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Phylogenetic and evolutionary analyses of dengue viruses isolated in Jakarta, Indonesia

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Abstract

Dengue has affected Indonesia for the last five decades and become a major health problem in many cities in the country. Jakarta, the capital of Indonesia, reports dengue cases annually, with several outbreaks documented. To gain information on the dynamic and evolutionary history of dengue virus (DENV) in Jakarta, we conducted phylogenetic and evolutionary analyses of DENV isolated in 2009. Three hundred thirty-three dengue-suspected patients were recruited. Our data revealed that dengue predominantly affected young adults, and the majority of cases were due to secondary infection. A total of 171 virus isolates were successfully serotyped. All four DENV serotypes were circulating in the city, and DENV-1 was the predominant serotype. The DENV genotyping of 17 isolates revealed the presence of Genotypes I and IV in DENV-1, while DENV-2 isolates were grouped into the Cosmopolitan genotype. The grouping of isolates into Genotype I and II was seen for DENV-3 and DENV-4, respectively. Evolutionary analysis revealed the relatedness of Jakarta isolates with other isolates from other cities in Indonesia and isolates from imported cases in other countries. We revealed the endemicity of DENV and the role of Jakarta as the potential source of imported dengue cases in other countries. Our study provides genetic information regarding DENV from Jakarta, which will be useful for upstream applications, such as the study of DENV epidemiology and evolution and transmission dynamics.

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Acknowledgements

The authors are grateful to all the patients and clinicians involved in this study and the help of colleagues from the immunology and virology laboratories of the Center for Research and Development of Biomedical and Basic Health Technology, NIHRD, Indonesia Ministry of Health. This study was funded by the NIHRD, Indonesia Ministry of Health, and a SINAS grant from the Indonesia Ministry of Research, Technology, and Higher Education.

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Author notes

  1. C. S. Whinie Lestari and Benediktus Yohan have contributed equally to this work.

Authors and Affiliations

  1. Center for Research and Development of Biomedical and Basic Health Technology, National Institute of Health Research and Development, Ministry of Health, Jakarta, Indonesia

    C. S. Whinie Lestari & Anisa Yunita

  2. Eijkman Institute for Molecular Biology, Ministry of Research, Technology, and Higher Education, Jakarta, Indonesia

    Benediktus Yohan, Febrina Meutiawati, Rahma Fitri Hayati, Hidayat Trimarsanto & R. Tedjo Sasmono

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  1. C. S. Whinie Lestari
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Contributions

CSWL and RTS conceived and designed the study. CSWL and AY collected the samples. BY, AY, FM, and RFH performed the experiments. CSWL, BY, HT, and RTS analyzed the data. BY wrote the first draft. CSWL, HT, and RTS edited the manuscript. All authors read and approved the final manuscript.

Corresponding author

Correspondence to R. Tedjo Sasmono.

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Conflicts of interest

All authors declare that they have no conflict of interest.

Research involving human participants and/or animals

Involvement of human subjects in this study was approved by the National Institute for Health Research and Development (NIHRD) Research Ethics Commission, ethics approval number LB.03.02/KE/4537/2009—June 24, 2009.

Informed consent

Written informed consents were obtained from the patients or their legal guardians.

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Edited by Lorena Passarelli.

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Lestari, C.S.W., Yohan, B., Yunita, A. et al. Phylogenetic and evolutionary analyses of dengue viruses isolated in Jakarta, Indonesia. Virus Genes 53, 778–788 (2017). https://doi.org/10.1007/s11262-017-1474-7

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