The gene for Friedreich ataxia (FA), a severe recessive neurodegenerative disease, has previously been shown to be tightly linked to the polymorphic markers D9S15 and D9S5 on human chromosome 9. In addition, the observation of linkage disequilibrium suggested that D9S15 is within 1 centimorgan (cM) of the disease locus, FRDA. Although D9SS did not show recombination with F-RDA, its localization was less precise (0-5 cM) due to its lower informativeness. We have now identified additional polymorphisms at both marker loci. Two cosmids spanning 50 kilobases around D9SS were isolated, and a probe derived from one of them detects an informative three-allele polymorphism. We have found a highly polymorphic microsatellite sequence at D9Sl5 which is rapidly typed by the DNA polymerase chain reaction. The polymorphism information contents at the D9S5 and D9S15 loci have been increased from 0.14 to 0.60 and from 0.33 to 0.74, respectively. between themselves in all informative meioses examined. The combination of our data with those published by Chamberlain et al. (6) showed that D9S15 is within one centimorgan (cM) ofthe disease locus (7). The linkage data, combined with physical mapping of D9S5 by in situ hybridization, support the assignment of FRDA to the proximal long arm of chromosome 9 (7). The very close proximity of D9S15 to FRDA was further indicated by the finding of a significant allelic association between FRDA and the Msp I restriction fragment length polymorphism (RFLP) at D9S15. In contrast, no linkage disequilibrium was noted between FRDA and previously described RFLPs at D9S5 (7). Several families in our initial linkage analysis were partially or completely uninformative, especially for D9SM. In an attempt to refine the genetic map around the FRDA locus and to further explore the linkage disequilibrium, a search has been conducted for new informative polymorphisms at the marker loci. We have isolated two overlapping cosmid clones which extend the D9S5 locus over 50 kilobases (kb). Additional RFLPs have been revealed by single-copy probes derived from these cosmids. One ofthese (probe 26P) detects a three-allele BstXI RFLP that increases considerably the heterozygosity of D9SM. We have also characterized within probe MCT112 (D9S15) a highly polymorphic "microsatellite" sequence (8,9). This allowed us to confirm that D9S5 and D9S15 are very tightly linked to FRDA. By using these polymorphisms at both loci, extended haplotypes can be generated, and some of them show highly significant linkage disequilibrium with FRDA.
MATERIALS AND METHODSLinkage Studies. Forty-one FA families (34 from France), each with at least two affected children, were studied. Thirty-eight of these families have been previously analyzed for the Msp I RFLPs at D9S5 and D9S15 (7). All of these families conform to the diagnostic criteria for typical FA (1, 2). Southern blot analysis was performed as described (7). Linkage analysis was carried out by using the LINKAGE program (10) and the lod-1 support interval (lod = logl0 odds r...