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All Journal VALENSI Bionatura Indonesian Journal of Cancer Chemoprevention ODONTO Dental Journal Dental Journal (Majalah Kedokteran Gigi) Padjadjaran Journal of Dentistry Journal of Medicine and Health Chimica et Natura Acta Indonesian Journal of Chemistry Jurnal Agrotek Tropika Molekul: Jurnal Ilmiah Kimia Journal of Health Technology Assessment in Midwifery Odonto dental journal Journal of Medicine and Health SDJ
Dikdik Kurnia
Departemen Kimia Fakultas Matematika Dan Ilmu Pengetahuan Alam Universitas Padjadjaran
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Dentistry Education Environmental Science Health Professions Immunology & microbiology Materials Science & Nanotechnology Medicine & Pharmacology Neuroscience Public Health

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In Vitro and In Silico Study of Antibacterial Activity of Sirih Merah Leaf Extract (Piper crocatum Ruiz & Pav.) Against Streptococcus mutans Yuliana, Trisna; Yusrin, Yolanda Charmenia Nadine; Fauzi, Puad; Aisyah, Lilis Siti; Kurnia, Dikdik
Jurnal Kimia Valensi Jurnal Kimia VALENSI, Volume 11, No. 1, May 2025
Publisher : Department of Chemistry, Faculty of Science and Technology Syarif Hidayatullah Jakarta State Islamic University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.15408/jkv.v11i1.42433

Abstract

Sirih merah leaf (Piper crocatum Ruiz & Pav) is a natural material that has the potential to be used as a natural antibacterial agent in treating dental caries caused by Streptococcus mutans because it is known to contain secondary metabolite compounds that have antibacterial properties that can inhibit the activity of glucosyltransferase and glucan-binding protein (Gbp) enzymes produced by S. mutans. This study was conducted to determine the antibacterial activity of Sirih merah leaf extract against S. mutans using the Kirby-Bauer method and to predict the potential molecular activity of antibacterial compounds contained in Sirih merah leaves in inhibiting the growth of S. mutans bacteria in silico using the molecular docking method. Antibacterial activity testing of Sirih merah leaf extract fractions obtained from methanol extract showed that fractions 7 and 10 are active fractions because they can inhibit the growth of S. mutans at the highest concentration of 10% with a strong inhibition zone category. The active fractions were then analyzed by the LC-HRMS method to obtain active compounds. The results of the in silico molecular docking test showed that the active compounds of Sirih merah leaves have the potential to interact with the GtfB and GbpC enzymes of S. mutans, where the best binding energy in the interaction of cafedrine compounds is -8.75 kcal/mol and -9.27 kcal/mol. The docking results were validated through a molecular docking process using native ligands with RMSD values of 1,861 Å and 3,170 Å.
Potential Natural Antibacterial Agent for P. gingivalis Periodontitis Infection: A Comprehensive Review of Source, Structure and Mechanism actions Amin, Meiny Faudah; Ariwibowo, Taufiq; Putri, Salsabila Aqila; Kurnia, Dikdik
Odonto : Dental Journal Vol 11, No 1 (2024): July 2024
Publisher : Faculty of Dentistry, Universitas Islam Sultan Agung

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.30659/odj.11.1.146-158

Abstract

The pathogenic bacteria P. gingivalis grows in the oral cavity. This bacterium could attack immune system which lead to inflammation of most tissues. P. gingivalis can cause a variety of serious and dangerous condition such as periodontitis, Alzheimer, rheumatoid arthritis, diabetes, and pneumonia. Antibiotics have been used for years as a treatment against this bacterium, like metronidazole, amoxicillin, and clindamycin, however, P. gingivalis is reported to be resistant to these antibiotics, thus exploration to discover alternatives has been demanded. Natural product compounds are known to have antibacterial activity and cause fewer side effects. Turmeric, eucalyptus, and several other plants have been reported to have antibacterial activity against P. gingivalis with a MIC of 1g/mL from an ethyl acetate leaf extract of eucalyptus. Decent antibacterial activity could be used as a reference to discover new drugs as alternatives against P. gingivalis
Inhibition Capacity of the n-Hexane Fraction of Myrmecodia pendens as a Potential Anti-Cancer in Breast and Cervical Cancer: In Vitro Study Bashari, Muhammad Hasan; Yuniarti, Eveline; Putri, Tenny; Qomarilla, Nurul; Kurnia, Dikdik; Satari, Mieke Hermiawati; Sahiratmadja, Edhyana Kusumastuti; Huda, Fathul
Indonesian Journal of Cancer Chemoprevention Vol 11, No 3 (2020)
Publisher : Indonesian Society for Cancer Chemoprevention

