Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India
Objectives: To genotypically characterize dengue virus (DENV) isolates among dengue-infected children from 2012–13/2014–15 outbreaks in southern India. Methods: Children hospitalized with suspected dengue were tested for dengue RT-PCR targeting Capsid-preMembrane (C-prM) and Envelope (Env) regions....
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doaj-eabb43a281fb4302927d7f0b7fe385a62020-11-25T01:37:56ZengElsevierInternational Journal of Infectious Diseases1201-97122019-07-0184S34S43Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern IndiaSyed Fazil Ahamed0Vivek Rosario1Carl Britto2Mary Dias3Kaustuv Nayak4Anmol Chandele5Murali-Krishna Kaja6Anita Shet7Division of Infectious Diseases, St. John’s Research Institute, St. John’s National Academy of Health Sciences, Bangalore, 560034, Karnataka, India; The University of Trans-Disciplinary Health Sciences & Technology (TDU), Bangalore, 560064, Karnataka, IndiaDivision of Infectious Diseases, St. John’s Research Institute, St. John’s National Academy of Health Sciences, Bangalore, 560034, Karnataka, IndiaOxford Vaccine Group, Department of Paediatrics, University of Oxford, UKDivision of Infectious Diseases, St. John’s Research Institute, St. John’s National Academy of Health Sciences, Bangalore, 560034, Karnataka, India; Department of Microbiology, St. John’s Medical College Hospital, St. John’s National Academy of Health Sciences, Bangalore, 560034, Karnataka, IndiaICGEB-Emory Vaccine Centre, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067, IndiaICGEB-Emory Vaccine Centre, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067, IndiaICGEB-Emory Vaccine Centre, International Centre for Genetic Engineering and Biotechnology, Aruna Asaf Ali Marg, New Delhi, 110067, India; Department of Pediatrics, Emory University, 1760 Haygood Drive, Atlanta, GA, 30322, USAInternational Vaccine Access Center, Johns Hopkins Bloomberg School of Public Health, 415 N Washington St, Baltimore 21231, USA; Corresponding author.Objectives: To genotypically characterize dengue virus (DENV) isolates among dengue-infected children from 2012–13/2014–15 outbreaks in southern India. Methods: Children hospitalized with suspected dengue were tested for dengue RT-PCR targeting Capsid-preMembrane (C-prM) and Envelope (Env) regions. Following virologic confirmation (n = 612), a representative selection of DENV isolates (n = 99) were sequenced for C-prM, aligned using ClustalW and subjected to phylogenetic analysis by maximum-likelihood method in MEGA6. Results: In 2012–13 (n = 113), DENV-3 (44, 38.9%) and DENV-2 (43, 38.1%) predominated; DENV-1 (22, 19.5%) and DENV-4 (1, 0.9%) were less common. The pattern changed in 2014–15 (n = 499), when DENV-1 (329, 65.7%) predominated, followed by DENV-2 (97, 21.2%), DENV-3 (36, 6.7%) and DENV-4 (10, 2.0%). Multiple-serotype co-infections occurred in 2.7% and 5.4% in 2012–13 and 2014–15, respectively. Genotype III (GIII) of DENV-1 predominated (85.7%) in 2012–13, ceding to GI predominance (80.8%) in 2014–15. Among DENV-2, 71.9% (23/32) showed distinct clustering suggesting a new lineage, ‘GIVc’. All tested DENV-4 were GIC, whose clustering pattern showed the emergence of two distinct clades. Conclusions: New genotypic/lineage variations in DENV-1 and DENV-2 may have influenced the magnitude and severity of dengue epidemics in southern India during this period. These findings emphasize the role of active surveillance of DENV serotypes/genotypes in aiding outbreak control and vaccine studies. Keywords: Dengue virus, Serotyping, Sequencing, Phylogenetics, Genotypes, Lineageshttp://www.sciencedirect.com/science/article/pii/S1201971219300256 |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Syed Fazil Ahamed Vivek Rosario Carl Britto Mary Dias Kaustuv Nayak Anmol Chandele Murali-Krishna Kaja Anita Shet |
spellingShingle |
Syed Fazil Ahamed Vivek Rosario Carl Britto Mary Dias Kaustuv Nayak Anmol Chandele Murali-Krishna Kaja Anita Shet Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India International Journal of Infectious Diseases |
author_facet |
Syed Fazil Ahamed Vivek Rosario Carl Britto Mary Dias Kaustuv Nayak Anmol Chandele Murali-Krishna Kaja Anita Shet |
author_sort |
Syed Fazil Ahamed |
title |
Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India |
title_short |
Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India |
title_full |
Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India |
title_fullStr |
Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India |
title_full_unstemmed |
Emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern India |
title_sort |
emergence of new genotypes and lineages of dengue viruses during the 2012–15 epidemics in southern india |
publisher |
Elsevier |
series |
International Journal of Infectious Diseases |
issn |
1201-9712 |
publishDate |
2019-07-01 |
description |
Objectives: To genotypically characterize dengue virus (DENV) isolates among dengue-infected children from 2012–13/2014–15 outbreaks in southern India. Methods: Children hospitalized with suspected dengue were tested for dengue RT-PCR targeting Capsid-preMembrane (C-prM) and Envelope (Env) regions. Following virologic confirmation (n = 612), a representative selection of DENV isolates (n = 99) were sequenced for C-prM, aligned using ClustalW and subjected to phylogenetic analysis by maximum-likelihood method in MEGA6. Results: In 2012–13 (n = 113), DENV-3 (44, 38.9%) and DENV-2 (43, 38.1%) predominated; DENV-1 (22, 19.5%) and DENV-4 (1, 0.9%) were less common. The pattern changed in 2014–15 (n = 499), when DENV-1 (329, 65.7%) predominated, followed by DENV-2 (97, 21.2%), DENV-3 (36, 6.7%) and DENV-4 (10, 2.0%). Multiple-serotype co-infections occurred in 2.7% and 5.4% in 2012–13 and 2014–15, respectively. Genotype III (GIII) of DENV-1 predominated (85.7%) in 2012–13, ceding to GI predominance (80.8%) in 2014–15. Among DENV-2, 71.9% (23/32) showed distinct clustering suggesting a new lineage, ‘GIVc’. All tested DENV-4 were GIC, whose clustering pattern showed the emergence of two distinct clades. Conclusions: New genotypic/lineage variations in DENV-1 and DENV-2 may have influenced the magnitude and severity of dengue epidemics in southern India during this period. These findings emphasize the role of active surveillance of DENV serotypes/genotypes in aiding outbreak control and vaccine studies. Keywords: Dengue virus, Serotyping, Sequencing, Phylogenetics, Genotypes, Lineages |
url |
http://www.sciencedirect.com/science/article/pii/S1201971219300256 |
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