BETI ERNAWATI DEWI
Department of Microbiology, Faculty of Medicine University of Indonesia, Jl. Pegangsaan Timur 16 Jakarta 10320 Indonesia

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Five Unique Amino Acid Residues of Hemagglutinin (HA) Proteins of Swine Influenza A (H1N1) Detected in 2009 in Jakarta, Indonesia YASMON, ANDI; MUHAYAR, YULIANTY; SETIAWATY, VIVI; DEWI, BETI ERNAWATI; BELA, BUDIMAN; IBRAHIM, FERA
Microbiology Indonesia Vol 6, No 2 (2012): June 2012
Publisher : Indonesian Society for microbiology

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Abstract

Nine HA genes of influenza A (H1N1) viruses originating from swine which were detected in 2009 in Jakarta, Indonesia, were characterized in this study. Nasopharyngeal and/or pharyngeal samples were extracted to obtain viral RNA genomes. Amplification of the HA segment was performed by using the reverse transcription-polymerase chain reaction (RT-PCR), and followed by nested PCR in cases of RT-PCR negative. DNA sequencing was performed by using eight overlapping primers. All the Jakarta strains were closely related to vaccine strain A/California/07/2009. Nine amino acid changes were found in the Jakarta strains, and 5 (P100S, S220T, G239D, R240Q, and I338V) of those were unique to all Jakarta strains with respect to strain A/California/07/2009 used to produce vaccine. An I338V substitution was detected in a cleavage site of HA and no amino acid changes were detected in potential sites for N-linked glycosylation. For seven sites (positions 131, 158, 160, 183, 187, 222, and 227) playing an important role in viral attachment to host receptor, none of the expected amino acid changes was detected; however, a S220T substitution close to amino acid 222 was found in all the Jakarta strains. All amino acid changes potentially affect the pathogenicity of the viruses and the efficacy of strain A/California/07/2009 in neutralizing the Jakarta strains.
Some epitopes conservation in non structural 3 protein dengue virus serotype 4 Siregar, Tegar A. P.; Sudiro, T. Mirawati; Lestari, Whinie; Dewi, Beti Ernawati
Health Science Journal of Indonesia Vol 6, No 2 Des (2015)
Publisher : Badan Penelitian dan Pengembangan Kesehatan

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AbstrakLatar belakang: Protein Non Struktural 3 (NS3) virus dengue menginduksi respon antibodi netralisasidan respon sel T CD4+ dan CD8+, serta berperan dalam replikasi virus. Protein NS3 memiliki epitopepitopsel T dan B yang terdapat perbedaan kelestarian pada berbagai strain virus dengue serotipe 4(DENV-4). Penelitian ini bertujuan untuk mengetahui kelestarian epitop sel T dan B pada protein NS3DENV-4 strain-strain dunia dan keempat serotipe virus dengue strain Indonesia.Metode: Penelitian ini dilakukan di Departemen Mikrobiologi Fakultas Kedokteran UI sejak Juni 2013 - April2014. Sekuens asam amino NS3 DENV-4 strain 081 didapatkan setelah produk PCR gen NS3 DENV-4 081disekuensing. Epitop-epitop sel T dan sel B protein NS3 DENV-4 081 dianalisis dan dibandingkan dengansekuens asam amino protein NS3 dari 124 strain DENV-4 di dunia dan keempat serotipe DENV strain Indonesia.Strain-strain dunia merupakan strain yang ada di benua Amerika (Venezuela, Colombia, dll) dan Asia (Cina,Singapura, dll). Referensi posisi epitop sel T dan B protein NS3 diperoleh dari laporan penelitian terdahulu.Hasil: Delapan epitop sel T dan 2 epitop sel B dari protein NS3 DENV-4 081 ternyata identik dan lestaripada protein NS3 dari 124 strain DENV-4 dunia. Epitop sel B di posisi asam amino 537-544 pada proteinNS3 DENV-4 081 ternyata identik dan lestari dengan epitop sel B protein NS3 dari keempat serotipeDENV strain Indonesia.Kesimpulan: Kelestarian yang luas dari epitop sel T dan B pada hampir seluruh strain DENV-4 dunia danserotipe-serotipe DENV strain Indonesia. (Health Science Journal of Indonesia 2015;6:126-31)Kata kunci: virus dengue, protein NS3, epitop sel T, epitop sel B AbstractBackground: Non Structural 3 (NS3) protein of dengue virus (DENV) is known to induce antibody, CD4+and CD8+ T cell responses, and playing role in viral replication. NS3 protein has T and B cell epitopes,which has conservation difference between DENV-4 strains. This study aimed to identify conservation ofT and B cell epitope in NS3 protein among DENV-4 strains and four serotypes DENV of Indonesia strains.Methods: Research was held at the Department of Microbiology, Faculty of Medicine, UniversitasIndonesia, June 2013 to April 2014. NS3 amino acid sequence of DENV-4 081 strain was obtained afterNS3 gene of DENV-4 081 PCR products were sequenced. T and B cell epitopes of NS3 protein of DENV-4081 strain were analysed and compared to NS3 proteins of 124 DENV-4 strains around the world and fourserotypes of Indonesia strains. World strains were isolated from America (i.e. Venezuela, Colombia, etc.)and Asia (i.e. China, Singapore, etc.). For the comparison, T and B cell epitope positions of NS3 proteinwere obtained from published report.Results: Eight positions of T cell epitopes and two positions of B cell epitopes of NS3 DENV-4 081 wereidentical and conserved to NS3 protein of 124 DENV-4 strains around the world. B cell epitope of NS3 DENV-4 081 protein at aa 537-544 was found identical and conserved to four serotypes DENV of Indonesia strains.Conclusion: This wide conservation of T and B epitopes in almost all DENV-4 strains around the worldand all serotypes of Indonesia strains. (Health Science Journal of Indonesia 2015;6:126-31)Keywords: dengue virus, NS3 protein, T cell epitope, B cell epitope
Cloning and Expression of Nonstructural Protein NS1 of Dengue Virus Serotype 2 DEWI, BETI ERNAWATI; FITHRIYAH, FITHRIYAH; RUKMANA, ANDRIANSJAH; PAISAL, PAISAL; LARASATI, DEKA; SUDIRO, TJAHJANI MIRAWATI
Microbiology Indonesia Vol 6, No 1 (2012): March 2012
Publisher : Indonesian Society for microbiology