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14499/indonesianjcanchemoprev11iss3pp115-123

Abstract

Breast cancer (BC) and cervical cancer (CC) have a high prevalence and mortality rate worldwide. Despite the availability of advanced treatment, resistance to conventional chemotherapies has emerged. Myrmecodia pendens, one of the species of Sarang Semut (local name), possess a potential of antitumor effects by inducing cell death different cancer cell entities. This study aimed to assess anti-tumor activities of n-hexane fraction of M. pendens in inhibiting cell survival and cell migration in BC and CC cells. M. pendens was extracted in methanol then fractionated using n-hexane or ethyl acetate. BC cells including MCF-7 (luminal A), HCC-1954 (HER2+) cells and CC Hela cells were treated with M. pendens extracts to evaluate cytotoxic activity using 3-[4,5-dimethylthiazol-2-yl]-2,5 diphenyl tetrazolium bromide (MTT) assay as well as anti-cell migration using scratch assay. We also analyzed inhibitory concentration 50 (IC50) of n-hexane fraction in BC and CC cells. We started with comparing cytotoxicity activities of methanol extract, ethyl acetate and n-hexane fractions of M. pendens. Data showed that the n-hexane fraction was the most potent inducing BC cell death. Therefore, we used the n-hexane fraction for further experiments. Interestingly, IC50 of this fraction in HCC-1954 and Hela cells were lower than in MCF-7 cells, 16; 13 and 60 ppm, respectively. Moreover, the low concentrations of n-hexane fraction inhibited HeLa cells migration, compared to control group (p<0.05). The n-hexane fraction of M. pendens shows promising anti-cancer agent, by inhibiting BC and CC cell survival as well as inhibiting CC cells migration.Keywords: breast cancer, cervical cancer, MTT assay, Sarang Semut, scratch assay
Statistical Validation of The Microplate Reader for Antioxidant Activity Measurement using The DPPH Assay Rismawati, Rismawati; Kurnia, Dikdik; Hafiz, Ersanda; Zein, Muhammad Ihda H. L.
Chimica et Natura Acta Vol 13, No 3 (2025)
Publisher : Departemen Kimia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/cna.v13.n3.61575

Abstract

Antioxidants research has been garnering increased interest among researchers, particularly in the fields of medicine and health, focusing on both natural and synthetic antioxidants. The DPPH method is the most used approach for antioxidant analysis due to its efficiency, simplicity, and accuracy. This study aims to validate the sensitivity of the microplate reader compared to UV-Vis spectrophotometer, both used for measuring absorbance in the DPPH antioxidant test. The samples used in this study include ascorbic acid, gallic acid, and quercetin standards. Statistical validation in the DPPH antioxidant test includes precision testing, T-test, and % recovery test. Based on the statistically analyzed results, the T-test values for ascorbic acid, gallic acid, and quercetin standards were 0.86, 1.52 and 0.20, respectively, all of which are less than the t-table value of 1.72. The T-test values being less than the t-table value indicates that there is no significant difference between the two methods, UV-Vis spectrophotometer and microplate reader. Meanwhile, the precision test (Horrat)r values for the two methods were 0.52, 0.33, and 0.34, respectively. These precision values (Horrat)r fall within the 0.3-1.5 range, indicating acceptable precision. Additionally, the % recovery test for gallic acid showed values in the 90-100% range, indicating that both methods possess good sensitivity. As a result, a microplate reader is equally reliable yet more practical (faster, high-throughput, smaller volumes), especially valuable for labs with limited resources.
Antibacterial and antibiofilm effect of moringa oleifera leaves on bacteria associated with endodontic-periodontal lesions: an experimental study Darma, Joshua; Amin, Meiny Faudah; Elline, Elline; Komariah, Komariah; Kurnia, Dikdik
Padjadjaran Journal of Dentistry Vol 37, No 3 (2025): November 2025
Publisher : Universitas Padjadjaran

