Primer Design for Sequencing DENV-4 to be used in Molecular Epidemiology of Dengue Viruses in Jakarta

Nadia Tita Indriasti, Beti Ernawati Dewi

Research output: Contribution to journalArticlepeer-review

Abstract

This study is aimed to recognize the characteristic of dengue patients in Jakarta, to identify the genotype of dengue virus serotype 4 (DENV-4) in Jakarta and to design primer for DENV-4. This cross-sectional study involved 100 patients with positive result of NS-1 examination. This research was conducted at the Department of Microbiology, Faculty of Medicine, Universitas Indonesia. The specimen were collected from March until December 2010, while the virus sequencing was perfomed between January and October 2011. The patients were categorized based on RT-PCR confirmation results, gender, age and domicile. The identification of serotipe of dengue viruses is determined by RT-PCR examination. The genotipe of DENV-4 is determined by sequencing of whole genome of DENV-4 by using Genetyx software. The primer design for DENV-4 was carried out by using Primer Designer program. The highest prevalence of DF was found among patients of 14-20 years old (41,4%) and those who lived in East Jakarta. The ratio of DF between male and female is not significantly different. The predominant serotype circulating in Jakarta was DENV 2. The genotype of serotype 4 circulating in Jakarta in 2010-2011 was type II. Primer design for dengue serotype 4 had a size of 406-692 base pairs, no hairpin developed, dimer formation was within two and Tm difference ranged from 0 to 8C
Original languageEnglish
JournaleJournal Kedokteran Indonesia
Volume2
Issue number2
DOIs
Publication statusPublished - Aug 2014

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