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Nine polymorphic microsatellite loci were isolated to investigate the effects of habitat fragmentation on gene flow and genetic variation of the peninsular kangaroo rat Dipodomys simulans peninsularis on agricultural landscape from the Baja California Peninsula. The markers had an average of 9.11 alleles per locus (range 2-14), with mean observed and expected heterozygosities 0.646 (range 0.333-0.900) and 0.788 (range 0.284-0.932), respectively. No evidence of linkage disequilibrium was found across pairs of loci, and only one locus exhibited evidence of null alleles. [ABSTRACT FROM AUTHOR]