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Ancestral Reconstruction: Theory and Practice

Mathieu Groussin 1 Vincent Daubin 2 Eric Tannier 3 Manolo Gouy 4
3 BEAGLE - Artificial Evolution and Computational Biology
LIRIS - Laboratoire d'InfoRmatique en Image et Systèmes d'information, Inria Grenoble - Rhône-Alpes, LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558
Abstract : Biological organisms are the result of a long evolutionary history, and knowledge of the path they have followed through time is very beneficial to the understanding of their extant shapes and functions. Interestingly, each lineage keeps a record of its own evolutionary history. Comparing lineages thus allows to restore the information of ancestral traits (e.g., morphologies, molecules, etc.) and gives insights on organisms living in the past, as well as on the history of their diversification. We survey mathematical models and computational methods used to reconstruct ancestral states for different levels of organization: phenotypic traits, DNA and protein sequences, gene repertoires, and genome architecture. We discuss the possibility of reconstructing ancestral genomes in their entirety, integrating all these levels of complexity.
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Mathieu Groussin, Vincent Daubin, Eric Tannier, Manolo Gouy. Ancestral Reconstruction: Theory and Practice. Richard M. Kliman. Encyclopedia of Evolutionary Biology, Elsevier, pp.70-77, 2016, ⟨10.1016/B978-0-12-800049-6.00166-9⟩. ⟨hal-01334934⟩

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