic potential. Nonetheless, heterogeneity in extraction protocols, limited structural standardization, and insufficient mechanistic studies constrain translational progress. Future investigations should prioritize optimized and reproducible extraction workflows, advanced metabolomic characterization, and targeted pharmacological validation to accelerate the development of S. carteri–derived lead compounds.
Characterization Bee Bread Associated Microbials from Tetragonula laeviceps and Identification of Bacillus subtilis as Antibacterial Agent Antonia Caitlin Gondowardoyo; Ema Damayanti; Mastari Ayu Anggraeni; Tsania Taskia Nabila; Noorendra Laksamana Putra; Siti Muslimatun; Riri Rimbun Anggih Chaidir; Titiek Farianti Djaafar
Annales Bogorienses Vol. 30 No. 1 (2026): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2022.v30.n1.1-10

Abstract

Bee bread is a fermented bee product originating from bee pollen carried by bees and stored in pots in the hive, specifically by stingless bees. Bee bread serves as a food reserve for bee colonies and is naturally preserved through a fermentation process involving numerous microorganisms. As a fermented product, bee bread contains beneficial microorganisms that can be used as an antibacterial agents against pathogenic bacteria. This study aimed to isolate anti-pathogenic bacterial microbials from bee bread Tetragonula laeviceps originating from Sumbawa, Indonesia. The isolation of bee bread microbes was performed using different Agar media, including Chloramphenicol Yeast Glucose Agar (YGCA), Potato Dextrose Agar (PDA), Malt Extract Agar (MEA), and Sabouraud Dextrose Agar (SDA) by using the spread plate plate method. Isolated microbes identification was carried out using Gram staining and catalase activity assay, and antibacterial activity assay was carried out using the well diffusion method on Escherichia coli FNCC 0091, Staphylococcus aureus FNCC 0047, and Pseudomonas aeruginosa FNCC 0070. The isolate with the highest antibacterial activity was isolate 19. Further identification via 16S rRNA gene sequence analysis revealed that isolate 19 shares 94.91% similarity with Bacillus subtilis strain BCRC 10255, a finding also confirmed by morphological characteristics using scanning electron microscopy. This study highlights the potential of B. Subtilis 19, derived from T. laeviceps bee bread, as a promising antibacterial agent.
Effectiveness of Ethanol Extract of Etlingera balikpapanensis Rhizome as an Antibiofilm Against Staphylococcus aureus MRSA In Vitro Hasyrul Hamzah; Henra Henra; Hasriani Hasriani; Nur Atika Astriani
Annales Bogorienses Vol. 30 No. 1 (2026): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2022.v30.n1.11-23

Abstract

The increasing prevalence of antibiotic resistance, particularly in Methicillin-Resistant Staphylococcus aureus (MRSA), represents a major challenge in the management of infectious diseases due to the ability of this pathogen to form biofilms that significantly enhance antimicrobial tolerance. Biofilm formation contributes to treatment failure and persistent infections, highlighting the need for alternative strategies, including natural antibiofilm agents. This study aimed to evaluate the antibiofilm activity of the ethanolic extract of Etlingera balikpapanensis rhizome against MRSA in vitro, to assess the effect of different extract concentrations on biofilm formation, and to determine the effective concentration for biofilm inhibition. This research employed an in vitro laboratory experimental design. The rhizome was extracted using the maceration method with 96% ethanol, followed by phytochemical screening and antibiofilm evaluation using the microtiter plate assay with crystal violet staining. The extract was tested at concentrations of 10, 20, and 30 mg/mL with incubation periods of 24, 48, and 72 h. The results demonstrated that the ethanolic extract of E. balikpapanensis rhizome contained alkaloids, flavonoids, saponins, triterpenoids, phenolic compounds, and tannins, and exhibited antibiofilm activity against MRSA at all tested concentrations and incubation times. Biofilm inhibition increased in a concentration-dependent manner, with the 30 mg/mL extract showing the highest inhibitory effect and exceeding the MBIC₅₀ threshold. In conclusion, the ethanolic extract of E. balikpapanensis rhizome has strong potential as a natural antibiofilm agent against MRSA, particularly during the early and early maturation stages of biofilm development.
Evaluation of Vitamin C Content and Antioxidant Activities of Kombucha Fermented with Different Herbal Substrates Eva Kholifah; Silva Aini; Safira Kurniasih; Annisa W. Janah; Muhamad S. Bikri; Reni Nuraeni; Afifah Nur Shobah; Sofi Nurmay Stiani; Farahdina Chairani; Fajrin Noviyanto
Annales Bogorienses Vol. 30 No. 1 (2026): Annales Bogorienses
Publisher : National Research and Innovation Agency (BRIN)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/ann.bogor.2022.v30.n1.24-31

Abstract

Kombucha is a prebiotic of non-dairy products. It is made from fermented plant-based infusion using using symbiotic culture of bacteria and yeast (SCOBY). During the fermentation process, yeast metabolize glucose in the substrat transforms into organic acid, vitamins, and microminerals. This transformation effect increases concentration and pharmacological activity. This research aimed to evaluate the antioxidant activity, vitamin concentration, and correlation between the kombucha process and increasing antioxidants of kombucha. The antioxidant activity was analyzed by the 2,2-diphenyl-1-picrylhydrazyl (DPPH) method and vitamin content was analyzed using spectroscopy UV Vis. Kombucha was prepared using five different substrates such as Etlingera elatior flowers, Senna alexandrina leaves, Syzygium malaccense pericarp, Sargassum crassifolium, and Kappaphycus alvarezii. The antioxidant activity, expressed as IC₅₀, was 27.930, 8.769, 25.132, 22.238, and 118.874 µg/mL, respectively, while the vitamin C contents were 7.97%, 6.92%, 1.568%, 1.51%, and 0.364%, respectively. Among the substrates evaluated, S. alexandrina kombucha exhibited the strongest antioxidant activity, as indicated by its lowest IC₅₀ value (8.769 µg/mL). Correlation analysis revealed a strong positive correlation between the antioxidant activity of the initial infusions and that of the resulting kombucha (r = 0.9656), indicating that substrates with higher initial antioxidant activity tended to produce kombucha with greater antioxidant activity. These findings demonstrate that substrate selection plays an important role in determining the antioxidant properties of kombucha and that S. alexandrina represents a promising substrate for producing kombucha with high antioxidant potential.

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