ACBM: An Integrated Agent and Constraint Based Modeling Framework for Simulation of Microbial Communities.

ABSTRACT: The development of new methods capable of more realistic modeling of microbial communities necessitates that their results be quantitatively comparable with experimental findings. In this research, a new integrated agent and constraint based modeling framework abbreviated ACBM has been proposed that integrates agent-based and constraint-based modeling approaches. ACBM models the cell population in three-dimensional space to predict spatial and temporal dynamics and metabolic interactions. When used to simulate the batch growth of C. beijerinckii and two-species communities of F. prausnitzii and B. adolescent., ACBM improved on predictions made by two previous models. Furthermore, when transcriptomic data were integrated with a metabolic model of E. coli to consider intracellular constraint

SUBMITTER: Karimian E 

PROVIDER: S-EPMC7250870 | biostudies-literature | 2020 May

REPOSITORIES: biostudies-literature