The Rift Valley complex as a barrier to gene flow for Anopheles gambiae in Kenya: the mtDNA perspective.

Descriptions of A. gambiae population structure based on microsatellite loci and mitochondrial DNA (mtDNA) were incongruent. High differentiation of populations was measured across the Rift Valley by microsatellites, but no differentiation was detected based on mtDNA. To resolve this conflict, we compared the old data to new mtDNA data using the same specimen previously genotyped in microsatellite loci. Analysis of a larger number of mtDNA sequences resulted in high and significant differentiation between populations across the Rift Valley. We developed a method to assess whether differentiation across the Rift Valley was generated by pure drift rather than mutation-drift, based on DNA sequence data. Applying this method to the mtDNA data suggested that pure drift was the primary force generating differentiation between the populations across the Rift, while mutation-drift generated differentiation across the continent. Given adequate sample size, mtDNA provided congruent results with microsatellite loci.