Abstract
Cophylogeny is the study of the relationships between phylogenies of ecologically related groups (taxa, geographical areas, genes etc.), where one, the “host” phylogeny, is independent and the other, the “associate” phylogeny, is hypothesized to be dependent to some degree on the host. Given two such phylogenies our aim is to estimate the past associations between the host and associate taxa. This chapter describes cophylogeny and discusses some of its basic principles. The necessary properties of any cophylogenetic method are described. Charleston [5] created a graph which contains all the potential solutions to a given cophylogenetic problem. The vertices of this graph are associations, either observed or hypothetical, between “host” and associated taxonomic units, and the arcs correspond to the associate phylogeny. A new and more general method of constructing the Jungle is presented, which will correctly account for reticulate host and/or parasite phylogenies.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
S. C. Barker. Lice, cospeciation and parasitism. International Journal for Parasitology, 26:219–222, 1996. Reply to Page et al. 1996.
D. R. Brooks. Hennig’s parasitological method: A proposed solution. Systematic Zoology, 30:229–49, 1981.
D. R. Brooks. Parsimony analysis in historical biogeography and coevolution: methodological and theoretical update. Systematic Zoology, 39:14–30, 1990.
E. J. Censky, K. Hodge, and J. Dudley. Over-water dispersal of lizards due to hurricanes. Nature, 395:556, 1998.
M. A. Charleston. Jungles: A new solution to the host/parasite phylogeny reconciliation problem. Mathematical Biosciences, 149:191–223, 1998.
M. A. Charleston and S. L. Perkins. Lizards, malaria, and jungles in the caribbean. In Tangled trees:phylo geny, cospeciation, and coevolution. University of Chicago Press, 2000.
M. A. Charleston and D. Robertson. An alternative hypothesis to explain the apparent codivergent history of primate lentiviruses. x, x(x):x, x. (in prep.).
M. R. Goddard and A. Burt. Recurrent invasion and extinction of a selfish gene. Proceedings of the National Academy of Sciences of the U.S.A., 96(24):13880–13885, 1999.
M. S. Hafner and S. A. Nadler. Phylogenetic trees support the coevolution of parasites and their hosts. Nature, 332:258–259, 1988.
J. P. Huelsenbeck, B. Rannala, and Z. Yang. Statistical tests of host-parasite cospeciation. Evolution, 51(2):410–419, 1997.
J. J. Nino-Vasquez, D. Vogel, R. Rodriguez, A. Moreno, M. E. Patarroyo, G. Pluschke, and C. A. Daubenberger. Sequence and diversity of DRB genes of Aotus nancymaae, a primate model for human malaria parasites. Immunogenetics, 51(3):219–230, 2000.
R. D. M. Page. Component analysis: A valiant failure? Cladistics, 6:119–36, 1990.
R. D. M. Page. Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas. Systematic Biology, 43:58–77, 1994.
R. D. M. Page. Parallel phylogenies: Reconstructing the history of host-parasite assemblages. Cladistics, 10:155–73, 1994.
R. D. M. Page. Temporal congruence revisited: comparison of mitochondrial DNA sequence divergence in cospeciating pocket gophers and their chewing lice. Systematic Biology, 45:151–67, 1996.
R. D. M. Page and M. A. Charleston. TreeMap program. Version 2.0d. Platforms: Macintosh®. In development.
R. D. M. Page and M. A. Charleston. From gene to organismal phylogeny: Reconciled trees and the gene tree/species tree problem. Molecular Phylogenetics and Evolution, 7(2):231–240, 1997.
R. D. M. Page and M. A. Charleston. Trees within trees: phylogeny and historical associations. Trends in Ecology and Evolution, 13(9):356–359, 1998.
R. D. M. Page, D. H. Clayton, and A. M. Paterson. Lice and cospeciation: A response to barker. International Journal for Parasitology, 26:213–8, 1996. Response to Barker 1994, he replied 1996 Response to Barker 1994, he replied 1996.
R. D. M. Page and M. S. Hafner. Molecular phylogenies and host-parasite cospeciation.: gophers and lice as a model system. In J. M. S. P. H. Harvey, A. J. Leigh Brown and S. Nee, editors, New uses for new phylogenies, pages 255–70. Oxford University Press, Oxford, 1996.
A. M. Paterson, R. D. Gray, and G. P. Wallis. Parasites, petrels and penguins: Does louse presence reflect seabird phylogeny? International Journal for Parasitology, 23(4):515–526, 1993.
F. Ronquist. Reconstructing the history of host-parasite associations using generalised parsimony. Cladistics, 11:73–89, 1995.
F. Ronquist. Parsimony analysis of coevolving species associations. In Tangled trees:phylo geny, cospeciation, and coevolution. Chicago University Press, 2000. (in press).
P. Sharp, E. Bailes, D. L. Robertson, F. Goa, and B. H. Hahn. Origin and evolution of AIDS viruses. Biol. Bull., 196:338–342, 1999.
K. F. Shortridge, N. N. Zhou, Y. Guan, P. Gao, T. Ito, Y. Kawaoka, S. Kodihalli, S. Krauss, D. Markwell, K. G. Murti, M. Norwood, D. Senne, L. Sims, A. Takada, and R. G. Webster. Characterization of avian H5N1 influenza viruses from poultry in hong kong. Virology, 252(12):331–342, 1998.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2002 Springer-Verlag Berlin Heidelberg
About this chapter
Cite this chapter
Charleston, M.A. (2002). Principles of cophylogenetic maps. In: Lässig, M., Valleriani, A. (eds) Biological Evolution and Statistical Physics. Lecture Notes in Physics, vol 585. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-45692-9_7
Download citation
DOI: https://doi.org/10.1007/3-540-45692-9_7
Published:
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-43188-6
Online ISBN: 978-3-540-45692-6
eBook Packages: Springer Book Archive