RT Journal Article
T1 BN-BacArena: Bayesian network extension of BacArena for the dynamic simulation of microbial communities.
A1 Blasco, Telmo
A1 Balzerani, Francesco
A1 Valcárcel, Luis V
A1 Larrañaga, Pedro
A1 Bielza, Concha
A1 Francino, María Pilar
A1 Rufián-Henares, José Ángel
A1 Planes, Francisco Javier
A1 Pérez-Burillo, Sergio
K1 Biología computacional
K1 Bioinformática
K1 Estadística bayesiana
K1 Ecología microbiana
AB MotivationSimulating gut microbial dynamics is extremely challenging. Several computational tools, notably the widely used BacArena, enable modeling of dynamic changes in the microbial environment. These methods, however, do not comprehensively account for microbe–microbe stimulant or inhibitory effects or for nutrient–microbe inhibitory effects, typically observed in different compounds present in the daily diet.ResultsHere, we present BN-BacArena, an extension of BacArena consisting on the incorporation within the native computational framework of a Bayesian network model that accounts for microbe–microbe and nutrient–microbe interactions. Using in vitro experiments, 16S rRNA gene sequencing data and nutritional composition of 55 foods, the output Bayesian network showed 23 significant nutrient–bacteria interactions, suggesting the importance of compounds such as polyols, ascorbic acid, polyphenols and other phytochemicals, and 40 bacteria–bacteria significant relationships. With test data, BN-BacArena demonstrates a statistically significant improvement over BacArena to predict the time-dependent relative abundance of bacterial species involved in the gut microbiota upon different nutritional interventions. As a result, BN-BacArena opens new avenues for the dynamic modeling and simulation of the human gut microbiota metabolism.
PB Oxford University Press
YR 2024
FD 2024-04-30
LK https://hdl.handle.net/10630/38629
UL https://hdl.handle.net/10630/38629
LA eng
NO Blasco T, Balzerani F, Valcárcel L V., Larrañaga P, Bielza C, Francino MP, et al. BN-BacArena: Bayesian network extension of BacArena for the dynamic simulation of microbial communities. Bioinformatics. 2024;40.
DS RIUMA. Repositorio Institucional de la Universidad de Málaga
RD 25 ene 2026