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/pjd.vol37no3.59353

Abstract

Introduction: Sodium hypochlorite (NaOCl) is the gold standard irrigation solution in root canal treatment; however, its clinical use is limited by its potential toxicity to periodontal tissue. Moringa oleifera is a natural plant known for its antibacterial properties. The study aims to analyze the potential antibacterial and antibiofilm effects of M. oleifera leaves on bacteria associated with endodontic-periodontal lesions. Methods: An experimental study was conducted using samples of P. gingivalis ATCC 33277 and S. sanguinis ATCC 10556 cultured on BHI agar before exposure to M. oleifera leaf extract at concentrations of 80, 60, 40, and 20%. A 5.25% NaOCl solution served as the positive control, while distilled water was used as the negative control. The minimum inhibitory concentration (MIC) was determined using the tube dilution method with BHI medium and defined as the lowest concentration that inhibited bacterial growth. The minimum bacterial concentration (MBC) was determined by subculturing inoculum from tubes that showed no visible growth in the MIC test. A standard plate count method was used to measure the growth density of P. gingivalis and S. sanguinis. The antibiofilm assay evaluated biofilm attachment using crystal violet staining. Biofil density was quantified using spectrophotometry at 570nmto measure the amount of transmitted light. A One-way ANOVA Test was applied to the normally distributed data, while the Kruskal-Wallis Test was used for non-normally distributed data. Post-hoc tests were performed to determine significant differences between groups, with a significance level set at p < 0.05. Result: The antibacterial test showed a significant effect of M. oleifera leaf extracts on the elimination of P. gingivalis (p = 0.002) and S. sanguinis (p = 0.001). The antibiofilm tests also showed a significant difference between among M. oleifera extract groups. Conclusion: M. oleifera leaf extract at concentrations of of 60 and 80 % exhibits antibacterial and antibiofil effects against P. gingivalis and S. sanguinis.
Multi-target potential of moringa oleifera-derived compounds against cariogenic and endodontic virulence proteins revealed by molecular docking: an in silico experimental study Amin, Meiny Faudah; Kurnia, Dikdik; Ariwibowo, Taufiq; Hardi, Dicky
Padjadjaran Journal of Dentistry Vol 38, No 1 (2026): March 2026
Publisher : Universitas Padjadjaran

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.24198/pjd.vol38no1.65729

Abstract

Introduction: Dental infections are multifactorial diseases involving bacterial biofilms and host immune responses. Natural compounds with antibacterial activity, such as Moringa oleifera, have been explored as alternatives to conventional antibiotics.  This study aimed to evaluate the interaction profiles of four Moringa oleifera–derived compounds against multiple virulence-associated proteins of cariogenic and endodontic pathogens using in silico molecular docking. Methods: This study was an in silico experimental study using molecular docking simulations to evaluate the binding energy of four M. oleifera-derived compounds (eugenol, trans-anethole, arachidonic acid, and phytosphingosine) with five key virulence-associated proteins of cariogenic and endodontic pathogens (Cystalysin, SrpA, FimA, RadD, and Ddl). AutoDock 4.0 was used for the docking simulations. Docking results were analyzed based on binding energy (ΔG) and inhibition constant (Ki) values. The best binding conformations were selected according to the lowest binding energy and visualized to identify key ligand–protein interactions using Discovery Studio Visualizer. Results: The phytosphingosine-Ddl exhibited the lowest binding energy of -7.42 kcal/mol, followed by eugenol with three different receptors (Cystalysin, SrpA, and FimA) and arachidonic acid-RadD. The lowest inhibition constant was shown by the phytosphingosine-Ddl complex at 3.61 µM. Each compound interacted with various targets, but phytosphingosine exhibited the most consistent and widespread predicted binding via hydrogen bonds with Glu222, Arg291, Glu306, Asp293, Lys251, and hydrophobic interactions of Phe295, Phe245, Phe175, and Leu145. Conclusion: This in silico molecular docking study demonstrated that Moringa oleifera–derived compounds, particularly phytosphingosine, exhibit strong binding affinity toward key virulence-associated proteins of cariogenic and endodontic pathogens. These findings highlight the potential of M. oleifera as a natural source of antibacterial agents and support further experimental validation of its therapeutic applications in oral infections.
Potential of Moringa oleifera as an Antibacterial and Antibiofilms in Root Canal & Tooth Surface Disease Empirical, In Vitro & In Silico Meiny Faudah Amin; Taufiq Ariwibowo; Salsabila Aqila Putri; Dikdik Kurnia
Scientific Dental Journal VOLUME 8, ISSUE 1, JANUARY 2024
Publisher : Faculty of Dentistry, Universitas Trisakti

