Microsatellite polymorphisms of Arabidopsis thaliana were surveyed for
29 loci using 12 Japanese natural populations as material. All the in
dividuals examined were homozygous at all the microsatellite loci. Alt
hough there was considerable variation among populations, no intra-pop
ulation polymorphism was detected in three selected populations when e
ight loci were studied. The microsatellites examined proved to be a su
itable genetic marker for studying the genetic variation among natural
populations of Arabidopsis thaliana. To compare the genetic similarit
y and infer the evolutionary relationships among populations, neighbor
-joining trees were constructed on the basis of distance matrices calc
ulated by two different methods. Genetic relationships among the popul
ations as revealed in the trees do not necessarily correspond to their
geographic relationships. This may reflect their different origins or
different times of introduction into the Islands of Japan.