The population structure of the Anopheles gambiae complex is unusual, with
several sibling species often occupying a single area and, in one of these
species, An. gambiae sensu stricto, as many as three "chromosomal forms" oc
curring together. The chromosomal forms are thought to be intermediate betw
een populations and species, distinguishable by patterns of chromosome gene
arrangements. The extent of reproductive isolation among these forms has b
een debated. To better characterize this structure we measured effective po
pulation size, N-e, and migration rates, m, or their product by both direct
and indirect means. Gene flow among villages within each chromosomal form
was found to be large (N(e)m > 40), was intermediate between chromosomal fo
rms (N(e)m approximate to 3-30), and was low between species (N(e)m approxi
mate to 0.17-1.3). A recently developed means for distinguishing among cert
ain of the forms using PCR indicated rates of gene flow consistent with tho
se observed using the other genetic markers.