Wu Gang, Bashir-Bello Nabila, Freeland Stephen J
Department of Biological Sciences, University of Maryland at Baltimore County, 21250, USA.
Protein Expr Purif. 2006 Jun;47(2):441-5. doi: 10.1016/j.pep.2005.10.020. Epub 2005 Nov 15.
"Codon optimization" is a general approach to improving heterologous expression where genes are moved from their native genomes into alternatives that exhibit different patterns of codon usage. However, despite reports of successful manipulations and the existence of stand-alone codon optimization software packages or commercial services that offer to redesign genes, the scientific community lacks any systematic understanding of what exactly it means to optimize codon usage. Thus we present a bona fide web application, the "Synthetic Gene Designer," which contrasts with existing software by providing a centralized, free, and transparent platform for the broader scientific community to develop knowledge about synthetic gene design. Consistent with this goal, our software is associated with a moderated e-forum that promotes discussion of synthetic gene design and offers technical support. In addition, the Synthetic Gene Designer presents enhanced functionality over existing software options: for example, it enables users to work with non-standard genetic codes, with user-defined patterns of codon usage and an expanded range of methods for codon optimization. The Synthetic Gene Designer, together with on-line tutorials and the forum, is available at .
“密码子优化”是一种提高异源表达的通用方法，即将基因从其天然基因组转移到具有不同密码子使用模式的替代基因组中。然而，尽管有成功操作的报道，并且存在独立的密码子优化软件包或提供基因重新设计服务的商业机构，但科学界对于优化密码子使用究竟意味着什么缺乏系统的认识。因此，我们推出了一个货真价实的网络应用程序“合成基因设计器”，它与现有软件不同，为更广泛的科学界提供了一个集中、免费且透明的平台，以发展有关合成基因设计的知识。为实现这一目标，我们的软件关联了一个经过管理的电子论坛，该论坛促进对合成基因设计的讨论并提供技术支持。此外，“合成基因设计器”比现有软件选项具有增强的功能：例如，它使用户能够处理非标准遗传密码、用户定义的密码子使用模式以及一系列扩展的密码子优化方法。“合成基因设计器”连同在线教程和论坛可在[具体网址]获取。
