The degree to which conspecific populations are interconnected via ong
oing gene flow remains an important focus of evolutionary biology. One
major difficulty in distinguishing ongoing gene flow from historical
subdivision is that either process can generate similar estimates of a
pparent gene flow. Thus, gene flow estimates themselves are insufficie
nt to distinguish between these alternatives. However, genetic data co
upled with additional information about demography and distribution do
allow a distinction to be made. Here we address the specific question
, does gene flow link populations of Aquilegia? In a survey of a 525 B
.P. chloroplast DNA fragment sampled from 251 individual plants from 1
8 populations of three taxa, five haplotypes were identified. No signi
ficant relationship between geographic distance and apparent gene flow
between population pairs existed. Further, the estimated level of gen
e flow was entirely compatible with a historical subdivision of Aquile
gia populations during the late Pleistocene or early Holocene. Therefo
re, these patterns of variation are due not to ongoing gene flow, but
rather to historical association among populations. Thus Aquilegia pop
ulations may be considered as distinct evolutionary entities with rega
rd to seed-mediated processes. As a result, comparative analysis of ec
ological traits undergoing potentially rapid evolution (e.g., life his
tories, mating systems, inbreeding depression) should be possible in t
hese taxa.