A total of 49 samples from indigenous Portuguese cattle breeds were analyse
d for sequence variation in the hypervariable region of the mitochondrial D
NA D-loop. Sequence comparison and phylogenetic analyses revealed that hapl
otypes fell into two distinct groups. These corresponded with two separate
haplotype clusters into which, respectively, all African, or alternatively
all sequences of European origin, have previously been shown to fall. Here,
the majority of sequences of African type were encountered in three southe
rn, as compared to three northern breeds. This pattern of African influence
may reflect an intercontinental admixture in the initial origins of Iberia
n breeds, or it is perhaps an introgression dating from the long and influe
ntial Moorish occupation of the south of the Iberian peninsula.