Chou Chih-Hung, Chang Wen-Chi, Chiu Chih-Min, Huang Chih-Chang, Huang Hsien-Da
Institute of Molecular Medicine and Bioengineering, National Chiao Tung University, Hsin-Chu 300, Taiwan, Republic of China.
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W129-34. doi: 10.1093/nar/gkp264. Epub 2009 Apr 28.
Synthetic Biology, a multidisciplinary field, is growing rapidly. Improving the understanding of biological systems through mimicry and producing bio-orthogonal systems with new functions are two complementary pursuits in this field. A web server called FMM (From Metabolite to Metabolite) was developed for this purpose. FMM can reconstruct metabolic pathways form one metabolite to another metabolite among different species, based mainly on the Kyoto Encyclopedia of Genes and Genomes (KEGG) database and other integrated biological databases. Novel presentation for connecting different KEGG maps is newly provided. Both local and global graphical views of the metabolic pathways are designed. FMM has many applications in Synthetic Biology and Metabolic Engineering. For example, the reconstruction of metabolic pathways to produce valuable metabolites or secondary metabolites in bacteria or yeast is a promising strategy for drug production. FMM provides a highly effective way to elucidate the genes from which species should be cloned into those microorganisms based on FMM pathway comparative analysis. Consequently, FMM is an effective tool for applications in synthetic biology to produce both drugs and biofuels. This novel and innovative resource is now freely available at http://FMM.mbc.nctu.edu.tw/.
合成生物学是一个多学科领域，正在迅速发展。通过模仿来增进对生物系统的理解以及构建具有新功能的生物正交系统是该领域两个相辅相成的研究方向。为此开发了一个名为FMM（从代谢物到代谢物）的网络服务器。FMM主要基于京都基因与基因组百科全书（KEGG）数据库及其他综合生物数据库，能够在不同物种间重建从一种代谢物到另一种代谢物的代谢途径。还提供了连接不同KEGG图谱的新颖展示方式。设计了代谢途径的局部和全局图形视图。FMM在合成生物学和代谢工程中有许多应用。例如，在细菌或酵母中重建代谢途径以生产有价值的代谢物或次生代谢物是一种很有前景的药物生产策略。基于FMM途径比较分析，FMM提供了一种高效的方法来阐明应将哪些物种的基因克隆到那些微生物中。因此，FMM是合成生物学中用于生产药物和生物燃料的有效工具。这个新颖且具创新性的资源现在可在http://FMM.mbc.nctu.edu.tw/免费获取。
