Statistics of Exon Lengths in Fungi

Kaplunovsky, Alexander; Zabrodsky, David; Volkovich, Zeev; Ivashchenko, Anatoliy; Bolshoy, Alexander

Statistics of Exon Lengths in Fungi

Alexander Kaplunovsky¹, David Zabrodsky², Zeev Volkovich², Anatoliy Ivashchenko³, Alexander Bolshoy^{*, 1}

¹ Department of Evolutionary and Environmental Biology and Genome Diversity Center at the Institute of Evolution, University of Haifa, Israel

² Department of Software Engineering, ORT Braude College, Karmiel, Israel

³ Department of Biotechnology, Biochemistry, Plant Physiology at the Al-Farabi Kazakh National University, Kazakhstan

Article Information

Identifiers and Pagination:

Year: 2010
Volume: 4
First Page: 31
Last Page: 40
Publisher ID: TOBIOIJ-4-31
DOI: 10.2174/1875036201004010031

Article History:

Received Date: 01/06/2010
Revision Received Date: 12/10/2010
Acceptance Date: 13/10/2010
Electronic publication date: 03/11/2010
Collection year: 2010

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© 2010 Kaplunovsky et al.

open-access license: This is an open access article distributed under the terms of the Creative Commons Attribution 4.0 International Public License (CC-BY 4.0), a copy of which is available at: https://creativecommons.org/licenses/by/4.0/legalcode. This license permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

^* Address correspondence to this author at the Department of Evolutionary and Environmental Biology and Genome Diversity Center at the Institute of Evolution, University of Haifa, Israel; Tel: +972-4-8240382; Fax: +972-4- 8240382; E-mail: bolshoy@research.haifa.ac.il

The exon-intron structures of fungi genes are quite different from each other, and the evolution of such structures raises many questions. We tried to address some of these questions with an accent on methods of revealing evolutionary factors based on the analysis of gene exon-intron structures using statistical analysis. Taking whole genomes of fungi, we went through all the protein-coding genes in each chromosome separately and calculated the portion of introncontaining genes and average values of the net length of all the exons in a gene, the number of the exons, and the average length of an exon. We found striking similarities between all of these average properties of chromosomes of the same species and significant differences between properties of the chromosomes belonging to species of different divisions (Phyla) of the kingdom of Fungi. Comparing those chromosomal and genomic averages, we have developed a technique of clustering based on characteristics of the exon-intron structure. This technique of clustering separates different fungi species, grouping them according to Fungi taxonomy. The main conclusion of this article is that the statistical properties of exonintron organizations of genes are the genome-specific features preserved by evolutionary processes.

Keywords: Comparative genomics, Exon-intron structure, Eukaryotic clustering.

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RESEARCH ARTICLE

Statistics of Exon Lengths in Fungi

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