Technical Abstract: Cats are important in the epidemiology of Toxoplasma gondii because they are the only hosts that excrete environmentally resistant oocysts in feces. In the present study, 115 viable T. gondii isolates from tissues of cats from Egypt were genotyped using 10 PCR-restriction fragment length polymorphism markers (SAG1, SAG2, SAG3, BTUB, GRA6, c22-8, c29-2, L358, PK1 and Apico) and DNA from tachyzoites. Eight genotypes were recognized including the clonal Type II (2 genotypes), Type III (2 genotypes) and 4 atypical genotypes. Ninety percent (103 of 115) isolates were clonal-- Type II (n=61) and Type III (n=42) strains. Of the 61 Type II stains, all had the type II alleles at all loci except 2 strains had allele I at Apico. Of the 42 Type III strains, 41 had type III alleles at all loci except 1 isolate had type I allele at Apico. Eight isolates were divided into 4 atypical genotypes. One of these genotypes (with 4 isolates) was previously reported in dogs from Sri Lanka and in Sand cats from United Arab Emirates. Four isolates had mixed infection. These results revealed a strong clonal population structure with the dominance of clonal Type II and III lineages of T. gondii in feral cats from Egypt.