Species Based Synonymous Codon Usage in Fusion Protein Gene of Newcastle Disease Virus

被引:12
|
作者
Kumar, Chandra Shekhar [1 ]
Kumar, Sachin [1 ]
机构
[1] Indian Inst Technol Guwahati, Dept Biotechnol, Gauhati, Assam, India
来源
PLOS ONE | 2014年 / 9卷 / 12期
关键词
CLEAVAGE-ACTIVATION SITE; ESCHERICHIA-COLI; F-PROTEIN; SACCHAROMYCES-CEREVISIAE; PROTEOLYTIC CLEAVAGE; VIRAL REPLICATION; SEQUENCE; BIAS; VIRULENCE; PATHOGENICITY;
D O I
10.1371/journal.pone.0114754
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
Newcastle disease is highly pathogenic to poultry and many other avian species. However, the Newcastle disease virus (NDV) has also been reported from many non-avian species. The NDV fusion protein (F) is a major determinant of its pathogenicity and virulence. The functionalities of F gene have been explored for the development of vaccine and diagnostics against NDV. Although the F protein is well studied but the codon usage and its nucleotide composition from NDV isolated from different species have not yet been explored. In present study, we have analyzed the factors responsible for the determination of codon usage in NDV isolated from four major avian host species. The F gene of NDV is analyzed for its base composition and its correlation with the bias in codon usage. Our result showed that random mutational pressure is responsible for codon usage bias in F protein of NDV isolates. Aromaticity, GC3s, and aliphatic index were not found responsible for species based synonymous codon usage bias in F gene of NDV. Moreover, the low amount of codon usage bias and expression level was further confirmed by a low CAI value. The phylogenetic analysis of isolates was found in corroboration with the relatedness of species based on codon usage bias. The relationship between the host species and the NDV isolates from the host does not represent a significant correlation in our study. The present study provides a basic understanding of the mechanism involved in codon usage among species.
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页数:25
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