Department of Microbiology & Biotechnology, Faculty of Science, Federal University Dutse, Dutse, Jigawa, Nigeria.
Computational Systems Biology of Infection and Antimicrobial-Resistant Pathogens, Institute for Bioinformatics and Medical Informatics (IBMI), University of Tübingen, Tübingen, Germany.
Methods Mol Biol. 2021;2189:217-229. doi: 10.1007/978-1-0716-0822-7_16.
Genome-scale metabolic modeling is and will continue to play a central role in computational systems metabolic engineering and synthetic biology applications for the productions of chemicals and antibiotics. To that end, a survey and workflows of methods used for the development of high-quality genome-scale metabolic models (GEMs) and chassis design for synthetic biology are described here. The chapter consists of two parts (a) the methods of development of GEMs (Escherichia coli as a case study) and (b) E. coli chassis design for synthetic production of 1,4-butanediol (BDO). The methods described here can guide existing and future development of GEMs coupled with host chassis design for synthetic productions of novel antibiotics.
基因组规模代谢建模在计算系统代谢工程和合成生物学应用中发挥着核心作用，可用于化学品和抗生素的生产。为此，本文描述了用于开发高质量基因组规模代谢模型（GEM）和合成生物学底盘设计的方法的调查和工作流程。本章由两部分组成：（a）GEM 的开发方法（以大肠杆菌作为案例研究）和（b）大肠杆菌底盘设计用于合成生产 1,4-丁二醇（BDO）。本文描述的方法可以指导现有的和未来的 GEM 开发，以及与新型抗生素的合成生产相关的宿主底盘设计。
