Coxsackievirus infection has impacts on cytokine level and signaling pathways in the hosts, which is always leading to diseases. The understanding of the expression patterns of the viral genes is vital for the development of therapy strategies. In this study, we adopted a computational approach to analyze the synonymous codon usage bias in human coxsackievirus B3 strain 28. The factors of the preferential codon usage were studied. Neither compositional constraints nor translational selection was identified to be a significant factor that influences the overall codon usage variation in our studied virus. Our findings have unveiled the gene expression patterns of this virus. These findings can be used to better understand the immunologic mechanism of the pathogenesis incurred by human coxsackievirus B3.
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