Simple method for the analysis of protein evolution modes was developed. This method is based on Markov simulation of protein sequence evolution. Using our novel method, we analyzed the evolution modes of more than 2450 vertebrate and invertebrate orthologous protein groups (OPGs) from MetaPhOrs database [1]. The analysis of R, the proportion (%) of OPGs with atypical, statistically rare (p≤0.01), amino acid replacement types, showed that internal tree branches of vertebrate tree with R≥20% strictly correspond to aromorphoses in the vertebrate evolution: 1) the full genome duplications in early stages of vertebrate evolution and actynopterigian fish evolution, 2) the adaptation to terrestrial environments, 3) the origin of Amniota, 4) the divergence of primitive mammals and placental mammals. It was shown that the divergence of Insecta and Diptera accompanied by increasing of R may be due to the emergence of insects-angiosperms ecosystems and to the formation of the characteristic Diptera morphology [2]. This study we also conducted the functional comparison of OPGs containing atypical amino acid replacements that allowed us to uncover various features of gene networks molecular evolution on each internal branches of vertebrate and invertebrate trees.
References
1. Pryszcz L.P. et al. MetaPhOrs: orthology and paralogy predictions from multiple phylogenetic evidence using a consistency-based confidence score. Nucl. Acids Res. 2010. doi: 10.1093/nar/gkq953.
2. Grimaldi D., Engel M.S. Evolution of the insects. NY: Cambridge University Press, 2005. 755p.
| Abstracts file: | Lyapunov-rus&eng.pdf |