(Top) RFLP of genomic DNA of clinical B. burgdorferi sensu lato isolates from Slovenia after MluI digestion and separation by PFGE. DNA was electrophoresed on a 1% acrylamide gel, stained with ethidium bromide, and UV illuminated. Restriction patterns of lanes 1, 2, and 5 to 9 show an RFLP pattern characteristic for B. afzelii. The restriction patterns of lanes 3, 4, and 10 are typical for B. garinii. The molecular sizes of the characteristic DNA fragments are depicted to the right. Lanes 1 and 2, 3 and 4, 5 and 6, 7 and 8, and 9 and 10 show pairs of isolates obtained from patients 1 to 5, respectively. Isolates within each pair are designated A (before treatment) and B (after treatment) as depicted in Table 2. Patient designations correspond to clinical information given in Table 1. (Bottom) MseI restriction polymorphism of the amplified rrf-rrl spacer region of the same clinical isolates. DNA was electrophoresed on a 12% acrylamide gel. Restriction patterns of lanes 1, 2, 5 to 9, and 13 show fragments of 107, 68, and 50 bp characteristic for B. afzelii. Restriction patterns of lanes 3, 4, 10, and 12 show fragments of 107, 95, and 50 bp typical for B. garinii. Lane 11 shows fragments of 107, 52, 38, and 29 bp characteristic for B. burgdorferi sensu stricto. The molecular sizes of DNA fragments are depicted to the right. Lanes 1 and 2, 3 and 4, 5 and 6, 7 and 8, and 9 and 10 show pairs of isolates obtained from patients 1 to 5, respectively. Within each pair, isolates are designated A (before treatment) and B (after treatment) as depicted in Table 2. Lanes 11 to 13 show B. burgdorferi sensu stricto strain B31, B. garinii strain PBi, and B. afzelii strain VS461, respectively. Patient designations correspond to clinical information given in Table 1.