engleski

The use of bioinformatics in bacterial genetics

The explosive growth of DNA sequence information in the last few years has made it vital for all scientists working in bacterial genetics to acquire a basic knowledge of bioinformatics. As relatively modest amounts of sequence data will be generated in a typical laboratory and little specialised support is available, much of the analysis depends on publicly available sites on the world wide web. It is often important to detect the protein coding regions in a sequence and this typically uses a program based on statistical differences between coding and non-coding sequences such as GeneMark. Another important question is whether similar genes have been analysed before so that inferences about possible function can be drawn. This is done by similarity search programs such as BLAST. The critical interpretation of the results from such programs needs a certain knowledge of their mode of action and also input of biological knowledge. These problems will be illustrated by some examples which include: searching sequence databases for polyketide synthetases, analysis of cofactor genes interesting for vitamin C production in Gluconobacter oxydans and comparison of genome organisation between Streptomyces species.

GeneMark; BLAST; CLUSTAL; Gluconobacter; Streptomyces

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