Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia
<p><strong><em>Latar Belakang: </em></strong><em>Demam berdarah dengue disebabkan oleh infeksi virus dengue (DENV) yang terdiri atas serotipe 1 sampai dengan serotipe 4. Masing-masing serotipe dibedakan lagi menjadi beberapa genotipe. Studi ini dilakukan untuk men...
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| Format: | Article |
| Language: | English |
| Published: |
Badan Penelitian dan Pengembangan Kesehatan
2016-12-01
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| Series: | Health Science Journal of Indonesia |
| Online Access: | http://ejournal.litbang.kemkes.go.id/index.php/HSJI/article/view/5474 |
| _version_ | 1818149233037934592 |
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| author | Reni Herman Hartanti Dian Ikawati Arie Ardiansyah Nugraha Agustiningsih Agustiningsih Masri Maha Sembiring |
| author_facet | Reni Herman Hartanti Dian Ikawati Arie Ardiansyah Nugraha Agustiningsih Agustiningsih Masri Maha Sembiring |
| author_sort | Reni Herman |
| collection | DOAJ |
| description | <p><strong><em>Latar Belakang: </em></strong><em>Demam berdarah dengue disebabkan oleh infeksi virus dengue (DENV) yang terdiri atas serotipe 1 sampai dengan serotipe 4. Masing-masing serotipe dibedakan lagi menjadi beberapa genotipe. Studi ini dilakukan untuk mendeteksi genotipe DENV yang bersirkulasi di lokasi surveilans sentinel dengue. </em></p> <p><strong><em>Metode:</em></strong><em> Untuk menentukan genotipe dilakukan analisis genetik menggunakan perangkat bioinformatik. Urutan nukleotida yang lengkap dari gen selubung DENV diperoleh melalui amplifikasi genetik menggunakan primer overlapping untuk masing-masing serotipe. Pohon filogenetik dibuat menggunakan perangkat lunak MEGA 6.0, metode Neighbor Joining dengan 1000 replikasi dan parameter Kimura-2. Sekuen nukleotida dari GenBank yang telah diketahui genotype DENV digunakan sebagai referen.<strong> </strong></em></p> <p><strong><em>Hasil:</em></strong><em> Jumlah sampel dengan gen selubung DENV yang dapat diamplifikasi adalah 64 dari 204 kasus yang terkonfirmasi. Empat belas sekuen dari DENV-1, 22 sekuen DENV-2, dan 28 sekuens DENV-3. Dari studi ini belum didapatkan sekuen untuk DENV-4. DENV-1 dan DENV-2 masing-masing masuk dalam kelompok genotipe I dan Cosmopolitan, sementara DENV-3 masuk dalam kelompok genotipe I. </em></p> <p><strong><em>Kesimpulan:</em></strong><em> Genotipe DENV<strong> </strong>di lokasi surveilans sentinel dengue sama dengan genotype yang sebelumnya dilaporkan bersirkulasi di Indonesia. </em><strong><em>(</em></strong><strong><em>Health Science Journal of Indonesia 2016;7(2):</em></strong><strong><em>69</em></strong><strong><em>-</em></strong><strong><em>74)</em></strong><em> </em></p> <p><strong><em> </em></strong></p> <p><strong><em>Kata kunci</em></strong><em>: surveilans sentinel dengue, virus dengue, genotype </em></p><p> </p><p><strong>Abstract </strong></p> <p><strong><em>Background</em></strong><em>: Dengue hemorrhagic fever was caused by dengue virus (DENV). This virus has four serotypes, DENV-1 to DENV-4, in which each serotype consists of various genotypes.</em> <em>This study present the distribution of DENV genotype circulate in dengue sentinel surveillance sites.</em><em> </em><em> </em></p> <p><strong><em>Methods:</em></strong><em> We performed molecular analyses using bioinformatics tools to identify genotype of DENV. </em><em>Sequencing targeting envelope gene was carried out on DENV-positive samples.