Department of Epidemiology, School of Public Health, The Fourth Military Medical University, No.17, Changle west RD, Xi'an 710032, China.
Virology. 2010 Mar 15;398(2):251-61. doi: 10.1016/j.virol.2009.12.007. Epub 2010 Jan 12.
The development of effective vaccines and antiviral prophylaxis against human enterovirus 71 (EV71) has been hampered by the extensive antigenic diversity of the virus. To gain new insights into the evolutionary processes that create this genetic diversity, the TreeOrder Scan Method and RDP program were employed to detect recombination events in the genome, and then parsimony-based and maximum-likelihood-based methods were used to detect natural selection effects on viral proteins. Recombination analysis provided strong evidence for recombination events in the majority of the sequences analyzed. Recombination events were found to be distributed nonrandomly with the highest frequency at the 3D region. Furthermore, positive selection was only detected at site 145 of VP1 by the maximum likelihood-based method. These results reveal that EV71 proteins are extensively influenced by stabilizing selection. We conclude that recombination may play a more important role than positive selection in the formation of genetic diversity.
有效的疫苗和抗病毒预防人类肠道病毒 71 型（EV71）的发展受到病毒广泛的抗原多样性的阻碍。为了深入了解产生这种遗传多样性的进化过程，采用 TreeOrder 扫描法和 RDP 程序来检测基因组中的重组事件，然后使用基于简约法和最大似然法来检测病毒蛋白上的自然选择效应。重组分析为分析的大多数序列中的重组事件提供了强有力的证据。重组事件的分布是非随机的，3D 区的频率最高。此外，最大似然法仅在 VP1 的 145 位检测到正选择。这些结果表明，EV71 蛋白受到稳定选择的广泛影响。我们得出结论，重组可能比正选择在遗传多样性的形成中发挥更重要的作用。
