Effects of recombination rate and gene density on transposable element distributions in Arabidopsis thaliana

Genome Research
Stephen I WrightThomas E Bureau

Abstract

Transposable elements (TEs) comprise a major component of eukaryotic genomes, and exhibit striking deviations from random distribution across the genomes studied, including humans, flies, nematodes, and plants. Although considerable progress has been made in documenting these patterns, the causes are subject to debate. Here, we use the genome sequence of Arabidopsis thaliana to test for the importance of competing models of natural selection against TE insertions. We show that, despite TE accumulation near the centromeres, recombination does not generally correlate with TE abundance, suggesting that selection against ectopic recombination does not influence TE distribution in A. thaliana. In contrast, a consistent negative correlation between gene density and TE abundance, and a strong under-representation of TE insertions in introns suggest that selection against TE disruption of gene expression is playing a more important role in A. thaliana. High rates of self-fertilization may reduce the importance of recombination rate in genome structuring in inbreeding organisms such as A. thaliana and Caenorhabditis elegans.

Citations

Feb 26, 2014·Genome Génome / Conseil National De Recherches Canada·Yun-Hua LiuHong-Bin Zhang
Oct 30, 2004·Genetics·Masaomi KatoTetsuji Kakutani
Oct 4, 2006·Proceedings. Biological Sciences·Sylvain GléminDeborah Charlesworth
Jul 20, 2007·Journal of Virology·Aris KatzourakisMichael Tristem
May 29, 2008·Genetics·Akira KawabeDeborah Charlesworth
Sep 6, 2008·Proceedings of the National Academy of Sciences of the United States of America·Steven LocktonBrandon S Gaut
Mar 24, 2009·Nucleic Acids Research·Piotr A ZiolkowskiJan Sadowski
Jul 23, 2009·Proceedings of the National Academy of Sciences of the United States of America·Lixing Yang, Jeffrey L Bennetzen
Aug 12, 2009·The Journal of Heredity·Ellen J Pritham
Mar 24, 2010·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Gil McVean
Aug 6, 2010·Genome Research·Graham McVicker, Phil Green
Feb 7, 2013·Mobile DNA·Roland VergilinoFrance Dufresne
Feb 15, 2013·PLoS Genetics·Xi WangLisa M Smith

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