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In Silico Analysis of C-Type Lectins as Co-Infection Receptors of Dengue and Chikungunya Viruses in Aedes aegypti Sazali, Munawir; Soesilohadi, R. C. Hidayat; Wijayanti, Nastiti; Wibawa, Tri; Ansori, Arif Nur Muhammad
Makara Journal of Science Vol. 28, No. 1
Publisher : UI Scholars Hub

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Abstract

Aedes aegypti is a primer vector of dengue virus (DENV) and chikungunya virus (CHIKV). The susceptibility of mosquitoes to DENV and CHIKV depends on their recognition receptor of pathogens. C-type lectins (CTLs) are an important mediator of virus infection in A. aegypti. This study aims to identify potential receptors and determine the binding affinity between ligand–receptor interaction, CTLs and virus envelopes (DENV-1, 2, 3, and 4 and CHIKV) interaction based on in silico analysis. Sample sequences were obtained from GenBank (NCBI), and 10 CTLs were acquired from VectorBase. Homology modeling based on a minimum standard of 20% was processed using the SWISS-MODEL server. Molecule interaction was visualized as tertiary protein structure in PyMol V1.7.4. Homology modeling revealed all 3D protein model scores to be at 20%. The highest homology modeling score of 98.72% is obtained for CHIKV envelope protein (KF925315.1). The CTL GenBank ID: AAEL014382-PA has the lowest score at −1407.20 kcal/mol. The predicted mechanism of DENV-1, 2, 3, and 4 co-infections with CHIKV-1 is through the binding of the viral envelope to the CTL. Interaction analysis showed that the viruses enter through an endocytic mechanism. The results of homology modeling and lowest interaction energy could serve as the basis for in vivo studies on virus co-infection in A. aegypti. This information illustrates that CTL receptors facilitate DENV and CHIKV co-infection in A. aegypti.
Histopathological evaluation of hepatic tissue of yellow Rasbora (Rasbora lateristriata) exposed to paracetamol Septriani, Nur Indah; Saribu, Ruth Liananda Citra Dolok; Apriliyani, Tia; Karlina, Ina; Pusparini, Nur Ainun Oktavia; Zusrina, Laili Mufli; Sari, Ria Vinola Septhya; Allimi, Hayu Swari; Supraitno, Murtiadi Erlan; Saeed, Faisal; Simanungkalit, Eben Ezer; Paramita, Pradnya; Retnoaji, Bambang; Sofyantoro, Fajar; Wijayanti, Nastiti
Biological Environment and Pollution Vol. 3 No. 1 (2023)
Publisher : Association for Scientific Computing, Electronics, and Engineering (ASCEE)

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.31763/bioenvipo.v3i1.595

Abstract

Excessive consumption of paracetamol may lead to hepatic necrosis, nephrotoxicity, extra-hepatic lesions, and even fatality in both humans and animals. The objective of this study was to examine the histological changes in the hepatocytes of yellow rasbora (Rasbora lateristriata) exposed to paracetamol. The fish were subjected to varying concentrations of paracetamol over a period of four days. Group I served as the control group without any paracetamol exposure. Groups II, III, and IV were exposed to 2, 3, and 4 mg/L of paracetamol, respectively. A total of six individuals were allocated to each of the four experimental groups. The histological analysis of the hepatic tissue following paracetamol exposure at concentrations of 2, 3, and 4 mg/L revealed hepatic damage characterized by picnosis, necrosis, and vacuolization. In summary, higher concentrations of paracetamol were associated with an increase in the severity of histopathological changes in the hepatic tissues of yellow rasbora.
The Cytotoxicity of Agaro-Oligosaccharides and Neoagaro-Oligosaccharides on Macrophage Cells Pratitis, Visi Endah; Puspitasari, Pinki Anggrahini; Hanbal, Mayland Muhammad; Tsabitah, Khansa; Juliadmi, Dian; Saksono, Budi; Wijayanti, Nastiti
Mutiara Medika: Jurnal Kedokteran dan Kesehatan Vol 24, No 2 (2024): July
Publisher : Universitas Muhammadiyah Yogyakarta

