Phylogenetic Analysis of Dengue Virus Type 3 Strains Primarily Isolated in 2013 from Surabaya, Indonesia

Kotaki, Tomohiro; Yamanaka, Akira; Mulyatno, Kris Cahyo; Labiqah, Amaliah; Sucipto, Teguh Hari; Churrotin, Siti; Soegijanto, Soegeng; Konishi, Eiji; Kameoka, Masanori

doi:10.7883/yoken.67.227

Cited by 14 publications

(7 citation statements)

References 20 publications

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“…The isolates were closely related to strains from other cities in Indonesia, i.e. Surabaya [21, 47] and Purwokerto [22], and also a strain from Singapore. An interesting finding is shown by one isolate, SMD-032 (lineage 6), which generated a basal node with the most recent common ancestors (TMRCA) analysis revealed that this isolate may have been circulating in East Kalimantan since circa 1998 (Fig.…”

Section: Resultsmentioning

confidence: 75%

Multiple introductions of dengue virus strains contribute to dengue outbreaks in East Kalimantan, Indonesia, in 2015–2016

Sasmono

Kalalo

Trismiasih

et al. 2019

Virol J

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Background Dengue fever is a febrile disease caused by dengue virus (DENV), which affects people throughout the tropical and subtropical regions of the world, including Indonesia. East Kalimantan (Borneo) province suffered a dramatic increase in dengue cases in 2015 and 2016, making it the province with the second highest incidence of dengue in Indonesia. Despite this, dengue in East Kalimantan is understudied; leaving transmission dynamics of the disease in the area are mostly unknown. In this study, we investigate the factors contributing to the outbreaks in East Kalimantan. Methods Prospective clinical and molecular virology study was conducted in two main cities in the province, namely Samarinda and Balikpapan, in 2015–2016. Patients’ clinical, hematological, and demographic data were recorded. Dengue detection and confirmation was performed using NS1-antigen and IgG/IgM antibody detection. RT-PCR was conducted to determine the serotypes of the virus. Phylogenetic analysis was performed based on envelope gene sequences. Results Three hundred patients with suspected dengue were recruited. Among these, 132 (44%) were diagnosed with dengue by NS1 antigen and/or nucleic acid detection. The majority of the infections (60%) were primary, with dengue hemorrhagic fever (DHF) the predominant manifestation (71.9%). Serotyping detected all four DENV serotypes in 112 (37.3%) cases, with the majority of patients (58.9%) infected by DENV-3. Phylogenetic analysis based on envelope gene sequences revealed the genotypes of the viruses as DENV-1 Genotype I, DENV-2 Cosmopolitan, and DENV-3 Genotype I. Most virus strains were closely-related to strains from cities in Indonesia. Conclusions Our observations indicate that multiple introductions of endemic DENV from surrounding cities in Indonesia, coupled with relatively low herd immunity, were likely responsible for the outbreak of the dominant viruses. The study provides information on the clinical spectrum of the disease, together with serology, viral genetics, and demographic data, which will be useful for better understanding of dengue disease in Borneo. Electronic supplementary material The online version of this article (10.1186/s12985-019-1202-0) contains supplementary material, which is available to authorized users.

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Section: Resultsmentioning

confidence: 75%

Multiple introductions of dengue virus strains contribute to dengue outbreaks in East Kalimantan, Indonesia, in 2015–2016

Sasmono

Kalalo

Trismiasih

et al. 2019

Virol J

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“…Genetically, ten isolates of Bali DENV-3 were grouped into Genotype I (Fig 3) which is the common DENV-3 genotype found in Indonesia [14,18,30,40,41]. The Bali 2015 isolates were grouped together with isolates of imported cases to Australia and Taiwan and those from Surabaya and Jakarta [9,41–43] The Bali 2015 DENV-3 isolates apparently were not as divergent as DENV-1 and -2, in which only two major lineages were observed. This might suggest that the DENV-3 that caused outbreaks in Bali were the local/endemic strains that have been circulating in the region for decades and not those introduced from outside of Indonesia.…”

