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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) Jurnal Ners IJOEP : International Journal of Ecophysiology Narra J Makara Journal of Science Glosains: Jurnal Sains Global Indonesia
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 Nursing 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.
Comparison of Buccal Mucosal Epithelial Cell Analysis of Communities Around and Outside the Medan City Waste Landfill Intan, T.Kemala; Yamamoto, Zulham; Mariedina, Causa Trisna; Rachman, Indryani; Toru, Matsumoto
Glosains: Jurnal Sains Global Indonesia Vol. 7 No. 2 (2026): Glosains: Jurnal Sains Global Indonesia
Publisher : Sekolah Tinggi Agama Islam Kuningan

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.59784/glosains.v7i2.696

Abstract

Background: People living around waste final processing sites (TPAs) have the potential to experience chronic exposure to environmental pollution that can have an impact on health. Exposure to various pollutants from waste processing activities has the potential to cause cellular damage, including in buccal mucosal epithelial cells that can be used as biomarkers of cytogenetic damage. Objective: This study aims to examine the damage to buccal mucosal epithelial cells in people living around the Medan City Landfill and compare it with people who do not live in the area. Methods: This study used a cross-sectional design involving 100 respondents divided into two groups: the community living around the landfill (50 subjects) and the control group not living near the landfill (50 subjects). Buccal mucosal epithelial cells were collected using the cytobrush technique and stained using the Papanicolaou method. Analysis was carried out on the frequency of pyknosis, karyorrhexis, and karyolysis as cytogenetic biomarkers, with adjustment for potential confounders including sex, age, and duration of residence, then compared between the two groups. Results: The results showed that the frequency of buccal mucosal epithelial cells exhibiting pyknosis, karyorrhexis, and karyolysis in the community living around the landfill did not show a statistically significant difference compared to the control group (p > 0.05 for all cytogenetic endpoints). Conclusion: There was no significant difference in the frequency of cytogenetic endpoints (pyknosis, karyorrhexis, and karyolysis) of buccal mucosal epithelial cells between people living around the Medan City Landfill and those who did not. These findings indicate no evidence of significant genotoxicity based on the analyzed cytogenetic parameters in the studied population. However, continued environmental monitoring and longitudinal studies with larger sample sizes are recommended to detect subclinical cellular changes at earlier stages.
Lab-made 100 bp DNA Ladder using Polymerase Chain Reaction and Human DNA Bariqi, Muhammad Ilmam; Yamamoto, Zulham; Firjatu, Putri Chalya; Nasution, Luthfi Umam Hakim; Lubis, Oryza Sativa
Makara Journal of Science Vol. 30, No. 1
Publisher : UI Scholars Hub

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

Abstract

Polymerase chain reaction (PCR) is a rapid, molecular biology technique widely used in disease diagnosis and genetic engineering. Conventional PCR products require agarose gel electrophoresis, which employs a DNA ladder as a size reference. Most commercial ladders are plasmid-based and reliable but require additional culture time. We suggest a more efficient method for producing a DNA ladder using DNA derived from human blood. DNA was isolated using a commercial kit. Primer sets generating 100–1000 base pair (bp)-long fragments bearing target regions p12, p13, and p14 were designed using Primer-BLAST. DNA was amplified by routine PCR, visualized on a 1% (w/v) agarose gel, and pooled to form a 100-bp ladder. The lab-made ladder was compared with a commercial ladder. Extracted DNA showed a purity of 1.878. Bands of 100, 500, and 1000 bp were added in greater amounts to produce wider, more visible bands. The pooled fragments served as a functional 100-bp DNA ladder. A key limitation is the lack of sequencing, as genomic variations may affect flanking regions and potentially alter amplicon sizes. A 100-bp DNA ladder generated using DNA extracted from human blood had good quality, comparable to that of a commercial ladder.
Temporary Closure for Gastroschisis Using Everyday Disposable Medical Devices: A Literature Review Ahmad Razi Maulana Alnaz; Erjan Fikri; Zulham Yamamoto; Fini Meirisa Alnaz
Jurnal Ners Vol. 10 No. 3 (2026)
Publisher : Universitas Pahlawan Tuanku Tambusai

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.31004/jn.v10i3.58283

Abstract

Background: Gastroschisis is a life-threatening congenital abdominal wall defect requiring immediate surgical intervention at birth. In resource-limited healthcare settings, the availability of specialized silo devices for staged abdominal closure is frequently constrained by economic and logistical barriers. The use of everyday disposable medical devices as low-cost alternatives has gained increasing attention as a pragmatic approach to improving neonatal surgical outcomes in such environments. Objective: This literature review aims to synthesize available evidence on the use of disposable medical devices as alternative silo substitutes for temporary gastroschisis closure, evaluating their clinical applicability, safety profile, cost-effectiveness, and relevance to nursing care in low-resource neonatal settings. Methods: A systematic narrative literature review was conducted using databases including PubMed, Scopus, ScienceDirect, Springer, and Wiley Online Library. Studies published between 2015 and 2026 examining gastroschisis management, temporary abdominal closure techniques, improvised silo alternatives, and neonatal surgical outcomes were included. A total of 42 articles met inclusion criteria after screening and critical appraisal. Results: Evidence from multiple studies supports the feasibility and relative safety of improvised silo construction using readily available disposable materials, including urologic drainage bags, intravenous fluid bags, bowel irrigation sleeves, and sterile surgical gloves, particularly in settings where commercial silos are unavailable. Outcomes including bowel reduction time, wound infection rates, time to primary closure, and mortality were comparable to those achieved with commercial spring-loaded or sutured silos in several reports. Multidisciplinary neonatal nursing care was identified as a critical determinant of postoperative success. Conclusion: Everyday disposable medical devices represent a viable and cost-effective approach to temporary gastroschisis closure in resource-limited environments. Standardized protocols, rigorous infection control practices, and multidisciplinary collaboration are essential to optimize outcomes. Further high-quality prospective studies are needed to establish evidence-based guidelines for improvised closure techniques. Keywords: gastroschisis; temporary abdominal closure; disposable medical devices; neonatal surgery; resource-limited settings
Co-Authors Ahmad Razi Maulana Alnaz Amin Soebandrio Bambang Prayugo Bariqi, Muhammad Ilmam Bayu Dewanto Chatarina Umbul Wahyuni Erjan Fikri Evirosa Juliartha Simanjuntak Evita Mayasari Farhat Fini Meirisa Alnaz Firjatu, Putri Chalya Gembira Arkemo Situmorang Harahap, Desy Aryani Intan, T.Kemala Jelita Siregar Kevin Kevin Kusumawati, R. Lia Lubis, Oryza Sativa M. Ichwan Mariedina, Causa Trisna Muhammad Ichwan Muhammad Ichwan Nasution, Luthfi Umam Hakim Novrina Situmorang Nuraiza Meutia Pandia, Pandiaman Rachman, Indryani Rahmi Rahmi Rambe, Ismatul Fauziah Raudah Putri Syari Rina Yunita Ririe Fachrina Malisie Sembiring, Rosita J. Sinaga, Bintang YM. Sulviani, Nurul Syahfira A Syahna Toru, Matsumoto Wahyuni, Arlinda S. Widjaja, Sry Suryani Yetty Machrina