ArticleBMC genomics2011
The odds of duplicate gene persistence after polyploidization.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- The two sub-genomes of the allotetraploid frog Xenopus laevis are evolving under similar selective pressure in extant populations.BMC genomics · 2025Article
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- Comparative transcriptomics of cyprinid minnows and carp in a common wild setting: a resource for ecological genomics in freshwater communities.DNA research : an international journal for rapid publication of reports on genes and genomes · 2018Article
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- Complex Genes Are Preferentially Retained After Whole-Genome Duplication in Teleost Fish.Journal of molecular evolution · 2017Article
- Evolution of the Largest Mammalian Genome.Genome biology and evolution · 2017Article
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- Copy number variation and genetic diversity of MHC Class IIb alleles in an alien population of Xenopus laevis.Immunogenetics · 2015Article
- The Rise and Fall of TRP-N, an Ancient Family of Mechanogated Ion Channels, in Metazoa.Genome biology and evolution · 2015Article
- Evidence for widespread subfunctionalization of splice forms in vertebrate genomes.Genome research · 2015Article
- Transcriptome-wide analysis of SAMe superfamily to novelty phosphoethanolamine N-methyltransferase copy in Lonicera japonica.International journal of molecular sciences · 2014Article
- Whole-genome duplication in teleost fishes and its evolutionary consequences.Molecular genetics and genomics : MGG · 2014Review
- Faster evolving Drosophila paralogs lose expression rate and ubiquity and accumulate more non-synonymous SNPs.Biology direct · 2014Article
- Ancient eudicot hexaploidy meets ancestral eurosid gene order.BMC genomics · 2013Article
- A large pseudoautosomal region on the sex chromosomes of the frog Silurana tropicalis.Genome biology and evolution · 2013Article
- Genomic dynamics of transposable elements in the western clawed frog (Silurana tropicalis).Genome biology and evolution · 2013Article
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Authors and funding
3 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundGene duplication is an important biological phenomenon associated with genomic redundancy, degeneration, specialization, innovation, and speciation. After duplication, both copies continue functioning when natural selection favors duplicated protein function or expression, or when mutations make them functionally distinct before one copy is silenced.
resultsHere we quantify the degree to which genetic parameters related to gene expression, molecular evolution, and gene structure in a diploid frog - Silurana tropicalis - influence the odds of functional persistence of orthologous duplicate genes in a closely related tetraploid species - Xenopus laevis. Using public databases and 454 pyrosequencing, we obtained genetic and expression data from S. tropicalis orthologs of 3,387 X. laevis paralogs and 4,746 X. laevis singletons - the most comprehensive dataset for African clawed frogs yet analyzed. Using logistic regression, we demonstrate that the most important predictors of the odds of duplicate gene persistence in the tetraploid species are the total gene expression level and evenness of expression across tissues and development in the diploid species. Slow protein evolution and information density (fewer exons, shorter introns) in the diploid are also positively correlated with duplicate gene persistence in the tetraploid.
conclusionsOur findings suggest that a combination of factors contribute to duplicate gene persistence following whole genome duplication, but that the total expression level and evenness of expression across tissues and through development before duplication are most important. We speculate that these parameters are useful predictors of duplicate gene longevity after whole genome duplication in other taxa.
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