The ostracod species Eucypris virens exhibits geographical parthenogenesis,
with rare sexual populations in southern Europe and widespread asexual pop
ulations elsewhere. DNA sequence data from the nuclear ITS1 and mitochondri
al COI regions have been used to estimate genetic variabilities and reconst
ruct phylogenies. The observed divergence was exceptionally high, with intr
aspecific maxima of 10.3% (ITS1) and 20.9% (COI) among European lineages, l
evels reported for interspecific comparisons of other taxa. Phylogenetic re
constructions reveal multiple origins of asexual clones from sexual populat
ions. However, we argue that such data can only provide a lower limit on th
e number of origins of asexual reproduction, and an upper limit on the age
of asexual lineages. Congruence between gene trees for different loci can p
rovide support for the inference of long-term apomictic reproduction. Nucle
ar and mitochondrial data differ in their placement of some asexual clones,
possibly indicating that genetic exchange has taken place between sexual a
nd asexual lineages. Such intraspecific hybridization is one route to combi
ne the benefits of both reproductive modes, and it might explain how asexua
lity managed to persist in E. virens even in long, evolutionary terms.