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.18196/mmjkk.v24i2.21059

Abstract

Agarose is a polysaccharide from red algae. Enzymatic hydrolysis of agarose can produce Agaro-Oligosaccharidess (AOS) and Neoagaro-Oligosaccharidess (NAOS). Different times of enzymatic hydrolysis can produce different types of AOS and NAOS based on their degree of polymerization (DPs). This study aims to examine the cytotoxicity of AOS and NAOS with different hydrolysis times on the macrophage cell line RAW 264.7. The parameters used were the percentage of cell viability and IC50 value. The cytotoxicity test using MTT assay and One-way ANOVA were used as statistical tests. The results showed that AOS-0 at a concentration below 125 µg/mL was not toxic and showed moderate toxicity up to a high concentration of 1000 µg/mL, while AOS hydrolyzed for 24 h (AOS-24) was not toxic to RAW 264.7 cells at all concentrations tested. The different results were shown in all NAOS samples, which were highly toxic to RAW 264.7 cells in the 125 to 1000 µg/mL, indicating that it was concentration dependent. The results showed that different hydrolysis times caused differences in the structure of AOS and NAOS compounds and influenced the toxicity level. Research development for further studies on antioxidants and anti-inflammatory needs more attention to the sample type and hydrolysis time.
Sistem Memori dan Pembelajaran pada Mamalia susilowati, ari; Widiyanto, Slamet; Kusindarta, Dwi Liliek; Wijayanti, Nastiti
Berkala Ilmiah Biologi Vol 15 No 3 (2024)
Publisher : Fakultas Biologi Universitas Gadjah Mada

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22146/bib.v15i3.17604

Abstract

Memory formation in mammals involves complex stages, from initial learning to long-term storage. This review highlights key memory-related genes and proteins such as SYNGAP1, Arc/Arg3.1, BDNF, FOXP2, COMT, NR3C1, KIBRA, H-Ras, ERK1/2, and other genes. Mammals serve as important models in memory research due to their evolutionary proximity to humans, providing insights into brain structures such as the hippocampus and prefrontal cortex, which are crucial in memory processes. Molecular mechanisms such as transcription, translation, synaptic plasticity, long-term potentiation (LTP), and long-term depression (LTD), as well as neurotransmitters like glutamate, GABA, acetylcholine, dopamine, and serotonin, are comprehensively discussed with a focus on small, large mammals, and humans. Neurotransmitters affect various functions, including emotion, cognition, memory, learning, and motor functions in test animals. Disruptions in neurotransmitter homeostasis have been linked to numerous neurological and neurodegenerative disorders, highlighting the need to understand the complex mechanisms behind memory in mammals. A brief overview of genes and neurotransmitters related to memory and learning will provide insights and considerations in basic neurobiology and biomedical research.
Research trends in microRNA profiling as a biomarker for lung adenocarcinoma via liquid biopsy: A bibliometric analysis Kartika, Aprilia I.; Dafip, Muchamad; Wijayanti, Nastiti; Heriyanto, Didik S.; Haryana, Sofia M.; Taroeno-Hariadi, Kartika W.
Narra J Vol. 5 No. 1 (2025): April 2025
Publisher : Narra Sains Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.52225/narra.v5i1.1372

