From Network Analysis to Functional Metabolic Modeling of the Human Gut Microbiota

作     者：Bauer, Eugen Thiele, Ines 

作者机构：Univ Luxembourg Luxembourg Ctr Syst Biomed Esch Sur Alzette Luxembourg 

出 版 物：《MSYSTEMS》 (mSystems)

年 卷 期：2018年第3卷第3期

页      面：e00209-17页

核心收录：

基　　金：Luxembourg National Research Fund (FNR) through an ATTRACT program [FNR/A12/01] Aides a la Formation Recherche grant [FNR/6783162] 

主　　题：computational modeling constraint-based modeling gut microbiome metabolic modeling network approaches 

摘      要：An important hallmark of the human gut microbiota is its species diversity and complexity. Various diseases have been associated with a decreased diversity leading to reduced metabolic functionalities. Common approaches to investigate the human microbiota include high-throughput sequencing with subsequent correlative analyses. However, to understand the ecology of the human gut microbiota and consequently design novel treatments for diseases, it is important to represent the different interactions between microbes with their associated metabolites. Computational systems biology approaches can give further mechanistic insights by constructing data-or knowledge-driven networks that represent microbe interactions. In this minireview, we will discuss current approaches in systems biology to analyze the human gut microbiota, with a particular focus on constraint-based modeling. We will discuss various community modeling techniques with their advantages and differences, as well as their application to predict the metabolic mechanisms of intestinal microbial communities. Finally, we will discuss future perspectives and current challenges of simulating realistic and comprehensive models of the human gut microbiota.