The Arabidopsis lyrata genome sequence and the basis of rapid genome size change [electronic resource].

Published: Berkeley, Calif. : Lawrence Berkeley National Laboratory, 2011.
Oak Ridge, Tenn. : Distributed by the Office of Scientific and Technical Information, U.S. Dept. of Energy.
Physical Description: 476 : digital, PDF file
Additional Creators: Lawrence Berkeley National Laboratory and United States. Department of Energy. Office of Scientific and Technical Information

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Summary

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.

Report Numbers

E 1.99:lbnl-4616e
lbnl-4616e

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Published through SciTech Connect.
04/29/2011.
"lbnl-4616e"
Nature Genetics 43 5 ISSN 1061--4036 FT
Cheng, Jan-Fang; Yang, Liang; Grimwood, Jane; Schmutz, Jeremy; Grigoriev, Igor V.; Hu, Tina T.; Pattyn, Pedro; Bakker, Erica G.; Cao, Jun; Clark, Richard M.; Fahlgren, Noah; Fawcett, Jeffrey A.; Gundlach, Heidrun; Haberer, Georg; Hollister, Jesse D.; Ossowski, Stephan; Ottilar, Robert P.; Salamov, Asaf A.; Schneeberger, Korbinian; Spannagl, Manuel; Wang, Xi; Nasrallah, Mikhail E.; Bergelson, Joy; Carrington, James C.; Gaut, Brandon S.; Mayer, Klaus F. X.; Van de Peer, Yves; Nordborg, Magnus; Weigel, Detlef; Guo, Ya-Long.
Genomics Division

Funding Information

DE-AC02-05CH11231

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