A5024533474- Bacteriophages and microbial interactions
- RNA and protein synthesis mechanisms
- Microbial Metabolic Engineering and Bioproduction
- Monoclonal and Polyclonal Antibodies Research
- Biofuel production and bioconversion
- Escherichia coli research studies
- Viral gastroenteritis research and epidemiology
- Bioinformatics and Genomic Networks
- Fermentation and Sensory Analysis
- CRISPR and Genetic Engineering
- Plant biochemistry and biosynthesis
- Genetics, Bioinformatics, and Biomedical Research
- Machine Learning in Bioinformatics
- Viral Infectious Diseases and Gene Expression in Insects
- Streptococcal Infections and Treatments
- Plant Gene Expression Analysis
- Glycosylation and Glycoproteins Research
- Genomics and Phylogenetic Studies
- Horticultural and Viticultural Research
- Plant Virus Research Studies
- Microbial infections and disease research
University of Minho
2019-2025
Bacteriophages are the most abundant and diverse entities in biosphere, this diversity is driven by constant predator–prey evolutionary dynamics horizontal gene transfer. Phage genome sequences under-sampled therefore present an untapped uncharacterized source of genetic diversity, typically characterized highly mosaic genomes no universal genes. To better understand relationships among phages infecting human pathogens, we have analysed complete 205 Staphylococcus sp. These predicted to...
Abstract Summary The growing interest in phages as antibacterial agents has led to an increase the number of sequenced phage genomes, increasing need for intuitive bioinformatics tools performing genome annotation. identification promoters is indeed most difficult step this process. Due lack online promoter prediction, we developed PhagePromoter, a tool locating using machine learning methods. This first predicting that uses data and identify both host with different motifs. Availability...
Abstract Background A total of 179 Shiga toxin-producing Escherichia coli (STEC) complete genomes were analyzed in terms serotypes, prophage coding regions, and stx gene variants their distribution. We further examined the genetic diversity Stx-converting phage (Stx phages), focusing on lysis-lysogeny decision lytic cassettes. Results show that most STEC isolates belong to non-O157 serotypes (73 %), regardless sources geographical regions. While majority contain a single (61 strains...
Abstract In recent years, genome-scale metabolic models have become indispensable tools for studying complex processes occurring within living organisms. Understanding plants’ behaviour under diel cycles (24-hour day-night cycles) is essential to explain their adaptive strategies different light conditions. However, integrating these in plant GEMs complex, laborious, time-consuming, and not systematized. Here, we present diel_models, a novel python package that enables the systematization...
Vitis vinifera, also known as grapevine, is widely cultivated and commercialized, particularly to produce wine. As wine quality directly linked fruit quality, studying grapevine metabolism important understand the processes underlying grape composition. Genome-scale metabolic models (GSMMs) have been used for study of plant advances made, allowing integration omics datasets with GSMMs. On other hand, Machine learning (ML) has analyze integrate data, while combination ML GSMMs shown promising...
Abstract Vitis vinifera , also known as grapevine, is widely cultivated and commercialized, particularly to produce wine. As wine quality directly linked fruit quality, studying grapevine metabolism important understand the processes underlying grape composition. Genome-scale metabolic models (GSMMs) have been used for study of plant advances made, allowing integration omics datasets with GSMMs. On other hand, Machine learning (ML) has analyze data, while combination ML GSMMs shown promising...
Genome-scale metabolic models (GEMs) are essential tools for in silico phenotype prediction and strain optimisation. The most straightforward GEMs reconstruction approach uses published as templates to generate the initial draft, requiring further curation. Such an is used by BiGG Integration Tool (BIT), available merlin users. This tool from Models database draft models. Moreover, BIT allows selection between different template combinations. main objective of this study assess generated...