IMPARO: inferring microbial interactions through parameter optimisation.

ABSTRACT:

Background

Microbial Interaction Networks (MINs) provide important information for understanding bacterial communities. MINs can be inferred by examining microbial abundance profiles. Abundance profiles are often interpreted with the Lotka Volterra model in research. However existing research fails to consider a biologically meaningful underlying mathematical model for MINs or to address the possibility of multiple solutions.

Results

In this paper we present IMPARO, a method for inferring microbial interactions through parameter optimisation. We use biologically meaningful models for both the abundance profile, as well as the MIN. We show how multiple MINs could be inferred with similar reconstructed abundance profile accuracy, and argue that a unique solution is not always

SUBMITTER: Vidanaarachchi R 

PROVIDER: S-EPMC7436957 | biostudies-literature | 2020 Aug

REPOSITORIES: biostudies-literature