Hybrids between cultivated and wild sunflowers (Helianthus annuus) are
frequently reported. As much as 42% of progeny from wild plants near
cultivar fields are hybrids, and cultivar genes have been shown to per
sist in wild populations at least five generations. We report the effe
cts of up to 40 years of persistent cultivar gene flow on the genetic
structure of three wild H. annuus populations that are adjacent to cul
tivated fields, Eighteen cultivar-specific markers were surveyed in a
total of 115 individuals. We also developed cultivar-based genetic map
s for the markers and used them to see if marker patterns in the wild
populations were consistent with introgression and if selection was ac
ting jointly on unlinked loci. High levels of crop specific markers we
re detected in all three wild populations: ranging from 0.315 to 0.382
, on average. All 115 plants had at least 1 cultivar marker. Introgres
sion is the most likely explanation for the presence of crop-specific
markers in the sympatric populations because (1) the markers were eith
er not present or found at much lower levels in four allopatric popula
tions, (2) markers that were genetically linked in the cultivar invari
ably showed linkage disequilibrium patterns in the sympatric populatio
ns consistent with introgression, and (3) homology tests ruled out con
vergent evolution as an alternate explanation. Hence, introgression of
cultivar loci was widespread, and the sympatric wild populations have
been replaced by advanced generation hybrids, Unlinked, introgressed
markers did not show significant linkage disequilibria, indicating a l
ack of epistatic associations among introgressed markers. Hence, trans
genes in cultivated sunflowers should readily introgress into sympatri
c wild populations, and their fate will be determined primarily by the
ir fitness effects on the wild plants.