Using a subset of the animals we subsequently evaluated whether short tandem repeat (STR) markers tightly linked to candidate genes previously associated with glaucoma or anterior segment dysgenesis in humans exhibited linkage disequilibrium in the pedigree including MYOC, FOXC1, CYP1B1, PITX2, OPTN, SH3PXD2B, PAX6, and LTBP2. Only STR markers tightly linked with the LTBP2 locus on feline chromosome B3 yielded results consistent with linkage. This evidence concerns the gene PAX6 and glaucoma.