Inferring gene duplications, transfers and losses can be done in a discrete framework.
J Math Biol
; 72(7): 1811-44, 2016 06.
Article
en En
| MEDLINE
| ID: mdl-26337177
ABSTRACT
In the field of phylogenetics, the evolutionary history of a set of organisms is commonly depicted by a species tree-whose internal nodes represent speciation events-while the evolutionary history of a gene family is depicted by a gene tree-whose internal nodes can also represent macro-evolutionary events such as gene duplications and transfers. As speciation events are only part of the events shaping a gene history, the topology of a gene tree can show incongruences with that of the corresponding species tree. These incongruences can be used to infer the macro-evolutionary events undergone by the gene family. This is done by embedding the gene tree inside the species tree and hence providing a reconciliation of those trees. In the past decade, several parsimony-based methods have been developed to infer such reconciliations, accounting for gene duplications ([Formula see text]), transfers ([Formula see text]) and losses ([Formula see text]). The main contribution of this paper is to formally prove an important assumption implicitly made by previous works on these reconciliations, namely that solving the (maximum) parsimony [Formula see text] reconciliation problem in the discrete framework is equivalent to finding a most parsimonious [Formula see text] scenario in the continuous framework. In the process, we also prove several intermediate results that are useful on their own and constitute a theoretical toolbox that will likely facilitate future theoretical contributions in the field.
Palabras clave
Texto completo:
1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Duplicación de Gen
/
Evolución Biológica
/
Modelos Biológicos
Tipo de estudio:
Prognostic_studies
Idioma:
En
Revista:
J Math Biol
Año:
2016
Tipo del documento:
Article
País de afiliación:
Francia