We analyzed DNA restriction fragment length polymorphism (RFLP) in 53 white ankylosing spondylitis (AS) patients and 92 healthy controls, utilizing a full-length HLA-B7 complementary DNA probe. A 9.2-kilobase (kb) Pvu I1 fragment was found to be significantly increasexn frequency in B27 positive AS patients compared with the B27 positive control group (P = 0.00085, relative risk = 7.2). The presence of both B27 and the 9.2-kb RFLP in an individual conferred a relative risk for AS of 297, compared with a relative risk of 119 in those who had B27 alone. The 9.2-kb RFLP appears to be a marker for AS which, with HLA-B27, contributes further to susceptibility to the disease. Our The seronegative spondylarthropathies, including ankylosing spondylitis (AS), Reiter's syndrome, psoriatic arthritis/spondylitis, and the arthritidspondylitis of inflammatory bowel disease, constitute a heterogeneous group of disorders characterized by axial and/or peripheral arthritis, overlapping clinical features, a tendency toward familial aggregation, and the absence of rheumatoid factor or subcutaneous nodules (1). Although the association of AS and other seronegative spondylarthropathies with HLA-B27 is well documented (2,3), the precise role of B27 in the genetic susceptibility to AS is yet to be established. There is a marked discrepancy between the frequency of this antigen in the white population (6.8%) and the prevalence of AS (0.2%), which raises the possibility that a unique subtype of B27 or a linked gene might be more disease-specific. As many as 6 B27 subtypes have been identified by a combination of approaches, including monoclonal antibody studies (4), cytotoxic T lymphocyte studies (5,6), a restriction typing assay (7), high performance liquid chromatography peptide mapping @), and amino acid and nucleotide sequencing (9,lO). Different B27 variants have exhibited higher or lower prevalence according to ethnic group (1 1,12).The availability of complementary DNA (cDNA) probes specific for the class I major histocompatibility complex (MHC) region genes permits further definition of these genes at the DNA level. A useful approach in this regard has been the technique of restriction fragment length polymorphism (RFLP)