Evolutionary dynamics

In molecular evolution, population dynamics is tantamount to population genetics of asexually reproducing haploid individuals or to chemical reaction kinetics of polynucleotide replication and mutation. Replication-mutation kinetics is conventionally described 

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Hurst, L.D. and McVean, G.T. (1996) Clade selection, reversible evolution and the persistence of selfish elements the evolutionary dynamics of cytoplasmic incompatibility. Proceedings of the Royal Society of London B 263, 97-104. 

In addition, the authors suggest that all such systems must have a semi-permeable active boundary (membrane), an energy transduction apparatus and (at least) two types of functionally interdependent macromolecular components (catalysts and records). Thus, the phenomenon of life requires not only individual self-replication and self-sustaining systems, but it also requires of such individual systems the ability to develop a characteristic, evolutionary dynamic and a historical collectivist organisation. 

Zizumbo D, Colunga P, Payro de la Crus E, Delgado P, Gepts P (2005) Population structure and evolutionary dynamics of wild-weedy-domesticated complexes of common bean in a Mesoamerican region. Crop Sci 45 1073-1083... 

Lindgren, K. (1996), Evolutionary Dynamics in Game-Theory Models, to appear in The Economy as an Evolving, Complex System II, ed. W. Brian Arthur et al. 

Lindgren, K. and Nordahl, M.G. (1994), Evolutionary dynamics of spatial games, Physica D 75, 292-309. 

TNC.70. 1. Prigogine, From dynamical systems to socio-economic models, in International Symposium on Evolutionary Dynamics and Nonlinar Economics, University of Texas at Austin, 1989. 

The model of evolutionary dynamics has been applied to interpret the experimental data on molecular evolution and it was implemented for computer simulations (Huynen et al., 1996 Fontana and Schuster, 1998). The computer simulations allows one to follow the optimization process in full detail at the molecular level. 

Roy, B.A., Kirchner, J.W. Evolutionary dynamics of pathogen resistance and tolerance. Evolution 2002 54 51-... 

Wolfner M. F. (2002) The gifts that keep on giving physiological functions and evolutionary dynamics of male seminal proteins in Drosophila. Heredity 88, 85-93. 

The mathematical analyses of evolutionary dynamics on spin glass-like landscapes and the statistical mechanics and exact solution approaches to genetic algorithms can be related to the techniques and parameters used in laboratories. If performance measures of importance in applied molecular evolution are related to the approximated affinity... 

Sequences folding into the same structure form extended neutral networks that enable evolutionary dynamics to approach major peaks of fitness landscapes and eventually allow to reach the global optimum. 

In this chapter, we glean the most relevant results from different backgrounds and combine them in a way that is useful to researchers applying evolutionary methods to protein design. We focus on controlling the evolutionary dynamics with an emphasis on relationships between experimental parameters that lead to phase transitions and upper and lower limits. The backbone and motivation behind the theory— information that is necessary to understand the results—are explained in Section II. The implications of the theoretical work, as applied to current methods in directed evolution, are explored in Section III. Finally, results that are important in driving future evolution experiments... 

Maynard Smith J, Feil EJ, Smith NH (2000) Population structure and evolutionary dynamics of pathogenic bacteria. BioEssays 22 1115-1122... 

Fig. 2.9. Evolutionary dynamics with pheno- created through a mutation, I, —> lx, (ii) the se-...

Kroymann, J., Donnerhacke, S., Schnabelrauch, D. and Mitchell-Olds, T. (2003) Evolutionary dynamics of an Arabidopsis insect resistance quantitative trait locus. Proc. Natl. Acad. Sci. USA, 100,14587-92. 

Niimura Y, Nei M (2005) Evolutionary dynamics of olfactory receptor genes in fishes and tetrap-ods. Proc Natl Acad Sci USA 102 6039-6044... 

Niimura Y, Nei M (2006) Evolutionary dynamics of olfactory and other chemosensory receptor genes in vertebrates. J Hum Genet 51 505-517... 

Menashe I, Man O, et al. (2003) Different noses for different people. Nat Genet 34(2) 143—4 Mombaerts P (2004) Odorant receptor gene choice in olfactory sensory neurons the one receptor-one neuron hypothesis revisited. Curr Opin Neurobiol 14(1) 31—36 Niimura Y, Nei M (2005) Evolutionary dynamics of olfactory receptor genes in fishes and tetrapods. 

Wistow, G. (1993). Lens crystallins gene recruitment and evolutionary dynamism. Trends Biochem. Sci., 18, 301-6. 

Figure 42. Evolutionary dynamic order patterns -from the maternal galaxy to its transition to life in self-replicationai informational species [7 a, 17, 18].

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