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. 2014 Sep 2:6:ecurrents.outbreaks.0411252a8b82aa933f6540abb54a855f.
doi: 10.1371/currents.outbreaks.0411252a8b82aa933f6540abb54a855f.

Molecular investigation of 2013 dengue Fever outbreak from delhi, India

Nazia Afreen  1 , Farah Deeba  1 , Irshad Naqvi  2 , Mohammad Shareef  2 , Anwar Ahmed  3 , Shobha Broor  4 , Shama Parveen  1
Affiliations

Molecular investigation of 2013 dengue Fever outbreak from delhi, India

Nazia Afreen et al. PLoS Curr. .

Abstract

Dengue fever is a self-limiting, acute febrile disease which may aggravate to haemorrhage, plasma leakage and organ impairment in small number of cases. An outbreak of dengue fever occurred in Delhi, India after rainy season in the year 2013. Dengue virus specific RT-PCR was carried out on 378 suspected blood samples that were collected during the outbreak. Dengue virus was detected in 71% samples with highest number of patients infected by DENV-2 (86%) followed by DENV-1 (19 %) and DENV-3 (8%). Co-infection with more than one DENV serotype was detected in 14% samples. Twenty nine DENV strains (10 DENV-1, 12 DENV-2 and 7 DENV-3) were sequenced for partial envelope protein gene. Phylogenetic analysis grouped DENV-1 strains in the American African genotype, DENV-2 strains in the Cosmopolitan genotype and DENV-3 in Genotype III. We report the serotype distribution, circulating genotypes and partial envelope protein gene sequence of 29 DENV strains detected during 2013 outbreak in Delhi, India.

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Figures

Maximum Likelihood phylogenetic tree of Denv-1 strains
Maximum Likelihood phylogenetic tree of Denv-1 strains
The tree is based upon partial E protein gene sequences. The sequences obtained in the study are marked by black diamonds. Other strains are represented by their GenBank accession number followed by country of origin and last two digits of year of isolation. The numbers on nodes represent bootstrap values generated by 1000 replications. Bootstrap values of >65 are shown. The branch lengths are proportional to the number of nucleotide changes as indicated by the scale bar (0.05 substitutions per site). The tree is rooted by DENV-3 strain.
Maximum Likelihood phylogenetic tree of Denv-2 strains
Maximum Likelihood phylogenetic tree of Denv-2 strains
The tree is based upon partial E protein gene sequences. The sequences obtained in the study are marked by black diamonds. Other strains are represented by their GenBank accession number followed by country of origin and last two digits of year of isolation. The numbers on nodes represent bootstrap values generated by 1000 replications. Bootstrap values of >65 are shown. The branch lengths are proportional to the number of nucleotide changes as indicated by the scale bar (0.02 substitutions per site). The tree is rooted by the sylvatic DENV-2 strains.
Maximum Likelihood phylogenetic tree of DENV-3 strains
Maximum Likelihood phylogenetic tree of DENV-3 strains
The tree is based upon partial E protein gene sequences. The sequences obtained in the study are marked by black diamonds. Other strains are represented by their GenBank accession number followed by country of origin and last two digits of year of isolation. The numbers on nodes represent bootstrap values generated by 1000 replications. Bootstrap values of >65 are shown. The branch lengths are proportional to the number of nucleotide changes as indicated by the scale bar (0.05 substitutions per site). The tree is rooted by DENV-1 strain.
Maximum Likelihood phylogenetic tree based on C-prM gene region of A) DENV-1 strains B) DENV-2 strains C) DENV-3 strain
Maximum Likelihood phylogenetic tree based on C-prM gene region of A) DENV-1 strains B) DENV-2 strains C) DENV-3 strain
The sequences were obtained from co-infecting strains detected in the outbreak. The sequences obtained in the study are marked by black diamonds. Other strains are represented by their GenBank accession number followed by country of origin and last two digits of year of isolation. The numbers on nodes represent bootstrap values generated by 1000 replications. Bootstrap values of >65 are shown. The branch lengths are proportional to the number of nucleotide changes as indicated by the scale bar (0.05 substitutions per site). Prototype strains of all 4 dengue serotypes are included in the trees.
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