ArticleGenome biology2007
Quantifying the major mechanisms of recent gene duplications in the human and mouse genomes: a novel strategy to estimate gene duplication rates.
Article in Genome biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 43 citations in OpenAlex.
- The effect of spontaneous mutations onbioRxiv : the preprint server for biology · 2025Article
- Chromatin Topological Domains Associate With the Rapid Formation of Tandem Duplicates in Plants.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Recurrent but Short-Lived Duplications of Centromeric Proteins in Holocentric Caenorhabditis Species.Molecular biology and evolution · 2022Article
- Review
- Protein-protein binding selectivity and network topology constrain global and local properties of interface binding networks.Scientific reports · 2017Article
- Protein-Coding Genes' Retrocopies and Their Functions.Viruses · 2017Review
- Genetic Variation at Exon 2 of the MHC Class II DQB Locus in Blue Whale (Balaenoptera musculus) from the Gulf of California.PloS one · 2016Article
- Complexity of gene expression evolution after duplication: protein dosage rebalancing.Genetics research international · 2014Review
- Copy-number changes in evolution: rates, fitness effects and adaptive significance.Frontiers in genetics · 2013Review
- Gene duplication as a major force in evolution.Journal of genetics · 2013Review
- To the beat of a different drum: determinants implicated in the asymmetric sequence divergence of Caenorhabditis elegans paralogs.BMC evolutionary biology · 2013Article
- Mechanisms of Gene Duplication and Translocation and Progress towards Understanding Their Relative Contributions to Animal Genome Evolution.International journal of evolutionary biology · 2012Article
- Article
- In with the old, in with the new: the promiscuity of the duplication process engenders diverse pathways for novel gene creation.International journal of evolutionary biology · 2012Article
- De novo origin of human protein-coding genes.PLoS genetics · 2011Article
- High spontaneous rate of gene duplication in Caenorhabditis elegans.Current biology : CB · 2011Article
- The role of duplications in the evolution of genomes highlights the need for evolutionary-based approaches in comparative genomics.Biology direct · 2011Review
- Evolutionary patterns of recently emerged animal duplogs.Genome biology and evolution · 2011Article
- Comparing the retention mechanisms of tandem duplicates and retrogenes in human and mouse genomes.Genetics, selection, evolution : GSE · 2010Article
- An atlas of the speed of copy number changes in animal gene families and its implications.PloS one · 2009Article
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe rate of gene duplication is an important parameter in the study of evolution, but the influence of gene conversion and technical problems have confounded previous attempts to provide a satisfying estimate. We propose a new strategy to estimate the rate that involves separate quantification of the rates of two different mechanisms of gene duplication and subsequent combination of the two rates, based on their respective contributions to the overall gene duplication rate.
resultsPrevious estimates of gene duplication rates are based on small gene families. Therefore, to assess the applicability of this to families of all sizes, we looked at both two-copy gene families and the entire genome. We studied unequal crossover and retrotransposition, and found that these mechanisms of gene duplication are largely independent and account for a substantial amount of duplicated genes. Unequal crossover contributed more to duplications in the entire genome than retrotransposition did, but this contribution was significantly less in two-copy gene families, and duplicated genes arising from this mechanism are more likely to be retained. Combining rates of duplication using the two mechanisms, we estimated the overall rates to be from approximately 0.515 to 1.49 x 10(-3) per gene per million years in human, and from approximately 1.23 to 4.23 x 10(-3) in mouse. The rates estimated from two-copy gene families are always lower than those from the entire genome, and so it is not appropriate to use small families to estimate the rate for the entire genome.
conclusionWe present a novel strategy for estimating gene duplication rates. Our results show that different mechanisms contribute differently to the evolution of small and large gene families.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.