Intraspecific phylogeography of the long-nosed leopard lizard (Gambelia wis
lizenii) was examined using 419 base pairs of sequence of the mitochondrial
ly encoded COIII gene from 23 individuals sampled from populations represen
ting five regional deserts in western North America. Intraspecific populati
on structure was evaluated under two biogeographic models: (1) gene flow am
ong populations during late Pleistocene to Recent times, possibly in conjun
ction with range expansions from Pleistocene refugia; or (2) subdivision am
ong southwestern desert regions that occurred in conjunction with late Plio
cene/early Pleistocene geological events or as a result of isolation in sep
arate Pleistocene refugia. Phylogenetic analysis indicated subdivision of 1
8 mitochondrial DNA haplotypes into two major clades separated by approxima
tely 6.1% sequence divergence: Western (Mojave + Great Basin + Colorado Pla
teau deserts) and Eastern (Chihuahuan desert). A third, more divergent, lin
eage with unknown geographic distribution was represented by a single haplo
type from southwestern Arizona. The Western clade contained two northern Gr
eat Basin subclusters (eastern Great Basin and western Great Basin), repres
enting populations separated from one another by approximately 5.4% sequenc
e divergence. These phylogeographic breaks are consistent with the second m
odel of late Pliocene/early Pleistocene vicariance. These data are also con
sistent with assessments of the biogeographic histories of several other ar
id-dwelling vertebrates.