Abstract

Research related to the development of diagnostic biomarkers in lung adenocarcinoma in various countries is important. Research on microRNA as a biomarker in lung adenocarcinoma varies depending on the population, specimen, and technology used for profiling and validation. The aim of this study was to map and analyze bibliometric data of publications related to the topic of microRNA as a candidate biomarker in lung adenocarcinoma and to determine any potential research gaps. A total of 8,506 articles were collected from Crossref, Google Scholar, Semantic Scholar, PubMed, and Scopus databases using Harzing's Publish or Perish platform. A systematic search was conducted using four keywords: “profiling,” “validating,” “microRNA,” and “lung adenocarcinoma,” and synonyms of these keywords based on the MeSH on NCBI. The data extraction process followed the chart from PRISMA-P. The article’s elimination was conducted using Mendeley Desktop and then was analyzed based on the authors' keywords using VOSviewer and Biblioshiny. A bibliometric analysis of 692 relevant articles identified four primary research clusters: (1) microRNA (19 keywords), which highlights its potential as a biomarker for early detection and diagnosis; (2) lung adenocarcinoma (18 keywords), reflecting advancements in lung cancer research; (3) liquid biopsy (19 keywords), emphasizing the growing interest in non-invasive diagnostic methods; and (4) bioinformatics (nine keywords), underscoring the role of computational approaches in transcriptomic analysis. As a primary topic, microRNAs have become a focal point of research for diagnosing lung cancer across various stages and as biomarkers for cancer cell proliferation, invasion, migration, and metastasis. Numerous studies have demonstrated the successful application of microRNAs in lung cancer diagnosis in the last decade, although the reported types of microRNAs are inconsistent. Therefore, further research on this topic should be continuously conducted, particularly to validate the types of microRNAs and the types of environments that influence them.
Histopathological Effects of Mangosteen (Garcinia mangostana L.) Peel Decoction on Betta Fish (Betta sp.) Liver Ariesti, Wiwin; Aeniah, Siti; Halim, Shuha Ma’muriyah; Sofyantoro, Fajar; Wijayanti, Nastiti; Retnoaji, Bambang; Nuriliani, Ardaning; Saragih, Hendry T.S.S.G.; Rohmah, Zuliyati; Widiyanto, Slamet; Pusparini, Nur Ainun Oktavia; Empra, Desi Eka Putri; Septriani, Nur Indah
Biota Vol 17 No 2 (2024)
Publisher : Universitas Islam Negeri Mataram

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Abstract

Mangosteen (Garcinia mangostana L.) peel contains bioactive compounds known for their health benefits, yet potential toxicity at certain doses remains a concern. This study evaluates the histopathological effects of mangosteen peel decoction on the liver of Betta fish (Betta sp.), a sensitive model organism. Mangosteen peel decoction was prepared and administered to Betta fish at concentrations of 5, 25, and 50 ppm, with a control group receiving no treatment. Fish were observed for changes in swimming activity and appetite over five days. Liver tissues were collected, processed, and analyzed histologically to assess tissue damage including vacuolization, pyknosis, hemorrhage, and necrosis. Data were analyzed using the Kruskal-Wallis and Mann-Whitney tests. Behavioral analysis indicated a dose-dependent reduction in swimming activity and appetite in treated groups. Histopathological examination revealed significant liver damage across all treatment groups, with higher concentrations of decoction correlating with increased hemorrhage, pyknosis, and necrosis. Vacuolization was highest in the control group and lowest in the 50-ppm group. The overall hepatic damage was categorized as moderate, with the control group showing the least damage. Mangosteen peel decoction induced significant hepatic damage in Betta fish, highlighting the cytotoxic effects at higher doses. The observed behavioral and histopathological changes underscore the need for careful consideration of decoction concentrations to avoid adverse effects in aquatic organisms. This study provides crucial insights into the toxicological impacts of mangosteen peel decoction on fish liver health, emphasizing the importance of dose regulation in practical applications. Further research is recommended to explore protective measures and alternative treatments to mitigate liver damage.
n-Hexane Fraction of Cucumis melo L. Cultivar Gama Melon Parfum: An in vitro Study in MCF7 and T47D Cells Line Salamah, Rohmi; Wijayanti, Nastiti; Widiyanto, Slamet
Molecular and Cellular Biomedical Sciences Vol 9, No 2 (2025)
Publisher : Cell and BioPharmaceutical Institute

