Journal of Artificial Evolution and Applications

Journal of Artificial Evolution and Applications / 2009 / Article
Special Issue

Artificial Evolution Methods in the Biological and Biomedical Sciences

View this Special Issue

Research Article | Open Access

Volume 2009 |Article ID 783647 | 5 pages | https://doi.org/10.1155/2009/783647

Kuri: A Simulator of Ecological Genetics for Tree Populations

Academic Editor: Marylyn Ritchie
Received06 Oct 2008
Accepted19 May 2009
Published26 Jul 2009

Abstract

This paper presents Kuri, a software package developed to simulate the temporal and spatial dynamics of genetic variability in populations and multispecies communities of trees, as well as their interactions with environmental factors. A conceptual model using agents inspired on Echo models is used to define the environment, the hierarchical structures, and the low-level rules of the system. At the individual agent (tree) level a genetic algorithm is used to model the genotypic structure and the genetic processes, from a small set of simple rules, complex higher-order population, and environmental interactions emerge. The program was written in Delphi for the Windows environment, and was designed to be used for educational and research purposes.

References

  1. D. N. Alstad, “Populus: simulations of population biology,” 2007, http://www.cbs.umn.edu/populus. View at: Google Scholar
  2. P. A. S. Nuin and P. A. Otto, “A program for representing and simulating population genetic phenomena,” Genetics and Molecular Biology, vol. 23, no. 1, pp. 53–60, 2000. View at: Google Scholar
  3. C. Gondro and J. C. M. Magalhães, “A simple genetic algorithm for studies of Mendelian populations,” in Recent Advances in Artificial Life, H. Abbass, T. Bossamaier, and J. Wiles, Eds., pp. 85–98, World Scientific, London, UK, 2005. View at: Google Scholar
  4. B. P. Kinghorn, “GENUP—a suite of programs to help teach animal breeding theory,” in Proceedings of the 10th Australian Association of Animal Breeding and Genetics, pp. 555–559, 1992. View at: Google Scholar
  5. M. Kanashiro, I. S. Thompson, J. A. G. Yared et al., “Improving conservation values of managed forests: the Dendrogene project in the Brazilian Amazon,” Unasylva, vol. 53, no. 209, pp. 25–33, 2002. View at: Google Scholar
  6. B. Degen, H.-R. Gregorius, and F. Scholz, “ECO-GENE, a model for simulation studies on the spatial and temporal dynamics of genetic structures of tree populations,” Silvae Genetica, vol. 45, no. 5-6, pp. 323–329, 1996. View at: Google Scholar
  7. P. T. Hraber, T. Jones, and S. Forrest, “The ecology of Echo,” Artificial Life, vol. 3, no. 3, pp. 165–190, 1997. View at: Google Scholar
  8. C. Gondro and B. P. Kinghorn, “Solving complex problems with evolutionary computation,” in Proceedings of the 17th Australian Association for the Advancement of Animal Breeding and Genetics, pp. 272–279, 2007. View at: Google Scholar
  9. A. S. Jump and J. Penuelas, “Genetic effects of chronic habitat fragmentation in a wind-pollinated tree,” Proceedings of the National Academy of Sciences of the United States of America, vol. 103, no. 21, pp. 8096–8100, 2006. View at: Publisher Site | Google Scholar
  10. S. Wright, Evolution and the Genetic of Populations, Vol. II: The Theory of Gene Frequencies, The University of Chicago Press, Chicago, Ill, USA, 1969.

Copyright © 2009 Benn R. Alle et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.


More related articles

124 Views | 27 Downloads | 0 Citations
 PDF  Download Citation  Citation
 Download other formatsMore
 Order printed copiesOrder

Related articles

We are committed to sharing findings related to COVID-19 as quickly and safely as possible. Any author submitting a COVID-19 paper should notify us at help@hindawi.com to ensure their research is fast-tracked and made available on a preprint server as soon as possible. We will be providing unlimited waivers of publication charges for accepted articles related to COVID-19. Sign up here as a reviewer to help fast-track new submissions.