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Bacteria

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Microbial Decolorization of Triazo Dye, Direct Blue 71: An Optimization Approach Using Response Surface Methodology (RSM) and Artificial Neural Network (ANN).

BioMed research international
The release of wastewater from textile dyeing industrial sectors is a huge concern with regard to pollution as the treatment of these waters is truly a challenging process. Hence, this study investigates the triazo bond Direct Blue 71 (DB71) dye deco...

Essential oils against bacterial isolates from cystic fibrosis patients by means of antimicrobial and unsupervised machine learning approaches.

Scientific reports
Recurrent and chronic respiratory tract infections in cystic fibrosis (CF) patients result in progressive lung damage and represent the primary cause of morbidity and mortality. Staphylococcus aureus (S. aureus) is one of the earliest bacteria in CF ...

Machine learning-aided analyses of thousands of draft genomes reveal specific features of activated sludge processes.

Microbiome
BACKGROUND: Microorganisms in activated sludge (AS) play key roles in the wastewater treatment processes. However, their ecological behaviors and differences from microorganisms in other environments have mainly been studied using the 16S rRNA gene t...

VAMPr: VAriant Mapping and Prediction of antibiotic resistance via explainable features and machine learning.

PLoS computational biology
Antimicrobial resistance (AMR) is an increasing threat to public health. Current methods of determining AMR rely on inefficient phenotypic approaches, and there remains incomplete understanding of AMR mechanisms for many pathogen-antimicrobial combin...

UPLC-ESI-MS/MS based identification and antioxidant, antibacterial, cytotoxic activities of aqueous extracts from storey onion (Allium cepa L. var. proliferum Regel).

Food research international (Ottawa, Ont.)
Storey onion (Allium cepa L. var. proliferum Regel) is a variety of onion commonly grown in northern China that has not been researched in detail. This study aimed to identify the chemical compositions of storey onion aqueous extracts by UPLC-ESI-MS/...

iQSP: A Sequence-Based Tool for the Prediction and Analysis of Quorum Sensing Peptides via Chou's 5-Steps Rule and Informative Physicochemical Properties.

International journal of molecular sciences
Understanding of quorum-sensing peptides (QSPs) in their functional mechanism plays an essential role in finding new opportunities to combat bacterial infections by designing drugs. With the avalanche of the newly available peptide sequences in the p...

Detecting antimicrobial peptides by exploring the mutual information of their sequences.

Journal of biomolecular structure & dynamics
The rise of antibiotic resistance in pathogenic bacteria is a growing concern for every part of the world. The present study shows the prediction efficiency of mutual information for the classification of antimicrobial peptides. The proven role of an...

A hybrid deep learning framework for bacterial named entity recognition with domain features.

BMC bioinformatics
BACKGROUND: Microbes have been shown to play a crucial role in various ecosystems. Many human diseases have been proved to be associated with bacteria, so it is essential to extract the interaction between bacteria for medical research and applicatio...

Exploiting open source 3D printer architecture for laboratory robotics to automate high-throughput time-lapse imaging for analytical microbiology.

PloS one
Growth in open-source hardware designs combined with the low-cost of high performance optoelectronic and robotics components has supported a resurgence of in-house custom lab equipment development. We describe a low cost (below $700), open-source, fu...

Prediction of essential genes in prokaryote based on artificial neural network.

Genes & genomics
BACKGROUND: Rapid identification of new essential genes is necessary to understand biological mechanisms and identify potential targets for antimicrobial drugs. Many computational methods have been proposed.