Structural features of fungal genomes

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Abstract

Eighteen fungal genomes have been sequenced to date from a variety of taxonomic groups, with fifteen Ascomycota, two Basidomycota and one Microsporidia species represented. The genomes vary in size more than tenfold, from approximately 2.5 Mbp to 38.8 Mbp. We have performed a computational analysis of DNA structural features of all 18 fungal genomes. The sequenced genomes can be visualised with Genome Atlases, which are graphical representations of the chromosomes, showing DNA structural properties (including the location of potentially highly expressed genes), DNA repeats, and DNA base-composition properties, such as AT-content and GC-skew. A comparison of DNA structural features in the various fungal genomes shows an over-representation of purine stretches of >10 bp in length; that is, there is a tendency for stretches containing only A's or G's on the same strand of the DNA helix. This strand bias is pronounced in all of the fungal chromosomes examined. The purine and pyrimidine/purine stretches are localized mainly within non-coding regions of the chromosomes. Another common structural feature for all of the fungal genomes is that the upstream promoter regions of genes are more AT rich than downstream coding regions. Codon usage patterns are different in the three phyla of fungi examined, as well as amino acid usage. Finally, a protein comparison of the predicted gene products gives an overview of the similarity based on protein homology and localization. © Springer-Verlag Berlin Heidelberg 2006.

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Wanchanthuek, P., Hallin, P. F., Gouveia-Oliveira, R., & Ussery, D. (2006). Structural features of fungal genomes. Topics in Current Genetics, 15, 47–77. https://doi.org/10.1007/4735_112

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