Gene complexity and gene duplicability
- PMID: 15936271
- DOI: 10.1016/j.cub.2005.04.035
Gene complexity and gene duplicability
Abstract
Eukaryotic genes are on average more complex than prokaryotic genes in terms of expression regulation, protein length, and protein-domain structure [1-5]. Eukaryotes are also known to have a higher rate of gene duplication than prokaryotes do [6, 7]. Because gene duplication is the primary source of new genes [], the average gene complexity in a genome may have been increased by gene duplication if complex genes are preferentially duplicated. Here, we test this "gene complexity and gene duplicability" hypothesis with yeast genomic data. We show that, on average, duplicate genes from either whole-genome or individual-gene duplication have longer protein sequences, more functional domains, and more cis-regulatory motifs than singleton genes. This phenomenon is not a by-product of previously known mechanisms, such as protein function [10-13], evolutionary rate [14, 15], dosage [11], and dosage balance [16], that influence gene duplicability. Rather, it appears to have resulted from the sub-neo-functionalization process in duplicate-gene evolution [11]. Under this process, complex genes are more likely to be retained after duplication because they are prone to subfunctionalization, and gene complexity is regained via subsequent neofunctionalization. Thus, gene duplication increases both gene number and gene complexity, two important factors in the origin of genomic and organismal complexity.
Similar articles
-
Higher duplicability of less important genes in yeast genomes.Mol Biol Evol. 2006 Jan;23(1):144-51. doi: 10.1093/molbev/msj015. Epub 2005 Sep 8. Mol Biol Evol. 2006. PMID: 16151181
-
Yeast genome evolution--the origin of the species.Yeast. 2007 Nov;24(11):929-42. doi: 10.1002/yea.1515. Yeast. 2007. PMID: 17621376 Review.
-
Molecular evolution in the yeast transcriptional regulation network.J Exp Zool B Mol Dev Evol. 2004 Jul 15;302(4):392-411. doi: 10.1002/jez.b.20027. J Exp Zool B Mol Dev Evol. 2004. PMID: 15287103
-
Protein complexity, gene duplicability and gene dispensability in the yeast genome.Gene. 2007 Jan 31;387(1-2):109-17. doi: 10.1016/j.gene.2006.08.022. Epub 2006 Sep 14. Gene. 2007. PMID: 17049186 Free PMC article.
-
Retention of protein complex membership by ancient duplicated gene products in budding yeast.Trends Genet. 2007 Jun;23(6):266-9. doi: 10.1016/j.tig.2007.03.012. Epub 2007 Apr 10. Trends Genet. 2007. PMID: 17428571 Review.
Cited by
-
Resurrected Protein Interaction Networks Reveal the Innovation Potential of Ancient Whole-Genome Duplication.Plant Cell. 2018 Nov;30(11):2741-2760. doi: 10.1105/tpc.18.00409. Epub 2018 Oct 17. Plant Cell. 2018. PMID: 30333148 Free PMC article.
-
Studies of dimethylglycine oxidase isoenzymes in Arthrobacter globiformis cells.Curr Microbiol. 2011 Apr;62(4):1267-73. doi: 10.1007/s00284-010-9852-6. Epub 2010 Dec 25. Curr Microbiol. 2011. PMID: 21188587
-
Evaluating Phylostratigraphic Evidence for Widespread De Novo Gene Birth in Genome Evolution.Mol Biol Evol. 2016 May;33(5):1245-56. doi: 10.1093/molbev/msw008. Epub 2016 Jan 11. Mol Biol Evol. 2016. PMID: 26758516 Free PMC article.
-
Co-regulation of paralog genes in the three-dimensional chromatin architecture.Nucleic Acids Res. 2017 Jan 9;45(1):81-91. doi: 10.1093/nar/gkw813. Epub 2016 Sep 14. Nucleic Acids Res. 2017. PMID: 27634932 Free PMC article.
-
The salmonid myostatin gene family: a novel model for investigating mechanisms that influence duplicate gene fate.BMC Evol Biol. 2012 Oct 8;12:202. doi: 10.1186/1471-2148-12-202. BMC Evol Biol. 2012. PMID: 23043301 Free PMC article.
Publication types
MeSH terms
Grants and funding
LinkOut - more resources
Full Text Sources
Other Literature Sources
Molecular Biology Databases