Comparative analysis of teleost genome sequences reveals an ancient intron size expansion in the zebrafish lineage

Moss, Stephen P. and Joyce, Domino A. and Humphries, Stuart and Tindall, Katherine J. and Lunt, David H. (2011) Comparative analysis of teleost genome sequences reveals an ancient intron size expansion in the zebrafish lineage. Genome Biology and Evolution, 3 (1). pp. 1187-1196. ISSN 1759-6653

Full content URL: http://gbe.oxfordjournals.org/content/3/1187

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Comparative analysis of teleost genome sequences reveals an ancient intron size expansion in the zebrafish lineage
Advance Access publication September 13, 2011
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Abstract

We have developed a bioinformatics pipeline for the comparative evolutionary analysis of Ensembl genomes and have used it to analyze the introns of the five available teleost fish genomes. We show our pipeline to be a powerful tool for revealing variation between genomes that may otherwise be overlooked with simple summary statistics. We identify that the zebrafish, Danio rerio, has an unusual distribution of intron sizes, with a greater number of larger introns in general and a notable peak in the frequency of introns of approximately 500 to 2,000 bp compared with the monotonically decreasing frequency distributions of the other fish. We determine that 47% of D. rerio introns are composed of repetitive sequences, although the remainder, over 331 Mb, is not. Because repetitive elements may be the origin of the majority of all noncoding DNA, it is likely that the remaining D. rerio intronic sequence has an ancient repetitive origin and has since accumulated so many mutations that it can no longer be recognized as such. To study such an ancient expansion of repeats in the Danio, lineage will require further comparative analysis of fish genomes incorporating a broader distribution of teleost lineages. © The Author(s) 2011

Additional Information:First published online: September 13, 2011
Keywords:animal, article, comparative study, genetics, genome, intron, molecular evolution, zebra fish, Animals, Evolution, Molecular, Introns, Zebrafish, Danio, Danio rerio, Teleostei
Subjects:C Biological Sciences > C182 Evolution
Divisions:College of Science > School of Life Sciences
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ID Code:15255
Deposited On:06 Oct 2014 11:25

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