Mitochondrial DNA lineage frequencies in prehistoric Aleut, eastern Utah Fr
emont, Southwestern Anasazi, Pyramid Lake, and Stillwater Marsh skeletal sa
mples from northwest Nevada and the Oneota of western Illinois are compared
with those in 41 contemporary aboriginal populations of North America. The
ancient samples range in age from 300 years to over 6,000 years. The resul
ts indicate that the prehistoric inhabitants of North America exhibit the s
ame level of mtDNA variability as contemporary populations of the continent
. Variation in modern mtDNA haplogroup frequencies is highly geographically
structured, and the prehistoric samples exhibit the same geographic patter
n of variation. This indicates that differentiation of regional patterns of
mtDNA lineage variation occurred early in North American prehistory (much
more than 2,000 years B.P.), has remained relatively stable since its origi
n, and was little influenced by the disruptions hypothesized for other gene
tic systems as a result of population declines and relocations at contact.