Abstract
Background: All major Indonesian cities are endemic to dengue hemorrhagic fever. Dengue Virus (DENV) consists of 4 serotypes and each serotype is grouped into several genotypes. Previous studies have shown that Indonesian DENV serotype 3 (DENV-3) was grouped in genotype I, that consist of different cluster in which responsible for epidemic strain. This study aims to determine the genetic diversity of DENV-3 obtained from Balikpapan which located in Borneo, Indonesia in 2015–2016. Methods and materials: We analyzed 14 sequences of DENV-3 from Balikpapan together with Indonesian epidemic strain in 1988, 1998 and 2004 using Neighbor Joining approach. Other sequences originated from neighboring countries in Asia were also analyzed together in this study. Results: Phylogenetic tree analysis shows that DENV-3 circulated in Balikpapan were similar with the strain that has previously circulated in Indonesia and neighboring countries. Some strains were clustered with epidemic strains reported in 1998 and 2004. Balikpapan's strains were grouped in 4 different clusters with nucleotide differences range between 0.1 to 4%. Conclusion: DENV-3 from Balikpapan has obvious genetic diversity and need further attention regarding the emergence of epidemic strains.
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