基于比较基因组学重构细菌的代谢途径和调控网络

Comparative genomic reconstruction of regulatory and metabolic networks in bacteria

摘要:

微生物基因组学的迅速发展为从功能基因与蛋白、网络及其调控等不同的角度，全面理解与认识微生物的代谢过程、构建细胞工厂，提供了丰富的背景信息。基于基因组序列进行代谢网络重构，有助于发现新的代谢功能基因、调控元件、甚至新的代谢途径，从而优化设计细胞内从原料到产品的生物合成路线。然而，目前公共数据库平台中代谢途径基因的功能注释，许多是错误或不完整的。以下着重介绍了近年来出现的一些用于代谢途径和调控网络重构的新型比较基因组学技术，并以近期的丙酮丁醇梭菌中木糖代谢途径的重构工作为例来说明其应用。

Abstract:

A large and growing number of complete genomes from diverse species open tremendous opportunities for getting deep insights into cell metabolism. This increased understanding strongly supports engineering of cell metabolism for microbial production. In spite of the recent progress, a large fraction of genes in most of the available genomes remain incorrectly or imprecisely annotated. In this paper we review some of the new comparative genomics techniques used to reconstruct regulatory and metabolic networks from genomic data, reveal gaps in current knowledge, and identify previously uncharacterized genes. The application will be discussed by using a recent example–reconstruction of xylose utilization pathway in Clostridium acetobutylicum.