An Outbreak of Dengue Virus Serotype 2 Cosmopolitan Genotype in Nepal, 2017

Overview

Journal Viruses

Publisher MDPI

Specialty Microbiology

Date 2021 Aug 28

PMID 34452310

Citations 9

Authors

Mya Myat Ngwe Tun

Kishor Pandey

Takeshi Nabeshima

Aung Kyaw Kyaw

Mandira Adhikari

Sandra Kendra Raini

Shingo Inoue

Shyam Prakash Dumre

Basu Dev Pandey

Kouichi Morita

Affiliations

Soon will be listed here.

Abstract

Dengue virus (DENV) is one of the most prevalent neglected tropical diseases, with half of the world's population at risk of infection. In Nepal, DENV was first reported in 2004, and its prevalence is increasing every year. The present study aimed to obtain and characterize the full-length genome sequence of DENV from the 2017 outbreak. Hospital-based surveillance was conducted in two provinces of Nepal during the outbreak. Acute-phase serum samples were collected from 141 clinically suspected dengue patients after the rainy season. By serological and molecular techniques, 37 (26.9%) and 49 (34.8%), respectively, were confirmed as dengue patients. The cosmopolitan genotype of DENV-2 was isolated from 27 laboratory-confirmed dengue patients. Genomic analysis showed many amino acid substitutions distributed mainly among the E, NS3, and NS5 genes. Phylogenetic analyses of the whole genome sequence revealed two clades (Asian and Indian) among DENV-2 isolates from Nepal. The DENV isolates from hilly and Terai areas were similar to Asian and Indian strains, respectively. Further genomic study on different DENV serotypes is warranted to understand DENV epidemics in Nepal, where there are limited scientific resources and infrastructure.

Citing Articles

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References

Shah Y, Katuwal A, Pun R, Pant K, Sherchand S, Pandey K . Dengue in western Terai region of Nepal. J Nepal Health Res Counc. 2012; 10(21):152-5. View

Rodriguez-Roche R, Gould E . Understanding the dengue viruses and progress towards their control. Biomed Res Int. 2013; 2013:690835. PMC: 3722981. DOI: 10.1155/2013/690835. View

Pandey B, Rai S, Morita K, Kurane I . First case of Dengue virus infection in Nepal. Nepal Med Coll J. 2005; 6(2):157-9. View

Malla S, Thakur G, Shrestha S, Banjeree M, Thapa L, Gongal G . Identification of all dengue serotypes in Nepal. Emerg Infect Dis. 2008; 14(10):1669-70. PMC: 2609890. DOI: 10.3201/eid1410.080432. View

Murray N, Quam M, Wilder-Smith A . Epidemiology of dengue: past, present and future prospects. Clin Epidemiol. 2013; 5:299-309. PMC: 3753061. DOI: 10.2147/CLEP.S34440. View

Lustig Y, Wolf D, Halutz O, Schwartz E . An outbreak of dengue virus (DENV) type 2 Cosmopolitan genotype in Israeli travellers returning from the Seychelles, April 2017. Euro Surveill. 2017; 22(26). PMC: 6518345. DOI: 10.2807/1560-7917.ES.2017.22.26.30563. View

Wilder-Smith A, Ooi E, Vasudevan S, Gubler D . Update on dengue: epidemiology, virus evolution, antiviral drugs, and vaccine development. Curr Infect Dis Rep. 2011; 12(3):157-64. DOI: 10.1007/s11908-010-0102-7. View

Bundo K, Igarashi A . Antibody-capture ELISA for detection of immunoglobulin M antibodies in sera from Japanese encephalitis and dengue hemorrhagic fever patients. J Virol Methods. 1985; 11(1):15-22. DOI: 10.1016/0166-0934(85)90120-x. View

Ngwe Tun M, Muthugala R, Nabeshima T, Rajamanthri L, Jayawardana D, Attanayake S . Unusual, neurological and severe dengue manifestations during the outbreak in Sri Lanka, 2017. J Clin Virol. 2020; 125:104304. DOI: 10.1016/j.jcv.2020.104304. View

10.

Pandey B, Pandey K, Neupane B, Shah Y, Adhikary K, Gautam I . Persistent dengue emergence: the 7 years surrounding the 2010 epidemic in Nepal. Trans R Soc Trop Med Hyg. 2015; 109(12):775-82. DOI: 10.1093/trstmh/trv087. View

11.

Prajapati S, Napit R, Bastola A, Rauniyar R, Shrestha S, Lamsal M . Molecular phylogeny and distribution of dengue virus serotypes circulating in Nepal in 2017. PLoS One. 2020; 15(7):e0234929. PMC: 7340289. DOI: 10.1371/journal.pone.0234929. View

12.

Kyaw A, Ngwe Tun M, Moi M, Nabeshima T, Soe K, Thwe S . Clinical, virological and epidemiological characterization of dengue outbreak in Myanmar, 2015. Epidemiol Infect. 2017; 145(9):1886-1897. PMC: 9203345. DOI: 10.1017/S0950268817000735. View

13.

Suzuki K, Phadungsombat J, Nakayama E, Saito A, Egawa A, Sato T . Genotype replacement of dengue virus type 3 and clade replacement of dengue virus type 2 genotype Cosmopolitan in Dhaka, Bangladesh in 2017. Infect Genet Evol. 2019; 75:103977. DOI: 10.1016/j.meegid.2019.103977. View

14.

Lanciotti R, Calisher C, Gubler D, Chang G, Vorndam A . Rapid detection and typing of dengue viruses from clinical samples by using reverse transcriptase-polymerase chain reaction. J Clin Microbiol. 1992; 30(3):545-51. PMC: 265106. DOI: 10.1128/jcm.30.3.545-551.1992. View

15.

Morita K, Tanaka M, Igarashi A . Rapid identification of dengue virus serotypes by using polymerase chain reaction. J Clin Microbiol. 1991; 29(10):2107-10. PMC: 270281. DOI: 10.1128/jcm.29.10.2107-2110.1991. View

16.

Darriba D, Taboada G, Doallo R, Posada D . jModelTest 2: more models, new heuristics and parallel computing. Nat Methods. 2012; 9(8):772. PMC: 4594756. DOI: 10.1038/nmeth.2109. View

17.

Halstead S . Dengue. Lancet. 2007; 370(9599):1644-52. DOI: 10.1016/S0140-6736(07)61687-0. View

18.

Dang T, Pham M, Bui H, Le D . First Full-Length Genome Sequence of Dengue Virus Serotype 2 Circulating in Vietnam in 2017. Infect Drug Resist. 2020; 13:4061-4068. PMC: 7667145. DOI: 10.2147/IDR.S275645. View

19.

Katoh K, Standley D . MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol. 2013; 30(4):772-80. PMC: 3603318. DOI: 10.1093/molbev/mst010. View

20.

Grabherr M, Haas B, Yassour M, Levin J, Thompson D, Amit I . Full-length transcriptome assembly from RNA-Seq data without a reference genome. Nat Biotechnol. 2011; 29(7):644-52. PMC: 3571712. DOI: 10.1038/nbt.1883. View