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Award Abstract #0133760
PECASE: Genetical Theory of Population Subdivision and Divergence
| NSF Org: |
DEB
Division of Environmental Biology
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| Initial Amendment Date: |
March 21, 2002 |
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| Latest Amendment Date: |
March 31, 2006 |
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| Award Number: |
0133760 |
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| Award Instrument: |
Standard Grant |
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| Program Manager: |
Pamela K. Diggle
DEB Division of Environmental Biology
BIO Directorate for Biological Sciences
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| Start Date: |
April 1, 2002 |
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| Expires: |
March 31, 2008 (Estimated) |
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| Awarded Amount to Date: |
$675000 |
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| Investigator(s): |
John Wakeley wakeley@fas.harvard.edu (Principal Investigator)
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| Sponsor: |
Harvard University
1350 MASSACHUSETTS AVE
Cambridge, MA 02138 617/495-5501
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| NSF Program(s): |
PROBABILITY,
POPULATION DYNAMICS
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| Field Application(s): |
0312000 Population
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| Program Reference Code(s): |
EGCH, 9169, 1187, 1076, 1045
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| Program Element Code(s): |
1263, 1174
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ABSTRACT
Proposal Title: PECASE: Genetical Theory of Population Subdivision and Divergence
Institution: Harvard University
This work will enhance our ability to use DNA or other genetic data to make inferences about population structure and population history. It will allow us, for instance, to answer questions like "How much migration has occurred between these populations?" or "When did these populations diverge from each other?" In order to do this, a body of mathematical models that are used to describe patterns of genetic variation within and between populations will be extended. Thus, a secondary impact of the project will be an advance in the fields applied mathematics and probability theory. Further, two books and an interactive web site will be produced. The aim of these is to promote the teaching of the branch of population genetics used by most workers but rarely taught, called coalescent theory.
The theoretical aspects of the work will focus on the analysis of population models in which different events happen at vastly different rates. For example, if migration rates are high, then migration events will happen much more often than mutation events, which tend to be very rare. When such differences in time scale occur, the analyses are simpler and the mathematical models have properties that make them interesting in their own right. These simplifications will be used to produce a battery of methods and tests, which empirical population geneticists can employ to study the history of natural populations. The books will bring the teaching of population genetics up to date with current research methods and ideas. Specifically, they will use and advocate the modern genealogical, or coalescent, approach to the subject. The coalescent approach considers the genealogical history of a sample of genetic data, and thus can be better suited to empirical work than classical population genetic approaches which model entire populations.
This project was originally funded as a CAREER award, and was converted to a Presidential Early Career Award for Engineers and Scientists (PECASE) award in May 2004.
PUBLICATIONS PRODUCED AS A RESULT OF THIS RESEARCH
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(Showing: 1 - 10 of 14)
(Showing: 1 - 14 of 14)
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Achaz, G., S. Palmer, M. Kearny, F. Maldarelli, J. W. Mellors, J. M. Coffin and J. Wakeley. "A robust measure of HIV-1 population turnover within chronically infected individuals.," Mol. Biol. Evol., v.21, 2004, p. 1902.
Arbogast, B. S, S. V. Edwards, J. Wakeley, P. Beerli and J. B. Slowinski. "Estimating divergence times from molecular data on phylogenetic and population genetic timescales," Annu. Rev. Ecol. Syst., v.33, 2002, p. 707.
F. F. Jesus, J. F. Wilkins, V. N. Solferini, and J. Wakeley. "Expected coalescence times and segregating sites in a model of glacial cycles," Genetics and Molecular Research, v.5, 2006, p. 466.
Frederick A. Matsen and John Wakeley. "Convergence to the Island-Model Coalescent Process in Populations With Restricted
Migration," Genetics, v.172, 2006, p. 701.
J Wakeley and S Lessard. "Corridors for migration and the structured coalescent," Theoretical Population Biology, v.70, 2006, p. 412.
Lessard, S. and J. Wakeley. "The two-locus ancestral graph in a subdivided population: convergence as the number of
demes grows in the island model.," J. Math. Biol., v.48, 2004, p. 275.
Rouzine, I. M., J. Wakeley and J. Coffin. "The solitary wave of asexual evolution," Proc. Natl. Acad. Sci., USA, v.100, 2003, p. 587.
Slade, P. and J. Wakeley. "The ancestral selection graph and the many-demes limit.," Genetics, v.169, 2005, p. 1117.
Wakeley, J. "Polymorphism and divergence for island model species," Genetics, v.163, 2003, p. 411.
Wakeley, J.. "The limits of theoretical population genetics.," Genetics, v.169, 2005, p. 1.
Wakeley, J.. "Recent trends in population genetics: more data! more math! simple models?," J. Hered., v.95, 2004, p. 397.
Wakeley, J.. "Metapopulation models for historical inference.," Mol. Ecol., v.13, 2004, p. 865.
Wakeley, J. and T. Takahashi. "Gene genealogies when the sample size exceeds the effective size of the population," Mol. Biol. Evol., v.20, 2003, p. 208.
Wakeley, J. and T. Takahashi. "The many-demes limit for selection and drift in a subdivided population.," Theoret. Pop. Biol., v.66, 2004, p. 83.
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