Literature DB >> 18378100

The power-law distribution of gene family size is driven by the pseudogenisation rate's heterogeneity between gene families.

Timothy Hughes1, David A Liberles.   

Abstract

Genome sequencing has shown that the number of homologous gene families of a given size declines rapidly with family size. A power-law has been shown to provide the best mathematical description of this relationship. However, it remains unclear what evolutionary forces drive this observation. We use models of gene duplication, pseudogenisation and accumulation of replacement substitutions, which have been validated and parameterised using genomic data, to build a model of homologous gene evolution. We use this model to simulate the evolution of the distribution of gene family size and show that the power-law distribution is driven by the pseudogenisation rate's heterogeneity across gene families and its correlation within families. Moreover, we show that gene duplication and pseudogenisation are necessary and sufficient for the emergence of the power-law.

Mesh:

Year:  2008        PMID: 18378100     DOI: 10.1016/j.gene.2008.02.014

Source DB:  PubMed          Journal:  Gene        ISSN: 0378-1119            Impact factor:   3.688


  14 in total

1.  Whole-genome duplications in the ancestral vertebrate are detectable in the distribution of gene family sizes of tetrapod species.

Authors:  Timothy Hughes; David A Liberles
Journal:  J Mol Evol       Date:  2008-09-25       Impact factor: 2.395

2.  Origins of P450 diversity.

Authors:  Hideki Sezutsu; Gaëlle Le Goff; René Feyereisen
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2013-01-06       Impact factor: 6.237

3.  Models of gene gain and gene loss for probabilistic reconstruction of gene content in the last universal common ancestor of life.

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Journal:  Biol Direct       Date:  2013-12-19       Impact factor: 4.540

Review 4.  Evolution of intrinsic disorder in eukaryotic proteins.

Authors:  Joseph B Ahrens; Janelle Nunez-Castilla; Jessica Siltberg-Liberles
Journal:  Cell Mol Life Sci       Date:  2017-06-08       Impact factor: 9.261

Review 5.  Computational approaches to species phylogeny inference and gene tree reconciliation.

Authors:  Luay Nakhleh
Journal:  Trends Ecol Evol       Date:  2013-10-01       Impact factor: 17.712

6.  The evolution of vertebrate tetraspanins: gene loss, retention, and massive positive selection after whole genome duplications.

Authors:  Shengfeng Huang; Haozhen Tian; Zelin Chen; Ting Yu; Anlong Xu
Journal:  BMC Evol Biol       Date:  2010-10-13       Impact factor: 3.260

7.  The universal distribution of evolutionary rates of genes and distinct characteristics of eukaryotic genes of different apparent ages.

Authors:  Yuri I Wolf; Pavel S Novichkov; Georgy P Karev; Eugene V Koonin; David J Lipman
Journal:  Proc Natl Acad Sci U S A       Date:  2009-04-07       Impact factor: 11.205

8.  Dating and functional characterization of duplicated genes in the apple (Malus domestica Borkh.) by analyzing EST data.

Authors:  Javier Sanzol
Journal:  BMC Plant Biol       Date:  2010-05-14       Impact factor: 4.215

9.  Toward a general model for the evolutionary dynamics of gene duplicates.

Authors:  Anke Konrad; Ashley I Teufel; Johan A Grahnen; David A Liberles
Journal:  Genome Biol Evol       Date:  2011-09-13       Impact factor: 3.416

10.  The salmonid myostatin gene family: a novel model for investigating mechanisms that influence duplicate gene fate.

Authors:  Casey B Lawson; Takumu Niino; Russell A Hermansen; Vera Brok-Volchanskaya; Melissa F Jackson; Dilip K Garikipati; David A Liberles; Buel D Rodgers
Journal:  BMC Evol Biol       Date:  2012-10-08       Impact factor: 3.260

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