Please use this identifier to cite or link to this item: http://repositorio.unifesp.br/handle/11600/1957
Title: Changes in G+C content of a neutrally evolving gene under a non-reversible dynamics measured by computer simulations based on experimental evolution data
Authors: Brunstein, Adriana [UNIFESP]
Varuzza, Leonardo
Sanson, Gerdine F. O. [UNIFESP]
Briones, Marcelo Ribeiro da Silva [UNIFESP]
Universidade Federal de São Paulo (UNIFESP)
Universidade de São Paulo (USP)
Keywords: molecular evolution
experimental phylogenetics
neutral theory
mathematical models of nucleotide substitutions
Issue Date: 1-Jan-2004
Publisher: Sociedade Brasileira de Genética
Citation: Genetics and Molecular Biology. Sociedade Brasileira de Genética, v. 27, n. 4, p. 632-636, 2004.
Abstract: To evaluate the effects of non-reversibility on compositional base changes and the distribution of branch lengths along a phylogeny, we extended, by means of computer simulations, our previous sequential PCR in vitro evolution experiment. In that study a 18S rRNA gene evolved neutrally for 280 generations and a homogeneous non-stationary model of base substitution based on a non-reversible dynamics was built from the in vitro evolution data to describe the observed pattern of nucleotide substitutions. Here, the process was extended to 840 generations without selection, using the model parameters calculated from the in vitro evolution experiment. We observed that under a non-reversible model the G+C content of the sequences significantly increases when compared to simulations with a reversible model. The values of mean and variance of the branch lengths are reduced under a non-reversible dynamics although they follow a Poisson distribution. We conclude that the major implication of non-reversibility is the overall decrease of branch lengths, although no transition from a stochastic to an ordered process is observed. According to our model the result of this neutral process will be the increase in the G+C content of the descendant sequences with an overall decrease in the frequency of substitutions.
URI: http://repositorio.unifesp.br/handle/11600/1957
ISSN: 1415-4757
Other Identifiers: http://dx.doi.org/10.1590/S1415-47572004000400026
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