Potato virus Y (PVY) is a member of the genus Potyvirus, family Potyviridae, is considered one of the most devastating pest affecting economically important crops, such as potato, tobacco, tomato and pepper, representing a serious threat due to high incidence and worldwide distribution. Its economic significance as well as it biological and molecular complexities have aroused great attention, thus several studies have explore it genetic characteristics. However, little is known about PVY codon usage. To shed light on the relation of codon usage among viruses and their hosts is extremely important to understand virus survival, fitness and evolution. In this study, we performed a comprehensive analysis of codon usage and composition of PVY non-recombinant strains (PVY^N−NA, PVY^Eu-N, PVY^O, PVY^O5, PVY^C) based on 130 complete open reading frame sequences extracted from public databases. Furthermore, similarities between the synonymous codon usage of PVY and its main hosts were investigated. The results obtained in the current study suggest that the overall codon usage among PVY genotypes is similar and slightly biased. PVY codon usage is strongly influenced by mutational bias, but also by G + C compositional constraint and dinucleotide composition. Furthermore, similarities among codon usage preferences between PVY strains and analyzed hosts were observed.

马铃薯Y病毒（PVY）是属的成员马铃薯Y病毒，家庭马铃薯Y病毒，被认为是一个最具破坏性的害虫影响重要经济价值的作物，如马铃薯，烟草，番茄和辣椒，代表了严重的威胁，由于高发病率和世界各地分配。它的经济意义以及它的生物学和分子复杂性引起了人们的极大关注，因此一些研究探索了它的遗传特性。然而，对PVY密码子的使用知之甚少。阐明病毒及其宿主之间密码子使用的关系对于理解病毒的存活，适应性和进化极为重要。在这项研究中，我们对PVY非重组菌株（PVY ^N-NA）的密码子使用和成分进行了全面分析，PVY ^Eu-N，PVY ^O，PVY ^O5，PVY ^C）基于从公共数据库中提取的130个完整的开放阅读框序列。此外，调查了PVY的同义词密码子用法及其主要宿主之间的相似性。在当前研究中获得的结果表明，PVY基因型之间的总体密码子使用相似且略有偏差。PVY密码子的使用受突变偏倚的强烈影响，但也受G + C组成限制和二核苷酸组成的影响。此外，观察到PVY菌株和分析的宿主之间的密码子使用偏好之间的相似性。