Spatio-temporal distribution analysis of circulating genotypes of dengue virus type 1 in western and southern states of India by a one-step real-time RT-PCR assay

Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases
K AlagarasuP S Shah

Abstract

Dengue virus type 1 (DENV-1) Asian and American/African (AM/AF) genotypes were reported to be co-circulating in southern and western states of India based on envelope (E) gene sequencing of few representative samples. The objective of the present study was to develop a one-step real-time RT-PCR to discriminate between Asian and AM/AF genotypes of DENV-1 and investigate the spatio-temporal distribution of the DENV-1 genotypes in southern and western states of India. A one-step real-time RT-PCR to discriminate the Asian and AM/AF genotypes of DENV-1 was developed and validated using 40 samples (17 Asian and 23 AM/AF), for which the envelope (E) gene sequence data was available. DENV-2, DENV-3 and DENV-4 isolates, one each and DENV negative samples (n = 17) were also tested by the assay. Additional 296 samples positive for DENV-1 from selected Southern and Western states of India were genotyped using the real-time RT-PCR assay. Among the samples used for validation, the genotyping results were concordant with sequencing results for 39 samples. In the one discordant sample which was positive for AM/AF by sequencing, the genotyping assay tested positive for both Asian and AM/AF genotype. DENV-2, DENV-3 and DENV-4 isolates were not r...Continue Reading

Citations

Feb 1, 2020·Indian Journal of Medical Microbiology·P Ferdinamarie SharmilaRahul Dhodapkar
Jul 1, 2019·Indian Journal of Medical Microbiology·P Ferdinamarie SharmilaRahul Dhodapkar
Aug 25, 2021·International Journal of Infectious Diseases : IJID : Official Publication of the International Society for Infectious Diseases·K AlagarasuUNKNOWN VRDL Team
Aug 28, 2021·Frontiers in Cellular and Infection Microbiology·S Gowri SankarA Alwin Prem Anand

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