Literature DB >> 19763152

The impact of retrotransposons on human genome evolution.

Richard Cordaux1, Mark A Batzer.   

Abstract

Their ability to move within genomes gives transposable elements an intrinsic propensity to affect genome evolution. Non-long terminal repeat (LTR) retrotransposons--including LINE-1, Alu and SVA elements--have proliferated over the past 80 million years of primate evolution and now account for approximately one-third of the human genome. In this Review, we focus on this major class of elements and discuss the many ways that they affect the human genome: from generating insertion mutations and genomic instability to altering gene expression and contributing to genetic innovation. Increasingly detailed analyses of human and other primate genomes are revealing the scale and complexity of the past and current contributions of non-LTR retrotransposons to genomic change in the human lineage.

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Year:  2009        PMID: 19763152      PMCID: PMC2884099          DOI: 10.1038/nrg2640

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


  165 in total

Review 1.  The origins and implications of Aluternative splicing.

Authors:  Jenny Kreahling; Brenton R Graveley
Journal:  Trends Genet       Date:  2004-01       Impact factor: 11.639

2.  Alu's dimeric consensus sequence destabilizes its transcripts.

Authors:  Tzu Huey Li; Carl W Schmid
Journal:  Gene       Date:  2004-01-07       Impact factor: 3.688

3.  A highly active synthetic mammalian retrotransposon.

Authors:  Jeffrey S Han; Jef D Boeke
Journal:  Nature       Date:  2004-05-20       Impact factor: 49.962

4.  Somatic mosaicism in neuronal precursor cells mediated by L1 retrotransposition.

Authors:  Alysson R Muotri; Vi T Chu; Maria C N Marchetto; Wei Deng; John V Moran; Fred H Gage
Journal:  Nature       Date:  2005-06-16       Impact factor: 49.962

5.  Alu-SINE exonization: en route to protein-coding function.

Authors:  Maren Krull; Jürgen Brosius; Jürgen Schmitz
Journal:  Mol Biol Evol       Date:  2005-05-18       Impact factor: 16.240

6.  Under the genomic radar: the stealth model of Alu amplification.

Authors:  Kyudong Han; Jinchuan Xing; Hui Wang; Dale J Hedges; Randall K Garber; Richard Cordaux; Mark A Batzer
Journal:  Genome Res       Date:  2005-05       Impact factor: 9.043

7.  Transcriptional disruption by the L1 retrotransposon and implications for mammalian transcriptomes.

Authors:  Jeffrey S Han; Suzanne T Szak; Jef D Boeke
Journal:  Nature       Date:  2004-05-20       Impact factor: 49.962

8.  Allelic heterogeneity in LINE-1 retrotransposition activity.

Authors:  Sheila M Lutz; Bethaney J Vincent; Haig H Kazazian; Mark A Batzer; John V Moran
Journal:  Am J Hum Genet       Date:  2003-11-07       Impact factor: 11.025

9.  SVA elements are nonautonomous retrotransposons that cause disease in humans.

Authors:  Eric M Ostertag; John L Goodier; Yue Zhang; Haig H Kazazian
Journal:  Am J Hum Genet       Date:  2003-11-19       Impact factor: 11.025

10.  Genomic rearrangements by LINE-1 insertion-mediated deletion in the human and chimpanzee lineages.

Authors:  Kyudong Han; Shurjo K Sen; Jianxin Wang; Pauline A Callinan; Jungnam Lee; Richard Cordaux; Ping Liang; Mark A Batzer
Journal:  Nucleic Acids Res       Date:  2005-07-20       Impact factor: 16.971

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  687 in total

1.  Discovery of mutations in Saccharomyces cerevisiae by pooled linkage analysis and whole-genome sequencing.

Authors:  Shanda R Birkeland; Natsuko Jin; Alev Cagla Ozdemir; Robert H Lyons; Lois S Weisman; Thomas E Wilson
Journal:  Genetics       Date:  2010-10-05       Impact factor: 4.562

2.  Retrotransposition of marked SVA elements by human L1s in cultured cells.

Authors:  Dustin C Hancks; John L Goodier; Prabhat K Mandal; Ling E Cheung; Haig H Kazazian
Journal:  Hum Mol Genet       Date:  2011-06-02       Impact factor: 6.150

3.  Cardiovascular disease risk factors and DNA methylation at the LINE-1 repeat region in peripheral blood from Samoan Islanders.

Authors:  Haley L Cash; Stephen T McGarvey; E Andrés Houseman; Carmen J Marsit; Nicola L Hawley; Geralyn M Lambert-Messerlian; Satupaitea Viali; John Tuitele; Karl T Kelsey
Journal:  Epigenetics       Date:  2011-10-01       Impact factor: 4.528

Review 4.  Active human retrotransposons: variation and disease.

Authors:  Dustin C Hancks; Haig H Kazazian
Journal:  Curr Opin Genet Dev       Date:  2012-03-08       Impact factor: 5.578

Review 5.  Evolution of microRNA diversity and regulation in animals.

Authors:  Eugene Berezikov
Journal:  Nat Rev Genet       Date:  2011-11-18       Impact factor: 53.242

Review 6.  Long non-coding RNAs and cancer: a new frontier of translational research?

Authors:  R Spizzo; M I Almeida; A Colombatti; G A Calin
Journal:  Oncogene       Date:  2012-01-23       Impact factor: 9.867

Review 7.  A beginner's guide to eukaryotic genome annotation.

Authors:  Mark Yandell; Daniel Ence
Journal:  Nat Rev Genet       Date:  2012-04-18       Impact factor: 53.242

Review 8.  Basic concepts of epigenetics: impact of environmental signals on gene expression.

Authors:  Elizabeth A Mazzio; Karam F A Soliman
Journal:  Epigenetics       Date:  2012-02       Impact factor: 4.528

Review 9.  CNVs: harbingers of a rare variant revolution in psychiatric genetics.

Authors:  Dheeraj Malhotra; Jonathan Sebat
Journal:  Cell       Date:  2012-03-16       Impact factor: 41.582

10.  Genomic localization of AtRE1 and AtRE2, copia-type retrotransposons, in natural variants of Arabidopsis thaliana.

Authors:  Mari Yamada; Yumi Yamagishi; Masashi Akaoka; Hidetaka Ito; Atsushi Kato
Journal:  Mol Genet Genomics       Date:  2014-04-27       Impact factor: 3.291

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