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.5454/mi.6.1.3

Abstract

Early diagnosis of dengue virus (DENV) infection is affirmative for patient management and control of the disease. Detection of nonstructural-1 (NS1) antigen has been proven to provide early detection of DENV infection. Commercial NS1 antigen assays are available in Indonesia with variable sensitivity. In an attempt to develop an NS1-based diagnostic test, we successfully cloned NS1 gene of DENV2 to a glutathione Stransferase- based vector pGEX6P-1 in Escherichia coli system. The recombinant protein (pG2NS12) was expressed in E. coli BL21. After induction with isopropyl-β-D-thiogalactoside 0.1 mM for 4 h at 25 °C a recombinant protein GST-NS1 with molecular size of approximately 75 kDa was  obtained. The fusion protein was insoluble and found in the pellet fraction of the cell lysate. Addition of lysozyme (10 mg mL-1) and DNase-I (7.2 mg mL-1) in the lysis buffer was necessary to collect proteins from the pellet fraction. The proteins in the cell pellet were fractionated through Sephadex-G100 column, and GST-NS1 was further purified with Glutathione-Sepharose 4B beads. To obtain pure recombinant NS1 protein to be used in the immunization of mice, the fusion protein was cut with PreScission Protease® by addition of 0.075% Triton-X 100 was necessary to cut the fusion protein. We found that antibodies that recognized the recombinant NS1 protein and DENV2 virus were produced in mice immunized with purified NS1 protein. Therefore, our recombinant NS1 could be used to produce antibody that is potentially useful for developing diagnostic assay to determine the presence of dengue virus NS1 antigen in patient sera.
RESPON IMUN SELULER DAN HUMORAL MENCIT YANG DIIMUNISASI KANDIDAT VAKSIN DNA DENGUE BERBASIS GEN preM-E SEROTIPE 4 STRAIN INDONESIA Urfa, Eleanor Louana; Dewi, Beti Ernawati; Sudiro, T. Mirawati
Majalah Kedokteran Andalas Vol 37, No 2 (2014): Published in September 2014
Publisher : Faculty of Medicine Andalas University

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.22338/mka.v37.i2.p75-85.2014