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.25105/sdj.v8i1.19618

Abstract

Moringa oleifera is one of the typical plant in Southeast Asia, especially Indonesia. Moringa leaves are known as plants containing bioactive compounds with multiple activities. Polyphenol, quercetin, tannin, and saponin compounds in Moringa leaves have anti-inflammatory, antidiabetic, and antibacterial activities. The potential of Moringa leaf extracts as an antibacterial need to be tested in silico and in vitro to determine the suitability of specific bioactive compounds. The aim is to know the potential of Moringa oleifera leaves as antibacterial, antibiofilm in root canal disease and tooth surfaces. This research method is an empirical study, In vitro and In silico.
Co-Authors . Horizon Ambrosius Purba Anne Nuraini Anni Yuniarti Ariwibowo, ⁠Taufiq Azmi, Mohamad Nurul Bashari, Muhammad Hasan Betry Pujiastuti Binartha, Ciptadhi Oka Boima Ramses Situmeang Budi Setiabudiawan Cut Soraya Dadan Sumiarsa Danny Hilmanto Darma, Joshua Denny Nurdin Diana Rakhmawaty Djulia Onggo Djulia Onggo Dudi Aripin Elizabeth Fitriana Sari Elline, Elline Erni Suminar Euis Julaeha Fajar Fatriadi Fauzi, Puad Fernando, Theodorus Aldo Gondowidjojo, Yolanda Dwiutami Hafiz, Ersanda Hardi, Dicky Harizon Harizon Hendra Dian Adhita Hendra Dian Adhita Dharsono Hendra Dian Adhyta Dharsono Huda, Fathul Indah Permata Yudha Iwan Hastiawan Iwan Hastiawan Jamaludin Al-Anshori Jeffrey Jeffrey Kadarusman Kiki Maesaroh Komariah Komariah Kusumadewi, Vira Lilis Siti Aisyah, Lilis Siti Meilinah Hidayat - Meiny Faudah Amin Meiny Faudah Amin Mia Miranti Rustama Mieke H Satari Mieke H Satari Mieke H Satari Mieke H. Satari Mieke Hemiawati Satari Mohamad Nurzaman Muchtan Sujatno - Mulyani, Irma Murtihapsari . Nugraha Sutadipura - Putri, Salsabila Aqila Putri, Tenny Qomarilla, Nurul Rahmat Budiarto Rahmi Alma Farah Adang, Rahmi Alma Farah Ratna Annisa Utami Rika Meliansyah Rismawati Rismawati Sahara, Elvi Sahiratmadja, Edhyana Kusumastuti Salsabila Aqila Putri Santhy Wyantuti Satari, Mieke Hermiawati Setiawan - Shiono, Yoshihito Sinaga, Siska Elisahbet Siswina, Tessa Siti Julaeha, Siti Suruwaky,, Amir Syariful Mubarok Tati Herlina Taufiq Ariwibowo Taufiq Ariwibowo Tri Mayanti Unang Supratman Yoshihito Shiono Yuli Ainun Rosidah Yuliana, Trisna Yulianto, Fiky Yuniarti, Eveline Yusi Deawati Yusi Deawati Yusrin, Yolanda Charmenia Nadine Zein, Muhammad Ihda H. L. Zulfan M. Alibasyah