Phylogeographic patterns were used to assess intraspecific diversification of American martens (Martes americana). Within martens, two morphological groups (americana and caurina) have been recognized, though the level of distinction between them has been debated. We examined mitochondrial cytochrome b gene haplotypes from 680 martens to explore the colonization history of the Pacific Northwest and found two clades that correspond to the morphological groups. The widespread americana clade extends from interior Alaska south to Montana and eastward to Newfoundland and New England (i.e. northwestern, north-central and northeastern North America). The caurina clade occurs in western North America, minimally extending from Admiralty Island (southeastern Alaska) south to Oregon and Wyoming. Our data indicated two colonization events for the Pacific Northwest (one by members of each clade) and were consistent with the persistence of populations throughout past glacial periods in eastern and western refugia. Due to vegetational and geological history following the past deglaciation, we hypothesize that martens of the caurina clade spread along the North Pacific Coast, and into southeastern Alaska, earlier than martens of the americana clade. Mismatch distributions for the americana clade were indicative of populations that recently experienced demographic expansion, while mismatch distributions for the caurina clade suggested that populations were at equilibrium. These clades are reciprocally monophyletic and distinctive (interclade divergence ranged from 2.5 to 3.0% (uncorrected p), whereas, intraclade divergence was < 0.7%), and two regions of sympatry have been identified. Genetic signatures of past admixture in hybrid zones may have been extinguished during subsequent glacial periods when ranges contracted. This recurrent pattern of relatively restricted western, or Pacific coastal, lineages and more widespread eastern, or interior continental, lineages exists across broad taxonomic groups and suggests a shared biogeographical history.

Phylogeographic study across codistributed taxa provides temporal and spatial perspectives on the assemblage of communities. A repeated pattern of intraspecific diversification within several taxa of the Pacific Northwest has been documented, and we contribute additional information to this growing data set. We analyzed variation in two mitochondrial genes (cytochrome b and control region) for the black bear (Ursus americanus) and expand previous analyses of phylogeographic variation. Two lineages (coastal and continental) exist; the coastal lineage extends along the Pacific coast from the Takhin River north of Glacier Bay National Park, southeast Alaska, to northern California, whereas the continental lineage is more widespread, occurring from central Alaska to the east coast. Both lineages occur along the coast of southeast Alaska, where interlineage divergence ranged from 3.1 to 3.6% (uncorrected p distances). Multiple lineages of other species have also been identified from southeast Alaska, indicating a complex history for the assembly of biotic communities along the North Pacific coast. The overlapping of the distributions of the black bear lineages with those of other birds and mammals suggests comparable routes of colonization.

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