Abstract

ALVAREZ GONZALEZ, Ernesto. Adaptation of the closest tree method for a two state quartet to Jukes-Cantor tripod trees. Rev. Mat [online]. 2023, vol.30, n.1, pp.71-87. ISSN 1409-2433.  http://dx.doi.org/10.15517/rmta.v30i1.50357.

We aim to fit 4-state sequences of DNA characters from three species to a tripod tree, whose evolutionary model is Jukes-Cantor. For this purpose, we adapt the closest tree method used in the fit of 2-state sequences coming from four species to a quartet, where the states are purines and pyrimidines and the evolutionary model is CFN. The adaptation requires a multi stage methodology called ‘reduction process’. We take the frequencies of 2-state character patterns on the quartet as parameters and search for solutions to the fit.

Keywords : closest tree method; Hadamard conjugation; phylogenetic reconstruction; observed data fitting; reduction process; the Grobner cover algorithm..

        · abstract in Spanish     · text in English     · English ( pdf )