Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons - PubMed (original) (raw)
Comparative Study
. 2005 Nov;22(11):2198-208.
doi: 10.1093/molbev/msi218. Epub 2005 Jul 27.
Affiliations
- PMID: 16049198
- DOI: 10.1093/molbev/msi218
Comparative Study
Changes in alternative splicing of human and mouse genes are accompanied by faster evolution of constitutive exons
Brian P Cusack et al. Mol Biol Evol. 2005 Nov.
Abstract
Alternative splicing is known to be an important source of protein sequence variation, but its evolutionary impact has not been explored in detail. Studying alternative splicing requires extensive sampling of the transcriptome, but new data sets based on expressed sequence tags aligned to chromosomes make it possible to study alternative splicing on a genome-wide scale. Although genes showing alternative splicing by exon skipping are conserved as compared to the genome as a whole, we find that genes where structural differences between human and mouse result in genome-specific alternatively spliced exons in one species show almost 60% greater nonsynonymous divergence in constitutive exons than genes where exon skipping is conserved. This effect is also seen for genes showing species-specific patterns of alternative splicing where gene structure is conserved. Our observations are not attributable to an inherent difference in rate of evolution between these two sets of proteins or to differences with respect to predictors of evolutionary rate such as expression level, tissue specificity, or genetic redundancy. Where genome-specific alternatively spliced exons are seen in mammals, the vast majority of skipped exons appear to be recent additions to gene structures. Furthermore, among genes with genome-specific alternatively spliced exons, the degree of nonsynonymous divergence in constitutive sequence is a function of the frequency of incorporation of these alternative exons into transcripts. These results suggest that alterations in alternative splicing pattern can have knock-on effects in terms of accelerated sequence evolution in constant regions of the protein.
Similar articles
- Genome-wide analysis of alternative splicing evolution among Mus subspecies.
Harr B, Turner LM. Harr B, et al. Mol Ecol. 2010 Mar;19 Suppl 1:228-39. doi: 10.1111/j.1365-294X.2009.04490.x. Mol Ecol. 2010. PMID: 20331782 - Conserved and species-specific alternative splicing in mammalian genomes.
Nurtdinov RN, Neverov AD, Favorov AV, Mironov AA, Gelfand MS. Nurtdinov RN, et al. BMC Evol Biol. 2007 Dec 22;7:249. doi: 10.1186/1471-2148-7-249. BMC Evol Biol. 2007. PMID: 18154685 Free PMC article. - How prevalent is functional alternative splicing in the human genome?
Sorek R, Shamir R, Ast G. Sorek R, et al. Trends Genet. 2004 Feb;20(2):68-71. doi: 10.1016/j.tig.2003.12.004. Trends Genet. 2004. PMID: 14746986 Review. - Bioinformatics detection of alternative splicing.
Kim N, Lee C. Kim N, et al. Methods Mol Biol. 2008;452:179-97. doi: 10.1007/978-1-60327-159-2_9. Methods Mol Biol. 2008. PMID: 18566765 Review.
Cited by
- Parallel gene size and isoform expansion of ancient neuronal genes.
McCoy MJ, Fire AZ. McCoy MJ, et al. Curr Biol. 2024 Apr 22;34(8):1635-1645.e3. doi: 10.1016/j.cub.2024.02.021. Epub 2024 Mar 8. Curr Biol. 2024. PMID: 38460513 - Splicing complexity as a pivotal feature of alternative exons in mammalian species.
Zhao F, Yan Y, Wang Y, Liu Y, Yang R. Zhao F, et al. BMC Genomics. 2023 Apr 12;24(1):198. doi: 10.1186/s12864-023-09247-y. BMC Genomics. 2023. PMID: 37046221 Free PMC article. - Principles and correction of 5'-splice site selection.
Malard F, Mackereth CD, Campagne S. Malard F, et al. RNA Biol. 2022 Jan;19(1):943-960. doi: 10.1080/15476286.2022.2100971. RNA Biol. 2022. PMID: 35866748 Free PMC article. Review. - Gene expression and alternative splicing dynamics are perturbed in female head transcriptomes following heterospecific copulation.
Diaz F, Allan CW, Markow TA, Bono JM, Matzkin LM. Diaz F, et al. BMC Genomics. 2021 May 18;22(1):359. doi: 10.1186/s12864-021-07669-0. BMC Genomics. 2021. PMID: 34006224 Free PMC article. - A house finch (Haemorhous mexicanus) spleen transcriptome reveals intra- and interspecific patterns of gene expression, alternative splicing and genetic diversity in passerines.
Zhang Q, Hill GE, Edwards SV, Backström N. Zhang Q, et al. BMC Genomics. 2014 Apr 24;15:305. doi: 10.1186/1471-2164-15-305. BMC Genomics. 2014. PMID: 24758272 Free PMC article.
Publication types
MeSH terms
LinkOut - more resources
Full Text Sources