Premium
LIKELIHOOD ANALYSIS OF ONGOING GENE FLOW AND HISTORICAL ASSOCIATION
Author(s) -
Nielsen Rasmus,
Slatkin Montgomery
Publication year - 2000
Publication title -
evolution
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.84
H-Index - 199
eISSN - 1558-5646
pISSN - 0014-3820
DOI - 10.1111/j.0014-3820.2000.tb00006.x
Subject(s) - biology , gene flow , divergence (linguistics) , population , mutation rate , genetics , single nucleotide polymorphism , population genetics , restriction fragment length polymorphism , population size , evolutionary biology , statistics , gene , genetic variation , mathematics , demography , genotype , linguistics , philosophy , sociology
Abstract.— We develop a Monte Carlo‐based likelihood method for estimating migration rates and population divergence times from data at unlinked loci at which mutation rates are sufficiently low that, in the recent past, the effects of mutation can be ignored. The method is applicable to restriction fragment length polymorphisms (RFLPs) and single nucleotide polymorphisms (SNPs) sampled from a subdivided population. The method produces joint maximum‐likelihood estimates of the migration rate and the time of population divergence, both scaled by population size, and provides a framework in which to test either for no ongoing gene flow or for population divergence in the distant past. We show the method performs well and provides reasonably accurate estimates of parameters even when the assumptions under which those estimates are obtained are not completely satisfied. Furthermore, we show that, provided that the number of polymorphic loci is sufficiently large, there is some power to distinguish between ongoing gene flow and historical association as causes of genetic similarity between pairs of populations.