Genetic signatures coupled with lineage shift characterise endemic evolution of Dengue virus serotype 2 during 2015 outbreak in Delhi, India

Choudhary, Manish; Gupta, Ekta; Sharma, Shvetank; Hasnain, Nadeem; Agarwala, Pragya

doi:10.1111/tmi.12898

Cited by 13 publications

(13 citation statements)

References 41 publications

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“…Sequences that demonstrated high non-synonymous ratios (positive selection) were subsequently analysed for selection pressure using the Selecton server (Stern et al, 2007;Choudhary et al, 2017). These were the DENV-1 PrM and DENV-2 E sequences.…”

Section: Methodsmentioning

confidence: 99%

Phylogenetic analysis of partial pre-membrane and envelope sequences of dengue viruses circulating in India

Kasirajan

Mammen

Kannangai

et al. 2019

International Journal of Infectious Diseases

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A B S T R A C TObjective: Phylogenetic characteristics of circulating Indian dengue viruses (DENV) were analysed using partial pre-membrane (PrM) and envelope (E) sequences. An immunodominant region was analysed for mutations, and alignment with common DENV PCR primers and probes was determined. Methods: Published Indian PrM and E DENV sequences were analysed with hitherto unpublished PrM sequences from this study site. Alignments of DENV were checked for mutations in an immunodominant region and against the commonly used PCR primers and probes. Results: All four serotypes of DENV circulate in India. Genotype (G) GIII and GI of DENV-1 co-circulated in the south with significant PrM mutations before and after 2012. DENV-2 American genotype was first reported after which the Cosmopolitan genotype co-circulated with it in the southwest. The Cosmopolitan strain has been the only DENV-2 genotype circulating, although an Asian American genotype was recently reported. Significant mutations were found in the E region of DENV-2 strains. DENV-3 strains were GIII across the country. DENV-4 GI from the south and west has now spread across India. No significant mutations were found for DENV-3 or DENV-4. Indian strains showed mutations in an immunodominant region of the E gene and in the regions targeted by commonly used PCR primers and probes. Conclusions: The genetic variability of Indian DENV with co-circulation of multiple genotypes suggests that genotype surveillance is crucial to determining the composition of dengue vaccines and understanding their contribution to epidemiology, virus fitness and pathogenesis. Some mutations seen in an immunodominant region of the E gene may allow these viruses to evade host immune cells. The mutations in the regions targeted by commonly used primers and probes necessitate higher degeneracy.

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Section: Methodsmentioning

confidence: 99%

Phylogenetic analysis of partial pre-membrane and envelope sequences of dengue viruses circulating in India

Kasirajan

Mammen

Kannangai

et al. 2019

International Journal of Infectious Diseases

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“…On account of sequence variability, dengue serotypes are further classified into distinct genotypes that differ >6% within a single serotype [ 10 – 12 ].Emergence of new serotype or lineage \ clade shifts in circulating DENV genotypes led to enhanced severity during dengue outbreaks [ 13 – 17 ]. A lineage shift in DENV-3 was reported to cause severe disease in Sri Lanka [ 13 , 18 ].…”

Section: Introductionmentioning

confidence: 99%

Co-circulation of all the four dengue virus serotypes and detection of a novel clade of DENV-4 (genotype I) virus in Pune, India during 2016 season

et al. 2018

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Dengue is the most common mosquito-borne viral infection in tropical and sub-tropical countries. In recent years, India has reported increased incidences of concurrent infection with multiple serotypes of dengue viruses (DENV). In the present study, we have characterized DENV circulating during a single season of 2016 in Pune, India. A total of 64 serum samples from NS1 ELISA positive dengue patients were used for PCR amplification of CprM region of the viral genome and sequencing. Phylogenetic analysis documented circulation of all the four DENV serotypes with predominance of DENV-2 (40.6%). DENV genotyping classified DENV-1 to Genotype V, DENV-2 to Genotype IV, DENV-3 to Genotype III and DENV-4 to Genotype I. Further analysis revealed emergence of a novel clade (D) of genotype I of DENV-4. Subsequent isolation of three DENV-4 viruses in cell culture followed by complete genome sequence analysis confirmed this observation. Additionally, a new genotype within serotype-4 with >6.7% sequence variation from other genotypes was identified. This first report of significant co-circulation of all the four serotypes in a single outbreak in Pune reconfirms need for molecular monitoring of DENV.

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“…Dengue infection is caused by any of the four-dengue virus serotypes and presents with varied clinical features ranging from fever, headache, myalgia, arthralgia, rash, bleeding from different sites, retro-orbital pain to severe fatal neurologic manifestations presenting amongst all segments of society. [2][3][4][5][6][7][8][9][10][11][12][13][14][15] The present prospective study, which was done during dengue outbreak from the department of Pediatrics at a tertiary care teaching hospital in Kolkata, West Bengal in 2019, outlined the increased manifestation of atypical features with special emphasis on neurological manifestations thus indicating a paradigm shift in clinical features of this disease as compared to previous studies. 3-…”

Section: Introductionmentioning

confidence: 86%

The changing clinico-demographic profile of dengue infection in children: a hospital-based study from eastern India

Purkait

Basu

2020

Int J Community Med Public Health

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Background: Many parts of India, including the eastern regions, are now endemic for the dengue infection with increased recognition of atypical neurological manifestations apart from the classical clinical features.Methods: This prospective study was conducted in the department of paediatrics in a tertiary care teaching hospital in eastern India from July 2019 to November 2019 to determine the changing trends of the clinical features in the dengue patients of this region in the recent years among paediatric populations. All the serologically confirmed dengue patients admitted during this period satisfying the inclusion criteria were enrolled in the study population and classified as per new WHO-2009 classification into: dengue fever without warning signs (DF), dengue fever with warning signs (DFWS) and severe dengue (SD). Detailed history, clinical and laboratory parameters were recorded and analysed for all children.Results: Out of the total of 110 cases, 16 cases (14.55%) were DF, 80 cases (72.73%) were DFWS and 14 cases (12.73%) were SD. The commonest age group affected (63.64 %) was between 4-<10 years. The male: female ratio of cases was 1.68:1. Besides classical clinical manifestations, we observed CNS involvement in nine cases (8.18%). Among them, five patients had dengue encephalitis, two patients had dengue encephalopathy, one patient had hypokalemic paralysis and one patient had Guillain-Barré syndrome. All the patients were treated as per standard guidelines.Conclusions: Clinician must be aware of such association during dengue outbreak because early diagnosis and appropriate supportive care can reverse this potentially fatal disease.

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Genetic signatures coupled with lineage shift characterise endemic evolution of Dengue virus serotype 2 during 2015 outbreak in Delhi, India

Abstract: We observed evolution of a distinct lineage of DENV-2 strains on the Indian subcontinent with possible changes in endemic circulating dengue strains that might give rise to more pathogenic strains.

Cited by 13 publications

References 41 publications

Phylogenetic analysis of partial pre-membrane and envelope sequences of dengue viruses circulating in India

Phylogenetic analysis of partial pre-membrane and envelope sequences of dengue viruses circulating in India

Co-circulation of all the four dengue virus serotypes and detection of a novel clade of DENV-4 (genotype I) virus in Pune, India during 2016 season

The changing clinico-demographic profile of dengue infection in children: a hospital-based study from eastern India

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