Genetic structure at the isocitrate dehydrogenase and malate dehydrogenase enzyme gene loci was studied in nine cowpea accessions by applying starch gel electrophoresis. Fifty-five individual plants were sampled from each accession and used for the study. Six loci were scored for the two enzyme systems. Mean observed and expected heterozygosities were 0.231 +0.03 and 0.653~0.02, respectively. F,s estimate withi; accessions ranged from -1.00 to 1.00 (mean of 0.488~0.04). F,s and FITestimates among accessions ranged from 0.046 to 0.886 (mean of 0.592+0.07) and from 0.05 to 0.844 (mean of 0.580~0.08). FSTestimates ranged from 0.028 to 0.190 (mean of 0.075~0.02). Mean geneflow and outcrossing rates ranged from 8.37 to 55.75 (mean of 24.14~5.51) and from 11.20 to 80.30 (mean of 37.84~7.51), respectively. The most diverse alleles were Idh2-4 (FST =0.530) and Idh2-5 (FST=0.32). The accessions differed in their relative proportions of alleles and genotypes. The cowpea accessions studied showed evidence of evolutionary changes at the enzyme gene loci. Overall gene flow among the accessions indicates sufficient geneflow to prevent local differentiation. A mixed mating system was observed. Original scientific paper. Received 7 Mar 03; revised 16 Apr 03.