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Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data.
These analyses show that the most useful markers for bottleneck detection are those evolving under the infinite allele model (IAM) and they provide guidelines for selecting sample sizes of individuals and loci.
Computer note. BOTTLENECK: a computer program for detecting recent reductions in the effective size using allele frequency data
BOTTLENECK : A Computer Program for Detecting Recent Reductions in the Effective Population Size Using Allele Frequency Data
BOTTLENECK (current version 1.2) is a population genetics computer program that conducts four tests for identifying populations that have recently experienced a severe reduction in effective…
New methods employing multilocus genotypes to select or exclude populations as origins of individuals.
It becomes possible to exclude a population as the origin of an individual, a useful extension of the currently available assignment methods, after the distribution of the assignment criterion was used to define the probability that an individual belongs to the population.
LOSITAN: A workbench to detect molecular adaptation based on a Fst-outlier method
- T. Antão, Ana Lopes, R. Lopes, A. Beja-Pereira, G. Luikart
- Computer ScienceBMC Bioinformatics
- 28 July 2008
This work presents LOSITAN, a selection detection workbench based on a well evaluated Fst-outlier detection method that greatly facilitates correct approximation of model parameters, provides data import and export functions, iterative contour smoothing and generation of graphics in a easy to use graphical user interface.
Estimating the probability of identity among genotypes in natural populations: cautions and guidelines
An equation for P(ID) between sibs is introduced that provides an estimator that can be used as a conservative upper bound for the probability of observing identical multilocus genotypes between two individuals sampled from a population.
Distortion of allele frequency distributions provides a test for recent population bottlenecks.
It is demonstrated that population bottlenecks cause a characteristic mode-shift distortion in the distribution of allele frequencies at selectively neutral loci, and a qualitative graphical method is illustrated and evaluated for detecting a bottleneck-induced distortion of allele frequency distributions.
Conservation and the genetics of populations
The author reveals that the inbreeding effect of small population size reduces population growth rate in mosquitofish and the importance of rapid adaptation and conservation in the context of conservation.
Landscape genetics: combining landscape ecology and population genetics
Empirical Evaluation of a Test for Identifying Recently Bottlenecked Populations from Allele Frequency Data
A statistical test (a sign test for heterozygosity excess) for detecting recent historical bottlenecks using allele frequency data (Cornuet & Luikart 1996) is developed and evaluated by analyzing 56 allozyme and 37 microsatellite data sets from bottlenecked and nonbottlenecked natural populations.