Exley Kealan, Reynolds Christopher Robert, Suckling Lorna, Chee Soo Mei, Tsipa Argyro, Freemont Paul S, McClymont David, Kitney Richard Ian
1Department of Bioengineering, Imperial College London, London, UK.
2Imperial College Centre for Synthetic Biology, Imperial College London, London, UK.
J Biol Eng. 2019 Jan 18;13:8. doi: 10.1186/s13036-019-0141-z. eCollection 2019.
The automation of modular cloning methodologies permits the assembly of many genetic designs. Utilising characterised biological parts aids in the design and redesign of genetic pathways. The characterisation information held on datasheets can be used to determine whether a biological part meets the design requirements. To manage the design of genetic pathways, researchers have turned to modelling-based computer aided design software tools.
An automated workflow has been developed for the design and build of heterologous metabolic pathways. In addition, to demonstrate the powers of electronic datasheets we have developed software which can transfer part information from a datasheet to the Design of Experiment software JMP. To this end we were able to use Design of Experiment software to rationally design and test randomised samples from the design space of a lycopene pathway in . This pathway was optimised by individually modulating the promoter strength, RBS strength, and gene order targets.
The use of standardised and characterised biological parts will empower a design-oriented synthetic biology for the forward engineering of heterologous expression systems. A Design of Experiment approach streamlines the design-build-test cycle to achieve optimised solutions in biodesign. Developed automated workflows provide effective transfer of information between characterised information (in the form of datasheets) and DoE software.
模块化克隆方法的自动化使得许多基因设计得以组装。利用经过表征的生物部件有助于基因通路的设计与重新设计。数据表中保存的表征信息可用于确定生物部件是否符合设计要求。为了管理基因通路的设计，研究人员已转向基于建模的计算机辅助设计软件工具。
已开发出一种用于异源代谢通路设计与构建的自动化工作流程。此外，为了展示电子数据表的功能，我们开发了一款软件，它可以将部件信息从数据表传输到实验设计软件JMP中。为此，我们能够使用实验设计软件对番茄红素通路设计空间中的随机样本进行合理设计与测试。通过分别调节启动子强度、核糖体结合位点（RBS）强度和基因顺序靶点，对该通路进行了优化。
使用标准化且经过表征的生物部件将助力以设计为导向的合成生物学实现异源表达系统的正向工程。实验设计方法简化了设计-构建-测试循环，以在生物设计中实现优化解决方案。所开发的自动化工作流程在表征信息（以数据表形式）和实验设计软件之间提供了有效的信息传递。