Section: Discussionmentioning

confidence: 99%

Dengue in Bali: Clinical characteristics and genetic diversity of circulating dengue viruses

et al. 2017

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A high number of dengue cases are reported annually in Bali. Despite the endemicity, limited data on dengue is available for Bali localities. Molecular surveillance study was conducted to explore the clinical and virological characteristics of dengue patients in urban Denpasar and rural Gianyar areas in Bali during the peak season in 2015. A total of 205 adult dengue-suspected patients were recruited in a prospective cross-sectional study. Demographic and clinical information were obtained, and dengue screening was performed using NS1 and IgM/IgG ELISAs. Viral RNA was subsequently extracted from patients’ sera for serotyping using conventional RT-PCR and Simplexa Dengue real-time RT-PCR, followed by genotyping with sequencing method. We confirmed 161 patients as having dengue by NS1 and RT-PCR. Among 154 samples successfully serotyped, the DENV-3 was predominant, followed by DENV-1, DENV-2, and DENV-4. Serotype predominance was different between Denpasar and Gianyar. Genotyping results classify DENV-1 isolates into Genotype I and DENV-2 as Cosmopolitan Genotype. The classification grouped isolates into Genotype I and II for DENV-3 and DENV-4, respectively. Clinical parameters showed no relationship between infecting serotypes and severity. We observed the genetic diversity of circulating DENV isolates and their relatedness with historical data and importation to other countries. Our data highlights the role of this tourist destination as a potential source of dengue transmission in the region.

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“…This abstract based on the reviewed of some studies that had been done in 2008-2014. 20,21 Based on this result the monitoring of emergence imported or mutated strain of Dengue Virus in human being and mosquito emergence should be done. Therefore continuous surveillance of circulating viruses is required to predict the risk of DHF and DF.…”

Section: Resultsmentioning

confidence: 99%

Fever as Indicator to Secondary Infection in Dengue Viral Infection

Soegijanto

Nuryandari²,

Churrotin

et al. 2018

IJTID

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Dengue Virus Infections are distributed in tropical and sub-tropical regions and transmitted by the mosquitoes such as Aedes aegypti and Aedes albopictus. Dengue virus can cause dengue fever, dengue hemorrhagic fever and dengue shock syndrome or dengue and severe dengue classified by World Health Organization. Beside it concurrent infection virus salmonella had been found some cases who showed fever more than 7 days. Concurrent infection with two agents can result in an illness having overlapping symptoms creating a diagnostic dilemma for treating physician, such as dengue fever with typhoid fever. The aim of this research is detection of dengue virus and secondary infection with Salmonella typhi in patients suspected dengue virus infection. Detection of dengue virus and Salmonella typhi using immunochromatography test such as NS1, IgG/IgM for dengue virus infection, and IgM/IgG Salmonella and blood culture. The fifty children with dengue virus infection came to Soerya hospital and 17 cases suspected dengue virus infection, five cases showed a positive NS1 on the second day of fever and one case concurrent with clinical manifestation of convulsi on the third days of fever there were five cases only showed positive. It was showed in this study that on the fourth to six day of fever in dengue virus infection accompanied by antibody IgM & IgG dengue. There were 12 cases showed the clinical manifestation of concurrent dengue viral infection and Salmonella, all of them showed a mild clinical manifestation and did not show plasma leakage and shock. In this study we found the length of stay of concurrent Dengue Virus Infection and Salmonella infection is more than 10 days. These patients were also more likely to have co-existing haemodynamic disturbances and bacterial septicaemia which would have required treatment with inotropes and antibiotics. This idea is very important to make update dengue viral management to decrease mortality in outbreak try to gain new prevention method before the occurrence of outbreak.

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Phylogenetic Analysis of Dengue Virus Type 3 Strains Primarily Isolated in 2013 from Surabaya, Indonesia

Cited by 14 publications

References 20 publications

Multiple introductions of dengue virus strains contribute to dengue outbreaks in East Kalimantan, Indonesia, in 2015–2016

Multiple introductions of dengue virus strains contribute to dengue outbreaks in East Kalimantan, Indonesia, in 2015–2016

Dengue in Bali: Clinical characteristics and genetic diversity of circulating dengue viruses

Fever as Indicator to Secondary Infection in Dengue Viral Infection

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