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Microbial Interactions

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Evaluation of the effect of Lactobacillus sakei strain L115 on Listeria monocytogenes at different conditions of temperature by using predictive interaction models.

Food research international (Ottawa, Ont.)
In this study, the inhibitory capacity of Lactobacillus sakei strain L115 against Listeria monocytogenes has been assayed at 4, 8, 11, 15 and 20 °C in broth culture. Besides, the use of predictive microbiology models for describing growth of both mic...

Mapping quorum sensing onto neural networks to understand collective decision making in heterogeneous microbial communities.

Physical biology
Microbial communities frequently communicate via quorum sensing (QS), where cells produce, secrete, and respond to a threshold level of an autoinducer (AI) molecule, thereby modulating gene expression. However, the biology of QS remains incompletely ...

Colony analysis and deep learning uncover 5-hydroxyindole as an inhibitor of gliding motility and iridescence in Cellulophaga lytica.

Microbiology (Reading, England)
Iridescence is an original type of colouration that is relatively widespread in nature but has been either incompletely described or entirely neglected in prokaryotes. Recently, we reported a brilliant 'pointillistic' iridescence in agar-grown colony...

Simulation and Prediction of Fungal Community Evolution Based on RBF Neural Network.

Computational and mathematical methods in medicine
Simulation and prediction of the scale change of fungal community. First, using the experimental data of a variety of fungal decomposition activities, a mathematical model of the decomposition rate and the relationship between the bacterial species w...

A Deep Learning-Based Method for Identification of Bacteriophage-Host Interaction.

IEEE/ACM transactions on computational biology and bioinformatics
Multi-drug resistance (MDR) has become one of the greatest threats to human health worldwide, and novel treatment methods of infections caused by MDR bacteria are urgently needed. Phage therapy is a promising alternative to solve this problem, to whi...

Deciphering microbial gene function using natural language processing.

Nature communications
Revealing the function of uncharacterized genes is a fundamental challenge in an era of ever-increasing volumes of sequencing data. Here, we present a concept for tackling this challenge using deep learning methodologies adopted from natural language...

Using metabolic networks to predict cross-feeding and competition interactions between microorganisms.

Microbiology spectrum
Understanding the interactions between microorganisms and their impact on bacterial behavior at the community level is a key research topic in microbiology. Different methods, relying on experimental or mathematical approaches based on the diverse pr...

Study of interaction in dual-species biofilm of Candida glabrata and Klebsiella pneumoniae co-isolated from peripheral venous catheter using Raman characterization mapping and machine learning algorithms.

Microbial pathogenesis
Polymicrobial biofilm infections, especially associated with medical devices such as peripheral venous catheters, are challenging in clinical settings for treatment and management. In this study, we examined the mixed biofilm formed by Candida glabra...