title: Phylogenetic tree and community structure from a Tangled Nature model.
abstract: In evolutionary biology, the taxonomy and origination of species are widely studied subjects. An estimation of the evolutionary tree can be done via available DNA sequence data. The calculation of the tree is made by well-known and frequently used methods such as maximum likelihood and neighbor-joining. In order to examine the results of these methods, an evolutionary tree is pursued computationally by a mathematical model, called Tangled Nature. A relatively small genome space is investigated due to computational burden and it is found that the actual and predicted trees are in reasonably good agreement in terms of shape. Moreover, the speciation and the resulting community structure of the food-web are investigated by modularity.
authors.affiliation: Department of Physics, Erciyes University, Kayseri, Turkey. Electronic address: canko@erciyes.edu.tr.
authors.forename: Osman
authors.initials: O
authors.lastname: Canko
authors.affiliation: Department of Physics, Erciyes University, Kayseri, Turkey.
authors.forename: Ferhat
authors.initials: F
authors.lastname: Taşkın
authors.affiliation: Department of Physics, Erciyes University, Kayseri, Turkey.
authors.forename: Kamil
authors.initials: K
authors.lastname: Argın
mesh_terms: D017753:Ecosystem; D016678:Genome; D016013:Likelihood Functions; D008957:Models, Genetic; D010802:Phylogeny; D013045:Species Specificity; D013997:Time Factors
keywords: Food-web; Maximum likelihood method; Modularity; Neighbor-joining method; Phylogenetic tree