Multilocus probes reveal individual specific band patterns in avocado. The level of heterozygosity in these loci is 94%-100%. Mendelian inheritance is found in most loci. The patterns of the three avocado races and nine Persea species, were analyzed to determine genetic relationship. Linkage analysis in the progeny of the cross `Pinkerton' * `Ettinger', revealed the `Pinkerton" band p8 to be associated with purple fruit skin color. This result was verified in the progeny of `Pinkerton' * `Bacon'. We interpreted this as genetic linkage between the p8 band and locus(i) regulating fruit skin color. Simple Sequence repeat DNA markers have been generated in avocado by screening 10,000 clones from genomic library with various simple repeat probes. Sixty six loci were available for analysis, having an average of 3.4 alleles each. The mean gene diversity is 0.52 and the mean heterozygosity level is 62%. Fifty, of the SSR loci, were polymorphic and informative in the analysis of fifty progeny of the cross `Pinkerton' * `Ettinger'. The SSR markers were mostly inherited in a Mendelian fashion. The resulted genetic map contains 10 linkage groups having 2-5 markers in each and covering over 400 cM.