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All Journal Jurnal Kedokteran Syiah Kuala International Journal of Integrated Health Sciences Pharmaciana: Jurnal Kefarmasian Media Ilmu Keolahragaan Indonesia Buletin Farmatera Jurnal Biomedika dan Kesehatan Jurnal Keperawatan dan Fisioterapi (JKF) Jurnal Kesmas dan Gizi (JKG) IJOEP : International Journal of Ecophysiology Narra J
Yamamoto, Zulham
Department Of Histology, Faculty Of Medicine, Universitas Sumatera Utara
Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Health Professions Immunology & microbiology Medicine & Pharmacology Public Health Other

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Direct PCR for Escherichia coli: a straightforward and cost-effective method Harahap, Desy Aryani; Yamamoto, Zulham; Widjaja, Sry Suryani; Mayasari, Evita
JURNAL KESMAS DAN GIZI (JKG) Vol. 7 No. 2 (2025): Jurnal Kesmas dan Gizi (JKG)
Publisher : Fakultas Kesehatan Masyarakat Institut Kesehatan Medistra Lubuk Pakam

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.35451/jkg.v7i2.2606

Abstract

This study compares the direct PCR method with standard PCR to detect Escherichia coli. Escherichia coli is the most widely used organism in biology. Detection of E. coli in water and food is routinely performed, utilizing methods like PCR. The initial stage of PCR preparation involves DNA extraction, which requires a commercial kit. Consequently, this extraction process incurs additional expenses, time, and labor. Therefore, an alternative method is needed, such as direct PCR, which can circumvent the need for DNA extraction. The PCR process facilitates lysis of the bacterial cell wall, releasing nucleic acids, which can then be amplified by Taq polymerase. For the PCR procedure, two groups were formed, each comprising three replicates of the reaction with different DNA templates. The first group utilized a direct culture of Escherichia coli, while the second group incorporated the extracted DNA of Escherichia coli. Our study successfully amplified the metH gene of Escherichia coli without DNA extraction. Electrophoresis analysis revealed that the direct PCR product, sized at 300 bp, appeared more pronounced than the standard PCR product. The findings of this research demonstrated direct PCR as an alternative for detecting Escherichia coli, which would lead to reductions in costs, time, and labor.
Meningkatkan Preservasi DNA asal Saliva melalui Inaktivasi DNase I: Peran Suhu dan EDTA Yamamoto, Zulham; Sulviani, Nurul; Widjaja, Sry Suryani
Jurnal Biomedika dan Kesehatan Vol 7 No 2 (2024)
Publisher : Fakultas Kedokteran Universitas Trisakti

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18051/JBiomedKes.2024.v7.152-162

Abstract

Background Deoxyribonuclease I (DNase I) catalyzes the cleavage of double-stranded DNA into its end products. This enzyme requires cations for its activity. In addition, DNase activity is influenced by indirect DNase inhibitors (i.e. EDTA) and temperature. EDTA is an indirect DNase I inhibitor. Therefore, DNase inactivation is crucial for DNA preservation, especially for salivary samples, and the downstream application of genetic techniques using non-blood samples. Saliva is a complex mixture contaminated with oral microbes and contains DNase which is harmful for DNA preservation. This study aims to preserve salivary DNA through temperature and EDTA treatment. Methods This is an experimental study. Salivary DNA was extracted using the spin-column method. DNA degradation assays were carried out using either 5 µL of salivary supernatant or 2.5 mg/mL of DNase I which were incubated at -20°C, 2-8°C, room temperature, 40°C, and 50°C; and added with 0.125 mM, 0.25 mM, 0.5 mM, 1 mM, and 2 mM EDTA for 60 minutes. After incubation, the results were visualized using agarose gel electrophoresis. Results The average concentration of salivary DNA was 61.70 µg/mL (30.50-109.05) and the purity was 1.893 µg/mL (1.800-2.005). Incubation at -20°C, 2-8°C, and room temperature degraded salivary DNA but incubation at 40 and 50°C did not completely degrade DNA. Addition 0.125 mM, 0.25 mM, 0.5 mM, 1 mM, and 2 mM EDTA to 5 µL of salivary supernatant or 2.5 mg/mL DNase I preserved salivary DNA. Conclusions Temperature of 40 and 50°C, and 0.125 mM EDTA can inactivate DNase and preserve salivary DNA.
DNMT1 Level as Biomarker for Early Detection of Nasopharyngeal Carcinoma Raudah Putri Syari; Zulham Yamamoto; Farhat; Sry Suryani Widjaja; Ririe Fachrina Malisie
JURNAL KEPERAWATAN DAN FISIOTERAPI (JKF) Vol. 8 No. 1 (2025): Jurnal Keperawatan dan Fisioterapi (JKF)
Publisher : Fakultas Keperawatan dan Fisioterapi Institut Kesehatan Medistra Lubuk Pakam

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.35451/qwakjv41

Abstract

Introduction: Nasopharyngeal carcinoma (NPC) is a malignant disease often diagnosed at an advanced stage. Early detection of NPC is necessary to reduce morbidity and mortality of this disease. To date, early detection methods for NPC still have limitations, especially in terms of positive predictive value. Identification of DNA methylation abnormalities has been studied for its role as a marker for early detection of NPC. Objective: This review describes the potential of DNMT1, an enzyme involved in DNA methylation, as a biomarker for early detection of NPC. Methods: We conducted a literature search using PubMed and Google Scholar databases. The keywords used were "nasopharyngeal carcinoma AND DNMT1", nasopharyngeal carcinoma AND early detection, "nasopharyngeal carcinoma AND screening", nasopharyngeal carcinoma OR DNMT1, “DNMT1 OR Carcinoma”, nasopharyngeal carcinoma OR screening, and nasopharyngeal carcinoma OR early detection. Results: Increased DNMT1 expression is associated with global hypermethylation which is part of the early pathogenesis of NPC. LMP1, as an oncoprotein released by EBV, increases DNMT1 expression and activity. Conclusion: High DNMT1 expression in NPC indicates its potential as an early detection method for NPC.
Co-Authors Amin Soebandrio Bambang Prayugo Bayu Dewanto Chatarina Umbul Wahyuni Evirosa Juliartha Simanjuntak Farhat Gembira Arkemo Situmorang Harahap, Desy Aryani Jelita Siregar Kevin Kevin Kusumawati, R. Lia M. Ichwan Mayasari, Evita Muhammad Ichwan Muhammad Ichwan Novrina Situmorang Nuraiza Meutia Pandia, Pandiaman Rahmi Rahmi Rambe, Ismatul Fauziah Raudah Putri Syari Rina Yunita Ririe Fachrina Malisie Sembiring, Rosita J. Sinaga, Bintang YM. Sulviani, Nurul Syahfira A Syahna Wahyuni, Arlinda S. Widjaja, Sry Suryani Yetty Machrina