We improve on guided genome halving algorithms so that several thousand gene sets, each containing two paralogs in the descendant T of the doubling event and their single ortholog from an undoubled reference genome R, can be analyzed to reconstruct the ancestor A of T at the time of doubling. At the same time, large numbers of defective gene sets, either missing one paralog from T or missing their ortholog in R, may be incorporated into the analysis in a consistent way. We apply this genomic rearrangement distance-based approach to the recently sequenced poplar (Populus trichocarpa) and grapevine (Vitis vinifera) genomes, as T and R respectively.
|Original language||English (US)|
|Number of pages||11|
|Journal||Computational systems bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference|
|State||Published - 2008|
All Science Journal Classification (ASJC) codes