Yang, Xiaohan , Tschaplinski, Timothy J , Gunter, Lee E , Jawdy, Sara , Tuskan, Gerald A .
Conserved evolution in duplicated genes among Arabidopsis, poplar and rice.
Gene duplication is believed to be an important mechanism for creating genetic novelty and increasing gene number during angiosperm evolution. Analysis of changes in functional motifs or elements in both regulatory and coding regions is critical for understanding the evolutionary dynamics and fate of duplicated genes. Although it is widely accepted that these motifs or elements are conserved across species because of evolutionary constraints, we do not know if the mode of evolution of duplicated genes is also conserved among different species. The addition of the poplar genome sequence to the list of fully decoded plant genomes allows us to perform comparative studies of the evolution of duplicated genes in three angiosperm species. We first performed genome-wide analysis of orthologous and paralogous relationships among the genes in Arabidopsis, poplar and rice, and identified shared Arabidopsis-poplar-rice orthologous gene groups, which have exactly two inparalogs in each species. These orthologous groups are ideal for comparative studies of evolutionary footprints of duplicated genes because the “birth-and-death” processes can be characterized in cross species comparisons. We then studied the protein motif structure and selection force in the coding regions, and analyzed cis-elements in the 1kb region upstream of the translation start site for each orthologous set of genes. Finally, we analyzed gene expression patterns revealed by microarray, massively parallel signature sequencing (MPSS), and RT-PCR. Our results indicate that the evolutionary patterns of duplicated genes are conserved across Arabidopsis, poplar and rice. This research will help resolve the current controversy on the evolutionary dynamics of duplicated genes in general.
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1 - Oak Ridge National Laboratory, Environmental Sciences Division, PO Box 2008 MS6422, Building 1062, Room 204, Oak Ridge, TN, 37831-6422, USA
2 - Oak Ridge National Laboratory, Environmental Sciences Division
Presentation Type: Plant Biology Abstract
Location: Exhibit Hall (Northeast, Southwest & Southeast)/Hilton
Date: Sunday, July 8th, 2007
Time: 8:00 AM