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    Subfunctionalization of duplicated genes as a transition state to neofunctionalization

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    Subfunctionalization of duplicated ...
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    Genre
    Journal Article
    Date
    2005-04-14
    Author
    Rastogi, S
    Liberles, DA
    Subject
    Animals
    Computational Biology
    Evolution, Molecular
    Gene Duplication
    Genetics, Population
    Genome
    Haploidy
    Humans
    Ligands
    Models, Genetic
    Models, Statistical
    Peptides
    Protein Binding
    Recombination, Genetic
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    Permanent link to this record
    http://hdl.handle.net/20.500.12613/5649
    
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    DOI
    10.1186/1471-2148-5-28
    Abstract
    Background: Gene duplication has been suggested to be an important process in the generation of evolutionary novelty. Neofunctionalization, as an adaptive process where one copy mutates into a function that was not present in the pre-duplication gene, is one mechanism that can lead to the retention of both copies. More recently, subfunctionalization, as a neutral process where the two copies partition the ancestral function, has been proposed as an alternative mechanism driving duplicate gene retention in organisms with small effective population sizes. The relative importance of these two processes is unclear. Results: A set of lattice model genes that fold and bind to two peptide ligands with overlapping binding pockets, but not a third ligand present in the cell was designed. Each gene was duplicated in a model haploid species with a small constant population size and no recombination. One set of models allowed subfunctionalization of binding events following duplication, while another set did not allow subfunctionalization. Modeling under such conditions suggests that subfunctionalization plays an important role, but as a transition state to neofunctionalization rather than as a terminal fate of duplicated genes. There is no apparent selective pressure to maintain redundancy. Conclusion: Subfunctionalization results in an increase in the preservation of duplicated gene copies, including those that are neofunctionalized, but never represents a substantial fraction of duplicate gene copies at any evolutionary time point and ultimately leads to neofunctionalization of those preserved copies. This conclusion also may reflect changes in gene function after duplication with time in real genomes. © 2005 Rastogi and Liberles; licensee BioMed Central Ltd.
    Citation to related work
    Springer Science and Business Media LLC
    Has part
    BMC Evolutionary Biology
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    ae974a485f413a2113503eed53cd6c53
    http://dx.doi.org/10.34944/dspace/5631
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