Genetic characterization of E2 region of Chikungunya virus circulating in Odisha, Eastern India from 2010 to 2011

Sahu, Abhipsa; Das, Biswadeep; Das, Mumani; Patra, Aparna; Biswal, Sudarsan; Kar, Supriya; Hazra, Rupenangshu K.

doi:10.1016/j.meegid.2013.04.037

Cited by 14 publications

(14 citation statements)

References 53 publications

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“…More studies are required to understand the effects of novel substitutions in the E2 region. Our study results along with published reports [ 20 , 21 , 22 , 23 ] indicate that there is a persistent change in the genome of CHIKV strains. Amino acid substitutions, which lead to structural changes of the proteins, lead to enhanced pathogenicity and virulence.…”

Section: Discussionsupporting

confidence: 82%

Genetic characterization of Chikungunya virus 2009 isolates from South India

Sarangan

Nayar²,

Mani

et al. 2018

Bioinformation

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Chikungunya Virus (CHIKV) is a single stranded positive sense enveloped RNA virus. Re-emergence of CHIKV caused a massive outbreak with severe clinical manifestation affecting multiple organs. The genetic diversity of CHIKV, which caused recurring outbreaks in India, was studied. Blood samples were collected from suspected human cases of CHIKV infection in Chennai, Tamil Nadu and three Northern districts of Kerala in Southern India during the CHIKV outbreak in 2009. A partial E2 gene segment was amplified by RT-PCR. Among 119 samples 37 samples were positive for CHIKV by RT-PCR. Phylogenetic analysis revealed that the isolated sequences belonged to Indian Ocean Lineage (IOL) of ECSA genotype. The mutational analysis revealed the presence of substitutions such as S299N, T312M, A344T, S375T, V386G, W339R and S375P in the current study. In addition, a novel mutation V386G was observed in all the sequences. Two isolates found with unique substitutions W339R and S375P are reported. The structural analysis of the wild type and mutant proteins revealed that the structural changes are accompanied by modification in the intraprotein interactions.

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Section: Discussionsupporting

confidence: 82%

Genetic characterization of Chikungunya virus 2009 isolates from South India

Sarangan

Nayar²,

Mani

et al. 2018

Bioinformation

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“…1). The selection pressure analysis in a previous investigation has showed that 3 of these mutations (L210, I211 and S375) were positively selected [31]. The DDG value of L210Q was found to be slightly negative and for V229I and slightly positive for the mutation S375T.…”

Section: Mutational Analysismentioning

confidence: 90%

“…The effect of some reported point mutations on the structure of E2 glycoprotein [31,40] were analyzed using in silico tools. Various methods were used for the prediction of the effect of mutations on the structure of E2 protein.…”

Section: Mutation Analysismentioning

confidence: 99%

Potential entry inhibitors of the envelope protein (E2) of Chikungunya virus: in silico structural modeling, docking and molecular dynamic studies

et al. 2017

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Chikungunya fever is an arboviral infection caused by the Chikungunya virus (CHIKV) and is transmitted by Aedes mosquito. The envelope protein (E2) of Chikungunya virus is involved in attachment of virion with the host cell. The present study was conceptualized to determine the structure of E2 protein of CHIKV and to identify the potential viral entry inhibitors. The secondary and tertiary structure of E2 protein was determined using bioinformatics tools. The mutational analysis of the E2 protein suggested that mutations may stabilize or de-stabilize the structure which may affect the structure-function relationship. In silico screening of various compounds from different databases identified two lead molecules i.e. phenothiazine and bafilomycin. Molecular docking and MD simulation studies of the E2 protein and compound complexes was carried out. This analysis revealed that bafilomycin has high docking score and thus high binding affinity with E2 protein suggesting stable protein-ligand interaction. Further, MD simulations suggested that both the compounds were stabilizing E2 protein. Thus, bafilomycin and phenothiazine may be considered as the lead compounds in terms of potential entry inhibitor for CHIKV. Further, these results should be confirmed by comprehensive cell culture, cytotoxic assays and animal experiments. Certain derivatives of phenothiazines can also be explored in future studies for entry inhibitors against CHIKV. The present investigation thus provides insight into protein structural dynamics of the envelope protein of CHIKV. In addition the study also provides information on the dynamics of interaction of E2 protein with entry inhibitors that will contribute towards structure based drug design.

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“…This reconstruction reflects the area than an infected host will explore per unit of time [19]. Beyond phylogenetic analysis, molecular modeling has been used to observe the effects of non-synonymous mutations in CHIKV envelope proteins [23,24,25]. Sahadeo found positive selection in amino acid position 221 within E2 gene, which is located in the acid-sensitive axis (comprised by residues 210 to 252) [26].…”

Section: Introductionmentioning

confidence: 99%

Genetic Variability of Chikungunya Virus in Southern Mexico

Galán-Huerta

Zomosa-Signoret

Vidaltamayo

et al. 2019

Viruses

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Chikungunya virus (CHIKV) is a mosquito-borne alphavirus that causes Chikungunya fever. CHIKV entered Mexico through the state of Chiapas in October 2014. To fully understand the Chikungunya fever outbreak that occurred in southern Chiapas during 2015, we evaluated 22 PCR-confirmed CHIKV-positive patients, identified CHIKV genetic variability, reconstructed viral dispersal, and assessed possible viral mutations. Viruses were isolated and E2, 6K, and E1 genes were sequenced. We applied phylogenetic and phylogeographic approaches, modeled mutations, and estimated selective pressure. Different CHIKV strains circulated in Chiapas during summer 2015. Three isolates grouped themselves in a well-supported clade. Estimates show that the outbreak started in Ciudad Hidalgo and posteriorly dispersed towards Tapachula and neighboring municipalities. We found six non-synonymous mutations in our isolates. Two mutations occurred in one isolate and the remaining mutations occurred in single isolates. Mutations E2 T116I and E2 K221R changed the protein surface in contact with the host cell receptors. We could not find positive selected sites in our CHIKV sequences from southern Chiapas. This is the first viral phylogeographic reconstruction in Mexico characterizing the CHIKV outbreak in southern Chiapas.

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Genetic characterization of E2 region of Chikungunya virus circulating in Odisha, Eastern India from 2010 to 2011

Cited by 14 publications

References 53 publications

Genetic characterization of Chikungunya virus 2009 isolates from South India

Genetic characterization of Chikungunya virus 2009 isolates from South India

Potential entry inhibitors of the envelope protein (E2) of Chikungunya virus: in silico structural modeling, docking and molecular dynamic studies

Genetic Variability of Chikungunya Virus in Southern Mexico

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