Aspergillus flavus infects both plants and humans and contaminates diverse agricultural crops with aflatoxins, highly carcinogenic fungal metabolites. We describe 24 microsatellite markers developed to assess genetic diversity and recombination within and between three vegetative compatibility groups (VCGs) of Aspergillus flavus. These loci are polymorphic within at least one VCG or between VCGs. For loci polymorphic across all three VCGs, the number of alleles ranged from two to 19. These markers will be useful for genetic studies of this economically important pathogen.
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