Abstract

AbstrakInfeksi virus dengue (DENV) terkadang tanpa gejala atau dapat menunjukkan gejala klinis yang luas, berkisar dari sindrom flu ringan (dengue fever/DF), dengue haemorrhagic fever (DHF), hingga syok hipovolemik (dengue shock syndrome/DSS). Hipotesis yang berkaitan dengan tingkat keparahan infeksi DENV meliputi mekanisme antibody-dependent enhancement (ADE) dan keterlibatan sitokin. Hingga kini, belum ada obat antiviral yang efektif untuk mengeradikasi dan mencegah infeksi DENV, sehingga pencegahan berupa vaksin perlu dikembangkan. Kandidat vaksin DNA berbasis gen preM-E serotipe 4 strain Indonesia yang dikembangkan pada penelitian terdahulu disuntikkan ke mencit ddY, kemudian diuji tantang dengan DENV. Pada hari ke-4 dan ke-21 pascauji tantang, keberadaan sitokin IL-2 dalam serum dideteksi dengan metode ELISA. Serum hari ke-21 digunakan dalam uji ADE menggunakan sel K562. Sel limpa diambil pada hari ke-21 pascauji tantang, kemudian keberadaan IL-2 dan antibodi in vitro dideteksi dengan metode ELISA. Tingkat IL-2 tertinggi terdapat pada serum hari ke-4 pada kelompok mencit yang tidak diimunisasi namun diuji tantang, yaitu sebesar 69,83 pg/ml. Konsentrasi IL-2 terendah ditunjukkan oleh kelompok mencit yang diimunisasi namun tidak diuji tantang, yaitu 0 pg/ml. Pengukuran IL-2 pada serum dan supernatan sel limpa hari ke-21 tidak mendapatkan konsentrasi IL-2. Titer antibodi tertinggi terdapat pada kelompok sel limpa mencit yang diimunisasi, diuji tantang, dan diinduksi in vitro dengan DENV. Hasil uji ADE menunjukkan tingkat pengenceran serum berpengaruh terhadap jumlah sel yang terinfeksi oleh DENV, namun tidak ditemukan kondisi netralisasi dan enhancing. Berdasarkan metode yang digunakan, kandidat vaksin DNA tersebut dapat memicu respon imun seluler dan humoral.AbstractDengue virus (DENV) infection can be asymptomatic or cause wide range of clinical symptoms, from mild febrille ilness (dengue fever/DF), dengue haemorrhagic fever (DHF), to hipovolemic shock (dengue shock syndrome/DSS). Hypotheses related to the severity of DENV infection mechanisms including antibody-dependent enhancement (ADE) and cytokines involvement. Until now, there are no effective antiviral drugs can eradicate and prevent DENV infection, therefore the development of vaccines is the alternative. DNA vaccine candidate preM-E serotype 4 strain of Indonesia which was developed in previous studies injected into ddY mice, then challenge with DENV. At day 4 and 21 post-challenge, serum was taken to detect the presence of cytokines IL-2 using ELISA method. Day 21 serum used in the antibody-dependent enhancement (ADE) assay using K562 cell line. Splenocytes were taken at day 21 post-challenge to measure the presence of IL-2 and in vitro antibody using ELISA method. Measurement of IL-2 on day 4 serum produced the highest levels of IL-2 (69.83 pg/ml) in the group of non-immunized, challenged mice, whereas the lowest concentration (0 pg/ml) shown by the group of immunized, non-challenged mice. Measurement of IL-2 in serum and splenocytes day 21 did not get the concentration of IL-2. The highest result of in vitro antibody measurements shown by the group of splenocytes from immunized, challenged mice then in vitro induced with DENV. ADE assay results showed that level of serum dilution has effect on the number of dengue-infected cells, but netralization and enhancing condition were not found in this assay. Based on this methods, the DNA vaccine candidate can trigger cellular and humoral immune responses.
ANALISIS GENETIK GEN NONSTRUKTURAL 3 DENGUE VIRUS SEROTYPE 4 STRAIN INDONESIA Haeni, Linlin; Dewi, Beti Ernawati
Medika Kartika : Jurnal Kedokteran dan Kesehatan Vol 3 No 1 (2019): Medika Kartika : Jurnal Kedokteran dan Kesehatan
Publisher : Fakultas Kedokteran Universitas Jenderal Achmad Yani

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Demam Berdarah Dengue (DBD) adalah penyakit yang disebabkan virus dengan vektor nyamuk yang paling cepat menyebar di dunia. Penyebab DBD  adalah virus RNA famili flaviviridae yang disebut virus dengue (DENV). Genom DENV terdiri dari tiga protein struktural yaitu capsid (C), protein membran (prM), dan protein envelop (E) serta tujuh gen protein nonstuktural yaitu NS1, NS2a, NS2b, NS3, NS4a, NS4b, dan NS5. Protein  NS3 mengandung epitop yang dapat dikenali oleh sistem imun humoral maupun selular oleh karena itu protein NS3 merupakan target potensial bagi pengembangan vaksin dengue. Penelitian ini diawali dengan sekuensing pada gen NS3  DENV-4 IDS 96/10. Dari hasil  sekuensing dilakukan analisis filogenetik dan analisis epitop. Analisis filogenetik  menunjukkan  gen NS3 IDS 96 /10 berada dalam satu clade dengan strain yang diisolasi dari Cina (2010), Singapura (2010) dan Thailand (2000). Pada gen NS3 DENV-4 IDS 96/10 terdapat epitop yang dapat dikenali oleh sel limfosit T CD4+ yaitu epitop #3 pada posisi asam amino (213-227) , #9A(243-257), #4(251-265), #5(258-272), # 6(266-280), #7(273-287) yang mempunyai urutan asam amino sama antar strain yang dibandingkan. Pada posisi epitop #8(281-295) terdapat variasi urutan asam amino. Asam amino pada posisi 500-508 dikenali oleh sel limfosit T CD8+ mempunyai urutan yang sama antar strain yang dibandingkan, dan asam amino pada posisi 526-531yang dikenali oleh limfosit B mempunyai urutan asam amino yang sama antar strain yang dibandingkan. Pengenalan epitop-epitop  tersebut oleh limfosit T dan limfosit B menjadi dasar pengembangan vaksin khususnya vaksin yang khusus untuk strain Indonesia. DOI : 10.35990/mk.v3n1.p13-24