ArticleGenome biology2009
Coding region structural heterogeneity and turnover of transcription start sites contribute to divergence in expression between duplicate genes.
Article in Genome biology, 2009. 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.
- Effects of Genetic Variation of the Sorting Nexin 29 (Animals : an open access journal from MDPI · 2022Article
- PIC-Me: paralogs and isoforms classifier based on machine-learning approaches.BMC bioinformatics · 2021Article
- Gene expression patterns of chicken neuregulin 3 in association with copy number variation and frameshift deletion.BMC genetics · 2017Article
- A simple metric of promoter architecture robustly predicts expression breadth of human genes suggesting that most transcription factors are positive regulators.Genome biology · 2014Article
- DNA methylation and evolution of duplicate genes.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Transcription start site evolution in Drosophila.Molecular biology and evolution · 2013Article
- Asymmetric functional divergence of young, dispersed gene duplicates in Arabidopsis thaliana.Journal of molecular evolution · 2013Article
- High expression hampers horizontal gene transfer.Genome biology and evolution · 2012Article
- A computational approach to candidate gene prioritization for X-linked mental retardation using annotation-based binary filtering and motif-based linear discriminatory analysis.Biology direct · 2011Article
- Evidences for increased expression variation of duplicate genes in budding yeast: from cis- to trans-regulation effects.Nucleic acids research · 2011Article
- The impact of gene expression regulation on evolution of extracellular signaling pathways.Molecular & cellular proteomics : MCP · 2010Article
- Measuring gene expression divergence: the distance to keep.Biology direct · 2010Article
- Why does binding of proteins to DNA or proteins to proteins not necessarily spell function?ACS chemical biology · 2010Article
- Translog, a web browser for studying the expression divergence of homologous genes.BMC bioinformatics · 2010Article
- Noncoding sequences near duplicated genes evolve rapidly.Genome biology and evolution · 2010Article
- Protein-protein interaction networks: how can a hub protein bind so many different partners?Trends in biochemical sciences · 2009Review
- A comprehensive analysis of gene expression evolution between humans and mice.Evolutionary bioinformatics online · 2009Article
- Evolution and survival on eutherian sex chromosomes.PLoS genetics · 2009Article
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2 authors.
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Abstract
backgroundGene expression divergence is one manifestation of functional differences between duplicate genes. Although rapid accumulation of expression divergence between duplicate gene copies has been observed, the driving mechanisms behind this phenomenon have not been explored in detail.
resultsWe examine which factors influence expression divergence between human duplicate genes, utilizing the latest genome-wide data sets. We conclude that the turnover of transcription start sites between duplicate genes occurs rapidly after gene duplication and that gene pairs with shared transcription start sites have significantly higher expression similarity than those without shared transcription start sites. Moreover, we find that most (55%) duplicate gene pairs do not retain the same coding sequence structure between the two duplicate copies and this also contributes to divergence in their expression. Furthermore, the proportion of aligned sequences in cis-regulatory regions between the two copies is positively correlated with expression similarity. Surprisingly, we find no effect of copy-specific transposable element insertions on the divergence of duplicate gene expression.
conclusionsOur results suggest that turnover of transcription start sites, structural heterogeneity of coding sequences, and divergence of cis-regulatory regions between copies play a pivotal role in determining the expression divergence of duplicate genes.
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