Reconstructing the evolution of genes along the species tree
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- Gorbunov, K.Y. & Lyubetsky, V.A. Mol Biol (2009) 43: 881. doi:10.1134/S0026893309050197
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A model and algorithm are proposed to infer the evolution of a gene family described by the corresponding gene tree, with respect to the species evolution described by the corresponding species tree. The model describes the evolution using the new concept of a nested tree. The algorithm performance is illustrated by the example of several orthologous protein groups. The considered evolutionary events are speciation, gene duplication and loss, and horizontal gene transfer retaining the original gene copy. The transfer event with the loss of the original gene copy is considered as a combination of gene transfer and loss. The model maps each evolutionary event onto the species phylogeny.