The Arabidopsis lyrata genome sequence and the basis of rapid genome size change

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In our manuscript, we present a high-quality genome sequence of the Arabidopsis thaliana relative, Arabidopsis lyrata, produced by dideoxy sequencing. We have performed the usual types of genome analysis (gene annotation, dN/dS studies etc. etc.), but this is relegated to the Supporting Information. Instead, we focus on what was a major motivation for sequencing this genome, namely to understand how A. thaliana lost half its genome in a few million years and lived to tell the tale. The rather surprising conclusion is that there is not a single genomic feature that accounts for the reduced genome, but that every aspect ... continued below

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Hu, Tina T.; Pattyn, Pedro; Bakker, Erica G.; Cao, Jun; Cheng, Jan-Fang; Clark, Richard M. et al. April 29, 2011.

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In our manuscript, we present a high-quality genome sequence of the Arabidopsis thaliana relative, Arabidopsis lyrata, produced by dideoxy sequencing. We have performed the usual types of genome analysis (gene annotation, dN/dS studies etc. etc.), but this is relegated to the Supporting Information. Instead, we focus on what was a major motivation for sequencing this genome, namely to understand how A. thaliana lost half its genome in a few million years and lived to tell the tale. The rather surprising conclusion is that there is not a single genomic feature that accounts for the reduced genome, but that every aspect centromeres, intergenic regions, transposable elements, gene family number is affected through hundreds of thousands of cuts. This strongly suggests that overall genome size in itself is what has been under selection, a suggestion that is strongly supported by our demonstration (using population genetics data from A. thaliana) that new deletions seem to be driven to fixation.

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  • Journal Name: Nature Genetics; Journal Volume: 43; Journal Issue: 5

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  • Report No.: LBNL-4616E
  • Grant Number: DE-AC02-05CH11231
  • DOI: 10.1038/ng.807 | External Link
  • Office of Scientific & Technical Information Report Number: 1022715
  • Archival Resource Key: ark:/67531/metadc832560

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  • April 29, 2011

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  • May 19, 2016, 3:16 p.m.

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  • June 15, 2016, 10:04 p.m.

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Hu, Tina T.; Pattyn, Pedro; Bakker, Erica G.; Cao, Jun; Cheng, Jan-Fang; Clark, Richard M. et al. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change, article, April 29, 2011; Berkeley, California. (digital.library.unt.edu/ark:/67531/metadc832560/: accessed September 20, 2017), University of North Texas Libraries, Digital Library, digital.library.unt.edu; crediting UNT Libraries Government Documents Department.