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.21705/mcbs.v9i2.558

Abstract

Background: Cucumis melo a melon species, typically has a sweet taste. Some cultivars are known for their distinctive bitter flesh due to its higher levels of cucurbitacin. Cucurbitacin is semipolar compound that has anticancer properties. However, the anticancer effects of cucurbitacin from gama melon parfum (GMP) have not been widely studied. The use of n-Hexane as a non-polar solvent in GMP melon fractionation is to dissolve the non-polar parts of the plant. However, Cucurbitacin was found in the n-hexane fraction of Cucurbita pepo L. Therefore, this study will investigate the presence of Cucurbitacin in the n-Hexane fraction and its effects on breast cancer cells T47D and MCF7.Materials and methods: Dry simplicia of GMP melon fruit were macerated using methanol and fractionated using n-hexane. The presence of cucurbitacin was detected using the high-performance liquid chromatography (HPLC) method. Cell cytotoxicity tests were assessed using the MTT assay, with concentrations of 7.8125, 15.625, 31.25, 62.5, and 125 µg/mLResults: Cucurbitacin compounds were detected in the n-hexane fraction at a concentration of 7.6 µg/mL per 10 mg of n-hexane fraction. MCF7 cell viability was lower than that of T47D cells across all concentrations tested. MCF7 cell viability was below 50% at a concentration of 62.5 µg/mL. In contrast, T47D cell viability remained at 100% even at the highest concentration of 125 µg/mL. The IC50 value of MCF7 cells was 43.5 µg/mL.Conclusion: The cucurbitacin content in the n-Hexane fraction was 7.6 µg/mL per 10mg fraction. At this concentration, it moderately inhibits the proliferation of MCF7 cells.Keywords: gama melon parfum, cucurbitacin, HPLC, T47D, MCF7
In-Silico Optimization of α-agarase for Sustainable Bioprospecting of Agaro-oligosaccharides: In-Silico Optimization of α-agarase for Sustainable Bioprospecting of Agaro-oligosaccharides Hanbal, Mayland Muhammad; Wijayanti, Nastiti; Tsabitah, Khansa; Zulfa, Amania; Tasania, Nadia Nisa; Saksono, Budi
Journal of Tropical Life Science Vol. 15 No. 2 (2025): In Press
Publisher : Journal of Tropical Life Science

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.11594/gg6mkk56

Abstract

Enzymatic synthesis is a sustainable alternative to chemical methods, offering high substrate specificity, reduced byproducts, and environmentally friendly processes. Despite its advantages, agaro-oligosaccharides (AOS) production largely depends on chemical synthesis due to the limited exploration of α-agarase. Therefore, this study aims to identify, analyze, and redesign a suitable α-agarase candidate for AOS production using in-silico approaches. Biological databases from CAZy, UniProtKB, and PDB, along with journal references, were used to curate α-agarase candidates. Non-catalytic regions were removed to retain only the GH96 catalytic domain, with a His-tag added for easier purification. Subsequently, structural modeling using SWISS-MODEL was performed to facilitate blind docking with CB-Dock2. Modeling also facilitated physicochemical properties predictions incorporating OphPred, Protein-Sol, and SCooP for pH, solubility, and thermal stability. The results showed that AgaA33, obtained from Thalassomonas agarivorans JAMB-A33, was selected due to its high annotation score and optimal temperature. Structural modeling and blind docking confirmed that the functional domains were preserved after redesign. In-silico physicochemical assessments revealed that the redesigned enzyme exhibited improved pH tolerance and thermal stability, despite a slight reduction in solubility. This study showed the use of computational tools for enzyme redesign and showed the potential of α-agarase as a green and sustainable biocatalyst for AOS production. By combining database-driven candidate selection with in-silico structural and functional analyses, these results set the foundation for further optimization of α-agarase to meet industrial needs. Future efforts must focus on improving solubility and refining activity predictions to fully realize the enzyme’s potential for eco-friendly bioprocesses.
Comparative Scanning Electron Microscopy Study on Scale Variations in Indonesian Cultivated Koi Fish (Cyprinus rubrofuscus Lacepede, 1803) Andrian, Krisna Noli; Wihadmadyatami, Hevi; Wijayanti, Nastiti; Karnati, Srikanth; Haryanto, Aris
Jurnal Medik Veteriner Vol. 8 No. 2 (2025): October
Publisher : Universitas Airlangga

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.20473/jmv.vol8.iss2.2025.242-252

