A survey of computational approaches for characterizing microbial interactions in microbial mats

A survey of computational approaches for characterizing microbial interactions in microbial mats

Abstract In this review, we use microbial mat communities as a general model system to highlight the strengths and limitations of current computational methods for analyzing interactions between members of microbial ecosystems. We describe the factors that make this environment have such a high degr...

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Main Authors: Vanesa L. Perillo, Michael Nute, Nicolae Sapoval, Kristen D. Curry, Logan Golia, Yongze Yin, Huw A. Ogilvie, Luay Nakhleh, Santiago Segarra, Devaki Bhaya, Diana G. Cuadrado, Todd J. Treangen
Format: Article
Language:English
Published: BMC 2025-06-01
Series:Genome Biology
Subjects:
Transdisciplinary studies
Computational models
Microbial mats
Microbial evolution
Environmental data
Microbial ecology
Online Access:https://doi.org/10.1186/s13059-025-03634-2
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Summary:Abstract In this review, we use microbial mat communities as a general model system to highlight the strengths and limitations of current computational methods for analyzing interactions between members of microbial ecosystems. We describe the factors that make this environment have such a high degree of interaction, and we explore different categories of both laboratory and computational tools for studying these interactions. For each tool, we describe efforts to apply them to microbial mats in the past and, in the process, argue that genome-scale metabolic models have breakthrough potential for modeling microbial interactions in microbial mats.
ISSN:1474-760X

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