Venous blood was obtained from each patient and control subject,
and the serologic HLA tissue typing for class I and II specificity was
performed by the standard National Institutes of Health
complement-dependent microlymphocyte toxicity test. Genomic DNAs were
extracted from peripheral blood using the phenol-chloroform method.
HLA-B27 alleles were detected by nested polymerase chain reaction
(PCR)–single-strand conformation polymorphism (SSCP).
7 The PCR reaction was conducted with DNA polymerase
(Ampli-
Taq; Perkin Elmer Cetus, Norwalk, CT). Briefly, the B
locus was amplified with the sense and antisense primer pairs described
in
Table 1 . The reaction mixture was subjected to 30 cycles of 22 seconds
at 94°C for denaturation, 50 seconds at 65°C for primer annealing,
and 30 seconds at 72°C for extension in an automated thermal cycler
(Perkin Elmer Cetus). Then, B*27 exons 2 and 3 were amplified with
specific primers for each
(Table 1) from the diluted B locus products.
The reaction mixture was subjected to 30 cycles of 10 seconds at
96°C, 20 seconds at 64 to 67°C, and 20 seconds at 70°C for
extension. Each of the amplified HLA-B27 products was detected by SSCP,
as previously described.
7 Briefly, 2.5 μl of PCR
products was diluted with 10 μl SSCP buffer (95% formamide, 20 mM
EDTA, 0.05% bromphenol blue, and 0.05% xylene cyanol). These samples
were boiled 5 minutes at 95°C for denaturation, cooled in ice water
and applied to the 8% to 10% polyacrylamide gel. The samples were
subjected to electrophoresis in 0.5× Tris-borate-EDTA buffer (0.5×
TBE) at 20 to 30 mA for 2 to 3 hours. The SSCP gel was visualized with
silver staining using a commercial silver staining kit (Bio-Rad,
Hercules, CA), and the difference of the pattern was compared with
reference samples. A few samples in each subtype group were confirmed
for the allele by sequencing-based typing.
HLA-DRB1 and HLA-DQB1 genotyping was performed by PCR-SSCP and
PCR-restriction fragment length polymorphism (RFLP), as previously
described.
8 Briefly, DRB1 and DQB1 PCR was performed with
group-specific primer pairs for the selective amplification of each
second exon. The sequences of the primers are shown in
Table 2 . The PCR reaction was conducted with DNA polymerase
(Ampli-
Taq) or thermally activated DNA polymerase
(Ampli-
Taq Gold (both from Perkin Elmer Cetus). The PCR
condition for DRB1 was 30 cycles of 1 minute at 96°C, 1 minute at
54°C to 61°C, and 30 to 60 seconds at 72°C in an automated
thermal cycler. The PCR condition for DQB1 was 30 cycles of 30 seconds
at 96°C, 30 seconds at 57°C, and 30 seconds at 72°C in an
automated thermal cycler. SSCP was performed as described in HLA-B27
genotyping.
RFLP was performed for the samples that were difficult to genotype with
SSCP only. Five microliters of the PCR product was incubated and
digested with the recommended buffer and appropriate restriction
enzyme
8 at 37°C for 2 to 3 hours. Samples were subjected
to electrophoresis in 8% to 12% polyacrylamide gel in 0.5× TBE
buffer at 20 to 30 mA for 30 minutes. Digested fragments were
visualized by staining with ethidium bromide.