Abstract

Koi (Cyprinus rubrofuscus Lacepede, 1803) is a highly favored ornamental fish due to its beauty and wide range of variations in Indonesia, categorized by color, patterns, and scales. Some variants are distinguished by color, while others, such as Ginrin, Doitsu, and Shusui, have unique scale types. Despite visible differences, microscopic scale variations remain unexplored. SEM studies in other fish species offer insights into scale ultrastructure, providing opportunities for comparison. Therefore, this study aimed to uncover the microscopic structure of four types of koi fish, namely Doitsu, Ginrin, Shusui, and common scale. Koi fish were obtained from breeders in Yogyakarta, Indonesia, and acclimatized in an aquarium. Scale extraction was conducted under anesthesia using MS-222 and the cleaned scales were then subjected to dehydration, fixation, and affixed to double-sided adhesive tape for SEM analysis. Furthermore, coating with conductive gold enabled observation using SEM at 10 kV, allowing examination of scale features such as focus, radii, circuli, and lepidonts at various magnifications. The results showed that based on SEM analysis, significant differences were observed in scale structures among koi variants. At low magnification, differences in tubercles and lepidonts were observed, particularly between common and Ginrin scale types. Shusui scale showed unique characteristics with a closer arrangement of circuli and distinctive lepidont shapes. At higher magnification, clearer details of radii, circuli, and lepidonts were observed, further highlighting the differences among koi variants. SEM provides crucial insights into the morphology of scales in koi fish variants, showing unseen macroscopic differences and distinct features such as tubercles and lepidont frequency.
Identification of Pathogenic Leptospira in Rat and Shrew Populations Using rpoB Gene and Its Spatial Distribution in Boyolali District Widiastuti, Dyah; Sholichah, Zumrotus; Agustiningsih, Agustiningsih; Wijayanti, Nastiti
Kesmas Vol. 11, No. 1
Publisher : UI Scholars Hub

