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Genetics. Dec 2001; 159(4): 1789–1804.
PMCID: PMC1461922

The probability of preservation of a newly arisen gene duplicate.

Abstract

Newly emerging data from genome sequencing projects suggest that gene duplication, often accompanied by genetic map changes, is a common and ongoing feature of all genomes. This raises the possibility that differential expansion/contraction of various genomic sequences may be just as important a mechanism of phenotypic evolution as changes at the nucleotide level. However, the population-genetic mechanisms responsible for the success vs. failure of newly arisen gene duplicates are poorly understood. We examine the influence of various aspects of gene structure, mutation rates, degree of linkage, and population size (N) on the joint fate of a newly arisen duplicate gene and its ancestral locus. Unless there is active selection against duplicate genes, the probability of permanent establishment of such genes is usually no less than 1/(4N) (half of the neutral expectation), and it can be orders of magnitude greater if neofunctionalizing mutations are common. The probability of a map change (reassignment of a key function of an ancestral locus to a new chromosomal location) induced by a newly arisen duplicate is also generally >1/(4N) for unlinked duplicates, suggesting that recurrent gene duplication and alternative silencing may be a common mechanism for generating microchromosomal rearrangements responsible for postreproductive isolating barriers among species. Relative to subfunctionalization, neofunctionalization is expected to become a progressively more important mechanism of duplicate-gene preservation in populations with increasing size. However, even in large populations, the probability of neofunctionalization scales only with the square of the selective advantage. Tight linkage also influences the probability of duplicate-gene preservation, increasing the probability of subfunctionalization but decreasing the probability of neofunctionalization.

