Comparative analysis of amino acid repeats in rodents and humans

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Albà MM, Guigó R. Comparative analysis of amino acid repeats in rodents and humans. Genome Res. 2004; 14(4): 549-54. DOI: 10.1101/gr.1925704
http://hdl.handle.net/10230/16468
To cite or link this document: http://hdl.handle.net/10230/16468
dc.contributor.author Albà Soler, Mar
dc.contributor.author Guigó Serra, Roderic
dc.date.accessioned 2012-05-21T09:44:50Z
dc.date.available 2012-05-21T09:44:50Z
dc.date.issued 2004
dc.identifier.citation Albà MM, Guigó R. Comparative analysis of amino acid repeats in rodents and humans. Genome Res. 2004; 14(4): 549-54. DOI: 10.1101/gr.1925704
dc.identifier.issn 1088-9051
dc.identifier.uri http://hdl.handle.net/10230/16468
dc.description.abstract Amino acid tandem repeats, also called homopolymeric tracts, are extremely abundant in eukaryotic proteins. To gain insight into the genome-wide evolution of these regions in mammals, we analyzed the repeat content in a large data set of rat-mouse-human orthologs. Our results show that human proteins contain more amino acid repeats than rodent proteins and that trinucleotide repeats are also more abundant in human coding sequences. Using the human species as an outgroup, we were able to address differences in repeat loss and repeat gain in the rat and mouse lineages. In this data set, mouse proteins contain substantially more repeats than rat proteins, which can be at least partly attributed to a higher repeat loss in the rat lineage. The data are consistent with a role for trinucleotide slippage in the generation of novel amino acid repeats. We confirm the previously observed functional bias of proteins with repeats, with overrepresentation of transcription factors and DNA-binding proteins. We show that genes encoding amino acid repeats tend to have an unusually high GC content, and that differences in coding GC content among orthologs are directly related to the presence/absence of repeats. We propose that the different GC content isochore structure in rodents and humans may result in an increased amino acid repeat prevalence in the human lineage.
dc.language.iso eng
dc.publisher Cold Spring Harbor Laboratory Press-CSHL Press
dc.relation.ispartof Genome Res. 2004; 14(4): 549-54
dc.rights © 2004 Genome Research by Cold Spring Harbor Laboratory Press. Published version available at http://genome.cshlp.org. Aquest document està subjecte a una llicència Creative Commons (Attribution-NonCommercial 3.0 Unported License)
dc.rights.uri http://creativecommons.org/licenses/by-nc/3.0/
dc.subject.other Seqüència d'aminoàcids
dc.subject.other Cèl·lules eucariotes -- Aspectes genètics
dc.title Comparative analysis of amino acid repeats in rodents and humans
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1101/gr.1925704
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion


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