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Patterns of allozyme variation within and between two of the subspecies of Pinus contorta were examined for the evolutionary relationship between them. In coastal northern California, these subspecies are parapatric. Pinus contorta ssp. contorta occurs on grassy coastal bluffs on the lowest and youngest of a sequence of five marine terraces; P. contorta ssp. bolanderi is endemic to a pygmy forest ecosystem that occurs on the increasingly older and harsher soils of the third, fourth, and fifth terraces. The soils of the upper three terraces are characterized by extreme podzolization, low pH, low nutrient availability, summer drought (with periodic fires), and winter surface flooding above the hardpan. Dune and cliff soils support a tall redwood and Douglas-fir forest between the terraces. Analyses of seeds collected from 11 pygmy-forest and 6 coastal populations showed ssp. bolanderi to have significantly less allozyme variation than spp, contorta. The two subspecies did not show the phylogenetic dichotomy in allozyme allelic constitutions expected for subspecific classification. Within ssp. bolanderi, the pattern ofgenetic distances correlated better with edaphic differences among sites than with geographic distance. It appears that ssp. bolanderi is a recently evolved derivative of ssp. contorta, and that the low degree of allozyme differentiation among the bolanderi populations may be due to colonization of the sites by small numbers of individuals, or to hitchhiking of allozyme loci linked to loci undergoing strong selection imposed by the severe edaphic conditions typical of bolanderi sites.