期刊
THEORETICAL POPULATION BIOLOGY
卷 76, 期 1, 页码 68-76出版社
ACADEMIC PRESS INC ELSEVIER SCIENCE
DOI: 10.1016/j.tpb.2009.04.005
关键词
Recombination frequency; Linkage disequilibrium; Outcrossing rate; Open-pollinated population; EM algorithm
资金
- NSF/NIH Mathematical Biology [0540745]
- Direct For Mathematical & Physical Scien
- Division Of Mathematical Sciences [0540745] Funding Source: National Science Foundation
The structure and organization of natural plant populations can be understood by estimating the genetic parameters related to mating behavior, recombination frequency, and gene associations with DNA-based markers typed throughout the genome. We developed a statistical and computational model for estimating and testing these parameters from multilocus data collected in a natural population. This model, constructed by a maximum likelihood approach and implemented within the EM algorithm, is shown to be robust for simultaneously estimating the outcrossing rate, recombination frequencies and linkage disequilibria. The algorithm built with three or more markers allows the characterization of crossover interference in meiosis and high-order disequilibria among different genes, thus providing a powerful tool for illustrating a detailed picture of genetic diversity and organization in natural populations. Computer simulations demonstrate the statistical properties of the proposed model. This multilocus model will be useful for studying the pattern and amount of genetic variation within and among populations to further infer the evolutionary history of a plant species. (C) 2009 Elsevier Inc. All rights reserved.
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