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Evaluation of codon usage patterns and molecular evolution dynamics in Japanese encephalitis virus: An integrated bioinformatics approach

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Title Evaluation of codon usage patterns and molecular evolution dynamics in Japanese encephalitis virus: An integrated bioinformatics approach
Not Available
 
Creator Suresh KP
Indrabalan UB
Shreevatsa B
Dharmashekar C
Singh P
Patil SS
Syed A
Elgorban AM
Eswaramoorthy R
Amachawadi RG
Shivamallu C
 
Subject Codon usage
Japanese encephalitis
Molecular evolutionary dynamics
Phylogeography
Selection pressure
 
Description Not Available
In the recent survey, Japanese encephalitis (JE) is one of the most common mosquito-borne diseases, accounting for ∼30% of fatalities. The outbreaks of the JE virus (JEV) suggests that exhaustive study is essential for the prevention and management of the disease. The disease mainly spreads in humans and pigs by the vector: mosquito; as this is a major concern, this study had employed various bioinformatics tools to investigate the codon usage bias, evolutionary inference and selection pressure analysis of the Japanese encephalitis virus disease. The results indicated that the JE virus was biased and natural selection was the main factor shaping the codon usage that was determined and confirmed with the Nc, neutrality, PR2 plots and correlation analysis. The evolutionary analysis revealed that the virus had a substitution rate of 1.54 × 10-4 substitution/site/year and the tMRCA was found to be in 1723. The transmission of the virus in the map found transmissions mostly from China and transmitted across Asia and Africa. The selection pressure analysis employed three methods which had 969th codon site as diversifying site and had many purifying sites that shows the virus had evolved rapidly. The inferences from this study would aid people to employ this methodology on various diseases and also perform insilico studies in the field of vaccinology and immunoinformatics.
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Date 2024-03-06T16:19:18Z
2024-03-06T16:19:18Z
2023-02-13
 
Type Research Paper
 
Identifier 37. Suresh, K.P., Indrabalan, U.B., Shreevatsa, B., Dharmashekar, C., Singh, P., Patil, S.S., Syed, A., Elgorban, A.M., Eswaramoorthy, R., Amachawadi, R.G. and Shivamallu, C. (2023). Evaluation of codon usage patterns and molecular evolution dynamics in Japanese encephalitis virus: An integrated bioinformatics approach. Infection, Genetics and Evolution, 109: 105410.
1567-1348
http://krishi.icar.gov.in/jspui/handle/123456789/81613
 
Language English
 
Relation Not Available;
 
Publisher Elsevier Publications