title: Analysis of synonymous codon usage in enterovirus 71.
abstract: Enterovirus 71 (EV71) is the major cause of hand-foot-and-mouth disease in children. In our study, using the complete genome sequences of 42 EV71 representing all three genotypes, we analyzed synonymous codon usage and the relative dinucleotide abundance in EV71 genome. The general 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 EV71 genome. Furthermore, we observed that the relative abundance of dinucleotides in EV71 is independent of the overall base composition but is still the result of differential mutational pressure, which also shapes codon usage. In addition, other factors, such as hydrophobicity and aromaticity, also influence the codon usage variation among the genomes of EV71. This study represents the most comprehensive analysis of EV71 codon usage patterns and provides a basic understanding of the mechanisms for codon usage bias.
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Hua
authors: H
authors: Zhang
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Hong-Wei
authors: HW
authors: Cao
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Feng-Qi
authors: FQ
authors: Li
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Zi-Ye
authors: ZY
authors: Pan
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Zhi-Jun
authors: ZJ
authors: Wu
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Yan-Hong
authors: YH
authors: Wang
authors: College of Biological Science and Technology, HeiLongJiang BaYi Agricultural University, DaQing, 163319 China.
authors: Yu-Dong
authors: YD
authors: Cui
keywords: Dinucleotide bias; EV71; Mutational bias; Subgenotype; Synonymous codon usage