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Selected References

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  • Amador A, Juan E. Nonfixed duplication containing the Adh gene and a truncated form of the Adhr gene in the Drosophila funebris species group: different modes of evolution of Adh relative to Adhr in Drosophila. Mol Biol Evol. 1999 Nov;16(11):1439–1456. [PubMed]
  • Bailey GS, Poulter RT, Stockwell PA. Gene duplication in tetraploid fish: model for gene silencing at unlinked duplicated loci. Proc Natl Acad Sci U S A. 1978 Nov;75(11):5575–5579. [PMC free article] [PubMed]
  • Bancroft I. Duplicate and diverge: the evolution of plant genome microstructure. Trends Genet. 2001 Feb;17(2):89–93. [PubMed]
  • Christiansen FB, Frydenberg O. Selection-mutation balance for two nonallelic recessives producing an inferior double homozygote. Am J Hum Genet. 1977 Mar;29(2):195–207. [PMC free article] [PubMed]
  • Clark AG. Invasion and maintenance of a gene duplication. Proc Natl Acad Sci U S A. 1994 Apr 12;91(8):2950–2954. [PMC free article] [PubMed]
  • Dehal P, Predki P, Olsen AS, Kobayashi A, Folta P, Lucas S, Land M, Terry A, Ecale Zhou CL, Rash S, et al. Human chromosome 19 and related regions in mouse: conservative and lineage-specific evolution. Science. 2001 Jul 6;293(5527):104–111. [PubMed]
  • de Jong WW, Rydén L. Causes of more frequent deletions than insertions in mutations and protein evolution. Nature. 1981 Mar 12;290(5802):157–159. [PubMed]
  • Dermitzakis ET, Clark AG. Differential selection after duplication in mammalian developmental genes. Mol Biol Evol. 2001 Apr;18(4):557–562. [PubMed]
  • Dobzhansky T. Studies on Hybrid Sterility. II. Localization of Sterility Factors in Drosophila Pseudoobscura Hybrids. Genetics. 1936 Mar;21(2):113–135. [PMC free article] [PubMed]
  • Force A, Lynch M, Pickett FB, Amores A, Yan YL, Postlethwait J. Preservation of duplicate genes by complementary, degenerative mutations. Genetics. 1999 Apr;151(4):1531–1545. [PMC free article] [PubMed]
  • Gu X, Li WH. The size distribution of insertions and deletions in human and rodent pseudogenes suggests the logarithmic gap penalty for sequence alignment. J Mol Evol. 1995 Apr;40(4):464–473. [PubMed]
  • Watterson GA. On the time for gene silencing at duplicate Loci. Genetics. 1983 Nov;105(3):745–766. [PMC free article] [PubMed]
  • Hughes AL. The evolution of functionally novel proteins after gene duplication. Proc Biol Sci. 1994 May 23;256(1346):119–124. [PubMed]
  • Kent WJ, Zahler AM. Conservation, regulation, synteny, and introns in a large-scale C. briggsae-C. elegans genomic alignment. Genome Res. 2000 Aug;10(8):1115–1125. [PubMed]
  • KIMURA M. On the probability of fixation of mutant genes in a population. Genetics. 1962 Jun;47:713–719. [PMC free article] [PubMed]
  • Kimura M, Ohta T. The Average Number of Generations until Fixation of a Mutant Gene in a Finite Population. Genetics. 1969 Mar;61(3):763–771. [PMC free article] [PubMed]
  • Krakauer DC, Nowak MA. Evolutionary preservation of redundant duplicated genes. Semin Cell Dev Biol. 1999 Oct;10(5):555–559. [PubMed]
  • Lange BW, Langley CH, Stephan W. Molecular evolution of Drosophila metallothionein genes. Genetics. 1990 Dec;126(4):921–932. [PMC free article] [PubMed]
  • Lootens S, Burnett J, Friedman TB. An intraspecific gene duplication polymorphism of the urate oxidase gene of Drosophila virilis: a genetic and molecular analysis. Mol Biol Evol. 1993 May;10(3):635–646. [PubMed]
  • Lynch M. Mutation accumulation in transfer RNAs: molecular evidence for Muller's ratchet in mitochondrial genomes. Mol Biol Evol. 1996 Jan;13(1):209–220. [PubMed]
  • Lynch M, Conery JS. The evolutionary fate and consequences of duplicate genes. Science. 2000 Nov 10;290(5494):1151–1155. [PubMed]
  • Lynch M, Force A. The probability of duplicate gene preservation by subfunctionalization. Genetics. 2000 Jan;154(1):459–473. [PMC free article] [PubMed]
  • Nowak MA, Boerlijst MC, Cooke J, Smith JM. Evolution of genetic redundancy. Nature. 1997 Jul 10;388(6638):167–171. [PubMed]
  • Petrov DA, Hartl DL. High rate of DNA loss in the Drosophila melanogaster and Drosophila virilis species groups. Mol Biol Evol. 1998 Mar;15(3):293–302. [PubMed]
  • Robin GC, Russell RJ, Cutler DJ, Oakeshott JG. The evolution of an alpha-esterase pseudogene inactivated in the Drosophila melanogaster lineage. Mol Biol Evol. 2000 Apr;17(4):563–575. [PubMed]
  • Ryu SL, Murooka Y, Kaneko Y. Reciprocal translocation at duplicated RPL2 loci might cause speciation of Saccharomyces bayanus and Saccharomyces cerevisiae. Curr Genet. 1998 May;33(5):345–351. [PubMed]
  • Shimeld SM. Gene function, gene networks and the fate of duplicated genes. Semin Cell Dev Biol. 1999 Oct;10(5):549–553. [PubMed]
  • Stoltzfus A. On the possibility of constructive neutral evolution. J Mol Evol. 1999 Aug;49(2):169–181. [PubMed]
  • Takahata N, Maruyama T. Polymorphism and loss of duplicate gene expression: a theoretical study with application of tetraploid fish. Proc Natl Acad Sci U S A. 1979 Sep;76(9):4521–4525. [PMC free article] [PubMed]
  • Wagner A. The role of population size, pleiotropy and fitness effects of mutations in the evolution of overlapping gene functions. Genetics. 2000 Mar;154(3):1389–1401. [PMC free article] [PubMed]

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