</em><em> Full-length sequence of envelope gene was obtained using overlapping primers for DENV 1, 2, 3 and 4. Phylogenetic tree was generated by Neighbor Joining using MEGA 6.0 with 1000 bootstrap replications and Kimura 2-parameter model. Known genotype of DENV sequences from Indonesia and other countries obtained from GenBank were included in the analyses as references. </em></p> <p><strong><em>Results:</em></strong><em> A total of 64 complete coding sequences of envelope gene from DENV-1, DENV-2 and DENV-3 were successfully sequenced from 204 confirmed DENV cases. There are fourteen sequences of DENV-1, 22 sequences of DENV-2 and 28 sequences of DENV-3. Unfortunately, there was no complete coding sequence of envelope gene obtained for DENV-4. DENV-1 and DENV-2 were grouped into genotype I and cosmopolitan genotype, respectively. The DENV-3 was grouped into genotype I. </em><em>These viruses were belongs to various genotypes that have been circulating previously in Indonesia.</em></p> <p><strong><em>Conclusion:</em></strong><em> This finding suggests that the distribution of DENV genotype in sentinel sites remained stable.</em><strong><em> </em></strong><strong><em>(</em></strong><strong><em>Health Science Journal of Indonesia 2016;7(2):</em></strong><strong><em>69</em></strong><strong><em>-</em></strong><strong><em>74)</em></strong></p> <p><strong><em>Key words</em></strong><em>: dengue sentinel surveillance, dengue virus, genotype </em></p><p><em><br /></em></p><p> </p> |
| first_indexed | 2024-12-11T13:03:46Z |
| format | Article |
| id | doaj.art-9c63aaeac75a4c84a6133bfbe7b3cdfa |
| institution | Directory Open Access Journal |
| issn | 2087-7021 2338-3437 |
| language | English |
| last_indexed | 2024-12-11T13:03:46Z |
| publishDate | 2016-12-01 |
| publisher | Badan Penelitian dan Pengembangan Kesehatan |
| record_format | Article |
| series | Health Science Journal of Indonesia |
| spelling | doaj.art-9c63aaeac75a4c84a6133bfbe7b3cdfa2022-12-22T01:06:23ZengBadan Penelitian dan Pengembangan KesehatanHealth Science Journal of Indonesia2087-70212338-34372016-12-0172697410.22435/hsji.v7i2.5474.69-744548Genotypes of dengue virus circulate in dengue sentinel surveillance in IndonesiaReni HermanHartanti Dian IkawatiArie Ardiansyah NugrahaAgustiningsih AgustiningsihMasri Maha Sembiring<p><strong><em>Latar Belakang: </em></strong><em>Demam berdarah dengue disebabkan oleh infeksi virus dengue (DENV) yang terdiri atas serotipe 1 sampai dengan serotipe 4. Masing-masing serotipe dibedakan lagi menjadi beberapa genotipe. Studi ini dilakukan untuk mendeteksi genotipe DENV yang bersirkulasi di lokasi surveilans sentinel dengue. </em></p> <p><strong><em>Metode:</em></strong><em> Untuk menentukan genotipe dilakukan analisis genetik menggunakan perangkat bioinformatik. Urutan nukleotida yang lengkap dari gen selubung DENV diperoleh melalui amplifikasi genetik menggunakan primer overlapping untuk masing-masing serotipe. Pohon filogenetik dibuat menggunakan perangkat lunak MEGA 6.0, metode Neighbor Joining dengan 1000 replikasi dan parameter Kimura-2. Sekuen nukleotida dari GenBank yang telah diketahui genotype DENV digunakan sebagai referen.