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Abstract

Leptospirosis merupakan masalah kesehatan di Indonesia. Hingga April 2014, dilaporkan kasus leptospirosis yang ditularkan oleh tikus di Kabupaten Boyolali dengan angka kematian 83,3%. Genus Leptospira terdiri dari ratusan serovar dan tipe genetik yang hidup di pelbagai jenis habitat. Pengelompokan spesies Leptospira berdasarkan gen rpoB dapat digunakan karena tingkat polimorfisme gen tersebut tinggi. Penelitian ini bertujuan untuk mengidentifikasi serovar bakteri Leptospira pada populasi tikus di Kabupaten Boyolali menggunakan analisis hubungan kekerabatan didasarkan pada polimorfisme gen rpoB dan menggambarkan distribusi spasial tikus positif Leptospira di Kabupaten Boyolali. Penelitian potong lintang dilaksanakan pada bulan April 2014 di Desa Sindon Kecamatan Ngemplak dan Desa Jeron Kecamatan Nogosari, Kabupaten Boyolali. Pemeriksaan Polymerase Chain Reaction dilakukan pada 104 sampel ginjal tikus dari dua lokasi penelitian. Analisis spasial sederhana dilakukan untuk memetakan sebaran tikus yang positif Leptospira. Terdapat enam sampel positif gen rpoB Leptospira pada Rattus tanezumi, Rattus argentiventer dan Suncus murinus. Lima dari keenam sampel menunjukkan hubungan kekerabatan yang paling dekat dengan Leptospira borgpetersenii serovar Sejroe berdasarkan gen rpoB. Satu isolat tidak memiliki hubungan kekerabatan yang dekat dengan serovar manapun yang masuk dalam cluster. Analisis spasial berdasarkan jarak aktivitas harian tikus menunjukkan tikus positif Leptospira ditemukan berada dalam kisaran 30 meter dan 150 meter dari penderita leptospirosis. Leptospirosis becomes health problem in Indonesia. Until April 2014, cases of leptospirosis transmitted by rats were reported in Boyolali with case fatality rate (CFR) 83.3%. Leptospira genus consists of various serovars and genetic types living in different environment. Classification of Leptospira species based on rpoB gene could be used as this gene has high level of polymorphism. This study aimed to identify Leptospira serovars in rat population using kinship analysis based on rpoB gene polymorphism and to describe spatial distribution of rats with Leptospira positive in Boyolali District. A cross sectional study was conducted on April 2014 at Sindon Village in Ngemplak Subdistrict and Jeron Village in Nogosari Subdistrict, Boyolali District. Polymerase Chain Reaction test was performed on 104 rat kidney samples from the two locations of study. Spatial analysis was conducted to map distribution of rats with Leptospira positive. There were six positive rpoB gene samples in Rattus tanezumi, Rattus argentiventer and Suncus murinus. Five of six positive samples showed the closest genetic kinship to Leptospira borgpetersenii serovar Sejroe based on rpoB gene. One isolate did not have a close genetic kinship to any serovar included in the cluster. Spatial analysis based on home range buffer zone showed that rats with Leptospira positive were found in 30 meter and 150 meter from leptospirosis patients.
Co-Authors . Sismindari Abdul Rahman Siregar, Abdul Rahman Abrory Agus Cahya Pramana Adi Sofyan Ansori, Muhammad Aeniah, Siti Agustiningsih Agustiningsih Akira Hosoyama Allimi, Hayu Swari Amalia, Nur Rofika Ayu Shinta Andi Mahendra Andrian, Krisna Noli Apriliyani, Tia Ardaning Nuriliani ARI SUSILOWATI Ariesti, Wiwin Arif Luthfi Nurul Huda Aris Haryanto Atsushi Yamazoe Aushia Tanzih Al Haq Bambang Hariwiyanto Bambang Retnoaji BUDI SAKSONO Camelia Herdini Ch. Retna Handayani Dafip, Muchamad Diani Mentari Dwi Liliek Kusindarta Dyah Widiastuti Empra, Desi Eka Putri ERLIN LISTIYANINGSIH Fajar Sofyantoro Halim, Shuha Ma’muriyah Hanbal, Mayland Muhammad Hendry Tri Sakti Saragih Hera Nirwati Heriyanto, Didik S. Hevi Wihadmadyatami Hideaki Nojiri Ibnu Agus Ariyanto Jajah Fachiroh, Jajah JAKA WIDADA Juliadmi, Dian Karlina, Ina Karnati, Srikanth Kartika W. Taroeno-Hariadi Kartika, Aprilia I. Lisna Hidayati Mei Ria Santi Michael Kann Muhammad Adnan Mumtazah, Dzul Fithria Munawir Sazali Murwantoko . Naima, Mirtani Nenny Sri Mulyani Ni Wayan Erly Sintya Dewi Nuhamunada, Matin Peni Indrayudha Pertiwi, Gian Aditya Pradnya Paramita Pratitis, Visi Endah Priyambada, Fajar Purnomo Hadi Pusparini, Nur Ainun Oktavia Puspitasari, Pinki Anggrahini Putra, Hendy Eka R.C. Hidayat Soesilohadi Ramadhani, Eka Rarastoeti Pratiwi Rinda Binugraheni, Rinda Rohmah, Zuliyati Saeed, Faisal Salamah, Rohmi Sari, Ria Vinola Septhya Saribu, Ruth Liananda Citra Dolok Septriani, Nur Indah Setiawibawa, Raden Aditya Aryandi Shinta Hartanto Simanungkalit, Eben Ezer Slamet Widiyanto Sofia M. Haryana Sofia Mubarika Haryana Subchan, Aditya Nur Supraitno, Murtiadi Erlan Sutaryo1 S, Sutaryo1 T. Trijoko Tasania, Nadia Nisa Titis Widowati, Titis To'bungan, Nelsiani Tri Rini Nuringtyas Tri Wibawa Triska Desi Sundari Tsabitah, Khansa Wulansari, Riska Yundari, Yundari Zulfa, Amania Zulfadhli Zulfadhli Zumrotus Sholichah Zusrina, Laili Mufli ‘Aliyah, Siti Hamidatul