Literature DB >> 19030023

RNA-based gene duplication: mechanistic and evolutionary insights.

Henrik Kaessmann1, Nicolas Vinckenbosch, Manyuan Long.   

Abstract

Gene copies that stem from the mRNAs of parental source genes have long been viewed as evolutionary dead-ends with little biological relevance. Here we review a range of recent studies that have unveiled a significant number of functional retroposed gene copies in both mammalian and some non-mammalian genomes. These studies have not only revealed previously unknown mechanisms for the emergence of new genes and their functions but have also provided fascinating general insights into molecular and evolutionary processes that have shaped genomes. For example, analyses of chromosomal gene movement patterns via RNA-based gene duplication have shed fresh light on the evolutionary origin and biology of our sex chromosomes.

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Year:  2009        PMID: 19030023      PMCID: PMC3690669          DOI: 10.1038/nrg2487

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  102 in total

1.  Evolutionary steps of sex chromosomes are reflected in retrogenes.

Authors:  Aoife McLysaght
Journal:  Trends Genet       Date:  2008-09-05       Impact factor: 11.639

2.  Identification and analysis of ancestral hominoid transcriptome inferred from cross-species transcript and processed pseudogene comparisons.

Authors:  Yao-Ting Huang; Feng-Chi Chen; Chiuan-Jung Chen; Hsin-Liang Chen; Trees-Juen Chuang
Journal:  Genome Res       Date:  2008-03-27       Impact factor: 9.043

3.  Human L1 retrotransposition: cis preference versus trans complementation.

Authors:  W Wei; N Gilbert; S L Ooi; J F Lawler; E M Ostertag; H H Kazazian; J D Boeke; J V Moran
Journal:  Mol Cell Biol       Date:  2001-02       Impact factor: 4.272

4.  Human LINE retrotransposons generate processed pseudogenes.

Authors:  C Esnault; J Maestre; T Heidmann
Journal:  Nat Genet       Date:  2000-04       Impact factor: 38.330

5.  Haploinsufficiency of the germ cell-specific nuclear RNA binding protein hnRNP G-T prevents functional spermatogenesis in the mouse.

Authors:  Ingrid Ehrmann; Caroline Dalgliesh; Aikaterini Tsaousi; Maria Paola Paronetto; Bettina Heinrich; Ralf Kist; Paul Cairns; Weiping Li; Christian Mueller; Michael Jackson; Heiko Peters; Karim Nayernia; Philippa Saunders; Michael Mitchell; Stefan Stamm; Claudio Sette; David J Elliott
Journal:  Hum Mol Genet       Date:  2008-06-18       Impact factor: 6.150

6.  On the origin of new genes in Drosophila.

Authors:  Qi Zhou; Guojie Zhang; Yue Zhang; Shiyu Xu; Ruoping Zhao; Zubing Zhan; Xin Li; Yun Ding; Shuang Yang; Wen Wang
Journal:  Genome Res       Date:  2008-06-11       Impact factor: 9.043

7.  Emergence of young human genes after a burst of retroposition in primates.

Authors:  Ana Claudia Marques; Isabelle Dupanloup; Nicolas Vinckenbosch; Alexandre Reymond; Henrik Kaessmann
Journal:  PLoS Biol       Date:  2005-10-11       Impact factor: 8.029

8.  Mitochondrial targeting adaptation of the hominoid-specific glutamate dehydrogenase driven by positive Darwinian selection.

Authors:  Lia Rosso; Ana C Marques; Andreas S Reichert; Henrik Kaessmann
Journal:  PLoS Genet       Date:  2008-08-08       Impact factor: 5.917

9.  Evolutionary origin of regulatory regions of retrogenes in Drosophila.

Authors:  Yongsheng Bai; Claudio Casola; Esther Betrán
Journal:  BMC Genomics       Date:  2008-05-22       Impact factor: 3.969

10.  Birth and rapid subcellular adaptation of a hominoid-specific CDC14 protein.

Authors:  Lia Rosso; Ana Claudia Marques; Manuela Weier; Nelle Lambert; Marie-Alexandra Lambot; Pierre Vanderhaeghen; Henrik Kaessmann
Journal:  PLoS Biol       Date:  2008-06-10       Impact factor: 8.029

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  201 in total

1.  The evolution of gene expression levels in mammalian organs.

Authors:  David Brawand; Magali Soumillon; Anamaria Necsulea; Philippe Julien; Gábor Csárdi; Patrick Harrigan; Manuela Weier; Angélica Liechti; Ayinuer Aximu-Petri; Martin Kircher; Frank W Albert; Ulrich Zeller; Philipp Khaitovich; Frank Grützner; Sven Bergmann; Rasmus Nielsen; Svante Pääbo; Henrik Kaessmann
Journal:  Nature       Date:  2011-10-19       Impact factor: 49.962

2.  Reshaping of global gene expression networks and sex-biased gene expression by integration of a young gene.

Authors:  Sidi Chen; Xiaochun Ni; Benjamin H Krinsky; Yong E Zhang; Maria D Vibranovski; Kevin P White; Manyuan Long
Journal:  EMBO J       Date:  2012-04-27       Impact factor: 11.598

3.  Evolution of enzymatic activities of testis-specific short-chain dehydrogenase/reductase in Drosophila.

Authors:  Jianming Zhang; Huyuan Yang; Manyuan Long; Liming Li; Antony M Dean
Journal:  J Mol Evol       Date:  2010-08-31       Impact factor: 2.395

Review 4.  Origins, evolution, and phenotypic impact of new genes.

Authors:  Henrik Kaessmann
Journal:  Genome Res       Date:  2010-07-22       Impact factor: 9.043

5.  Patching gaps in plant genomes results in gene movement and erosion of colinearity.

Authors:  Thomas Wicker; Jan P Buchmann; Beat Keller
Journal:  Genome Res       Date:  2010-06-07       Impact factor: 9.043

6.  Evaluating Phylostratigraphic Evidence for Widespread De Novo Gene Birth in Genome Evolution.

Authors:  Bryan A Moyers; Jianzhi Zhang
Journal:  Mol Biol Evol       Date:  2016-01-11       Impact factor: 16.240

7.  Evolution of gene structural complexity: an alternative-splicing-based model accounts for intron-containing retrogenes.

Authors:  Chengjun Zhang; Andrea R Gschwend; Yidan Ouyang; Manyuan Long
Journal:  Plant Physiol       Date:  2014-02-11       Impact factor: 8.340

8.  Frequency of intron loss correlates with processed pseudogene abundance: a novel strategy to test the reverse transcriptase model of intron loss.

Authors:  Tao Zhu; Deng-Ke Niu
Journal:  BMC Biol       Date:  2013-03-05       Impact factor: 7.431

9.  An expressed fgf4 retrogene is associated with breed-defining chondrodysplasia in domestic dogs.

Authors:  Heidi G Parker; Bridgett M VonHoldt; Pascale Quignon; Elliott H Margulies; Stephanie Shao; Dana S Mosher; Tyrone C Spady; Abdel Elkahloun; Michele Cargill; Paul G Jones; Cheryl L Maslen; Gregory M Acland; Nathan B Sutter; Keiichi Kuroki; Carlos D Bustamante; Robert K Wayne; Elaine A Ostrander
Journal:  Science       Date:  2009-07-16       Impact factor: 47.728

10.  Repeated evolution of testis-specific new genes: the case of telomere-capping genes in Drosophila.

Authors:  Raphaëlle Dubruille; Gabriel A B Marais; Benjamin Loppin
Journal:  Int J Evol Biol       Date:  2012-07-11
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