<strong> </strong></em></p> <p><strong><em>Hasil:</em></strong><em> Jumlah sampel dengan gen selubung DENV yang dapat diamplifikasi adalah 64 dari 204 kasus yang terkonfirmasi. Empat belas sekuen dari DENV-1, 22 sekuen DENV-2, dan 28 sekuens DENV-3. Dari studi ini belum didapatkan sekuen untuk DENV-4. DENV-1 dan DENV-2 masing-masing masuk dalam kelompok genotipe I dan Cosmopolitan, sementara DENV-3 masuk dalam kelompok genotipe I. </em></p> <p><strong><em>Kesimpulan:</em></strong><em> Genotipe DENV<strong> </strong>di lokasi surveilans sentinel dengue sama dengan genotype yang sebelumnya dilaporkan bersirkulasi di Indonesia. </em><strong><em>(</em></strong><strong><em>Health Science Journal of Indonesia 2016;7(2):</em></strong><strong><em>69</em></strong><strong><em>-</em></strong><strong><em>74)</em></strong><em> </em></p> <p><strong><em> </em></strong></p> <p><strong><em>Kata kunci</em></strong><em>: surveilans sentinel dengue, virus dengue, genotype </em></p><p> </p><p><strong>Abstract </strong></p> <p><strong><em>Background</em></strong><em>: Dengue hemorrhagic fever was caused by dengue virus (DENV). This virus has four serotypes, DENV-1 to DENV-4, in which each serotype consists of various genotypes.</em> <em>This study present the distribution of DENV genotype circulate in dengue sentinel surveillance sites.</em><em> </em><em> </em></p> <p><strong><em>Methods:</em></strong><em> We performed molecular analyses using bioinformatics tools to identify genotype of DENV. </em><em>Sequencing targeting envelope gene was carried out on DENV-positive samples.</em><em> Full-length sequence of envelope gene was obtained using overlapping primers for DENV 1, 2, 3 and 4. Phylogenetic tree was generated by Neighbor Joining using MEGA 6.0 with 1000 bootstrap replications and Kimura 2-parameter model. Known genotype of DENV sequences from Indonesia and other countries obtained from GenBank were included in the analyses as references. </em></p> <p><strong><em>Results:</em></strong><em> A total of 64 complete coding sequences of envelope gene from DENV-1, DENV-2 and DENV-3 were successfully sequenced from 204 confirmed DENV cases. There are fourteen sequences of DENV-1, 22 sequences of DENV-2 and 28 sequences of DENV-3. Unfortunately, there was no complete coding sequence of envelope gene obtained for DENV-4. DENV-1 and DENV-2 were grouped into genotype I and cosmopolitan genotype, respectively. The DENV-3 was grouped into genotype I. </em><em>These viruses were belongs to various genotypes that have been circulating previously in Indonesia.</em></p> <p><strong><em>Conclusion:</em></strong><em> This finding suggests that the distribution of DENV genotype in sentinel sites remained stable.</em><strong><em> </em></strong><strong><em>(</em></strong><strong><em>Health Science Journal of Indonesia 2016;7(2):</em></strong><strong><em>69</em></strong><strong><em>-</em></strong><strong><em>74)</em></strong></p> <p><strong><em>Key words</em></strong><em>: dengue sentinel surveillance, dengue virus, genotype </em></p><p><em><br /></em></p><p> </p>http://ejournal.litbang.kemkes.go.id/index.php/HSJI/article/view/5474 |
| spellingShingle | Reni Herman Hartanti Dian Ikawati Arie Ardiansyah Nugraha Agustiningsih Agustiningsih Masri Maha Sembiring Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia Health Science Journal of Indonesia |
| title | Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia |
| title_full | Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia |
| title_fullStr | Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia |
| title_full_unstemmed | Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia |
| title_short | Genotypes of dengue virus circulate in dengue sentinel surveillance in Indonesia |
| title_sort | genotypes of dengue virus circulate in dengue sentinel surveillance in indonesia |
| url | http://ejournal.litbang.kemkes.go.id/index.php/HSJI/article/view/5474 |
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