Bioinformatics of industrial microorganisms

Course Description

COURSE CONTENT

Computational foundations of prokaryotic genome sequencing. Computational foundations of eukaryotic genome sequencing. Industrial microorganisms with available genome sequences (Bacillus subtilis, Lactococcus lactis, Streptomyces coelicolor, Aspergillus nidulans, Saccharomyces cerevisiae). Sequences of genes or gene clusters encoding biosynthetic pathways of industrially important products. Computational foundations of comparative and functional analysis of all genes present in the cell (genomics, transcriptomics). Computational foundations of protein and small molecule analysis (proteomics, metabolomics). Role of RNA sequences in taxonomy. Molecular approach in evolutionary biology (phylogenetic analysis). Bioinformatics and novel drug design. Gene therapy. Conclusions and perspective.

LEARNING OUTCOMES

• List main proteome databases.
• Demonstrate functional protein annotation.
• Compare proteomes of selected industrial microorganisms.
• Categorize proteins to respective protein families.
• Debate terms proteomics and functional genomics.
• Define term phylogenomics.
• Debate current model of biological knowledge of life organized in form of tree of life.

Lectures

Lectures: 10 sati

Seminars: 10 sati

Literature

1. Bioinformatics in microbial biotechnology – a mini review. Arvind K Bansal Microb Cell Fact. 2005; 4: 19.  doi: 10.1186/1475-2859-4-19
2. Computational methods for understanding bacterial and archaeal genomes, Ying Xu , J. Peter Gogarten , Imperial College Press, 2008 ISBN-10: 1860949827