Whole genome duplication (WGD) is a rare evolutionary event that has played a dramatic role in the diversification of most eukaryotic lineages. Given a set of species known to have evolved from a common ancestor through one or many rounds of WGD together with a set of genome rearrangements, and a phylogenetic tree for these species, the goal is to infer the pre-duplication ancestral genomes. We use a two step approach: (1) Compute a score for each possible ancestral adjacency at each internal node of the phylogeny; (2) Combine adjacencies to form ancestral chromosomes. We first apply our method on simulated datasets and show a high accuracy for adjacency prediction. We then infer the pre-duplicated ancestor of a set of 11 yeast species and compare it to a manually assembled ancestral genome obtained by Gordon et al. (2009). © 2010 Springer-Verlag.
CITATION STYLE
Bertrand, D., Gagnon, Y., Blanchette, M., & El-Mabrouk, N. (2010). Reconstruction of ancestral genome subject to whole genome duplication, speciation, rearrangement and loss. In Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (Vol. 6293 LNBI, pp. 78–89). https://doi.org/10.1007/978-3-642-15294-8_7
Mendeley helps you to discover research relevant for your work.