NDLI: Analysis of synonymous codon usage in the VP2 protein gene of infectious bursal disease virus

Content Provider	Springer Nature Link
Author	Kumar, Chandra Shekhar Hazarika, Nazia M. J. Kumar, Sachin
Copyright Year	2015
Abstract	Infectious bursal disease virus (IBDV) is an important poultry pathogen. The VP2 protein of IBDV is the major host-protective immunogen. Although the functions of the VP2 protein have been well studied, the factors shaping synonymous codon usage bias and nucleotide composition in the VP2 gene have not yet been reported. In the present study, we have analyzed the relative synonymous codon usage and effective number of codons (ENC) using 69 IBDV VP2 genes. The major trend in codon usage variation was studied using correspondence analysis. The plot of ENC values and GC3s as well as the correlation between base composition and codon usage bias suggests that mutational pressure rather than natural selection is the main factor that determines the codon usage bias in the VP2 gene. In addition, other factors, such as the aromaticity, hydrophobicity and aliphatic index also influence the codon usage variation of the VP2 gene. This study represents a comprehensive analysis of IBDV VP2 gene codon usage patterns and provides a basic understanding of the codon usage bias.
Starting Page	2359
Ending Page	2366
Page Count	8
File Format	PDF
ISSN	03048608
Journal	Archives of Virology
Volume Number	160
Issue Number	9
e-ISSN	14328798
Language	English
Publisher	Springer Vienna
Publisher Date	2015-06-30
Publisher Place	Vienna
Access Restriction	One Nation One Subscription (ONOS)
Subject Keyword	Mutational pressure Aromaticity Aliphaticity IBDV Evolution Virology Medical Microbiology Infectious Diseases
Content Type	Text
Resource Type	Article
Subject	Virology Medicine

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