Genetic differences within a 495 base pair section of the mitochondria
l cytochrome b gene reveal a striking concordance among species in two
monophyletic groups of Indo-west Pacific butterflyfishes. In both spe
cies groups, an approximately 2.0% genetic break clearly partitions in
dividuals between the Indian Ocean and Pacific Ocean. However, levels
of intra-Pacific mtDNA variation are low, on average less than 1.0%, a
nd fail to cluster by species boundaries defined by colour pattern. In
dividuals from different species, separated by thousands of kilometers
, often possess identical cytochrome b sequences, whereas conspecifics
from the same reefs can show up to 1.5% difference. The discrepancy b
etween the mtDNA gene tree and species boundaries may reflect retained
ancestral variation or may be the result of hybridization. The strong
temporal and phylogenetic concordance between these two independent s
pecies groups suggests that genetic differentiation was influenced by
common environmental factors. Low levels of within- and between-specie
s genetic differences imply a recent divergence time and suggest a lin
k between speciation within each group and Pleistocene climatic fluctu
ations. These results paint a turbulent picture of the recent evolutio
nary history of the Indo-West Pacific.