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American Journal of Human Genetics logoLink to American Journal of Human Genetics
. 1994 May;54(5):899–908.

Evidence of linkage disequilibrium in the Spanish polycystic kidney disease I population.

B Peral 1, C J Ward 1, J L San Millán 1, S Thomas 1, R L Stallings 1, F Moreno 1, P C Harris 1
PMCID: PMC1918265  PMID: 7909986

Abstract

Forty-one Spanish families with polycystic kidney disease 1 (PKD1) were studied for evidence of linkage disequilibrium between the disease locus and six closely linked markers. Four of these loci--three highly polymorphic microsatellites (SM6, CW3, and CW2) and an RFLP marker (BLu24)--are described for the first time in this report. Overall the results reveal many different haplotypes on the disease-carrying chromosome, suggesting a variety of independent PKD1 mutations. However, linkage disequilibrium was found between BLu24 and PKD1, and this was corroborated by haplotype analysis including the microsatellite polymorphisms. From this analysis a group of closely related haplotypes, consisting of four markers, was found on 40% of PKD1 chromosomes, although markers flanking this homogeneous region showed greater variability. This study has highlighted an interesting subpopulation of Spanish PKD1 chromosomes, many of which have a common origin, that may be useful for localizing the PKD1 locus more precisely.

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Selected References

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  1. Albertsen H. M., Abderrahim H., Cann H. M., Dausset J., Le Paslier D., Cohen D. Construction and characterization of a yeast artificial chromosome library containing seven haploid human genome equivalents. Proc Natl Acad Sci U S A. 1990 Jun;87(11):4256–4260. doi: 10.1073/pnas.87.11.4256. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Bachner L., Vinet M. C., Lacave R., Babron M. C., Rondeau E., Sraer J. D., Chevet D., Kaplan J. C. Linkage study of a large family with autosomal dominant polycystic kidney disease with reduced expression. Absence of linkage to the PKD 1 locus. Hum Genet. 1990 Jul;85(2):221–227. doi: 10.1007/BF00193200. [DOI] [PubMed] [Google Scholar]
  3. Bear J. C., McManamon P., Morgan J., Payne R. H., Lewis H., Gault M. H., Churchill D. N. Age at clinical onset and at ultrasonographic detection of adult polycystic kidney disease: data for genetic counselling. Am J Med Genet. 1984 May;18(1):45–53. doi: 10.1002/ajmg.1320180108. [DOI] [PubMed] [Google Scholar]
  4. Breuning M. H., Snijdewint F. G., Brunner H., Verwest A., Ijdo J. W., Saris J. J., Dauwerse J. G., Blonden L., Keith T., Callen D. F. Map of 16 polymorphic loci on the short arm of chromosome 16 close to the polycystic kidney disease gene (PKD1). J Med Genet. 1990 Oct;27(10):603–613. doi: 10.1136/jmg.27.10.603. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Davies F., Coles G. A., Harper P. S., Williams A. J., Evans C., Cochlin D. Polycystic kidney disease re-evaluated: a population-based study. Q J Med. 1991 Jun;79(290):477–485. [PubMed] [Google Scholar]
  6. Gabow P. A. Polycystic kidney disease: clues to pathogenesis. Kidney Int. 1991 Dec;40(6):989–996. doi: 10.1038/ki.1991.306. [DOI] [PubMed] [Google Scholar]
  7. Germino G. G., Barton N. J., Lamb J., Higgs D. R., Harris P., Xiao G. H., Scherer G., Nakamura Y., Reeders S. T. Identification of a locus which shows no genetic recombination with the autosomal dominant polycystic kidney disease gene on chromosome 16. Am J Hum Genet. 1990 May;46(5):925–933. [PMC free article] [PubMed] [Google Scholar]
  8. Germino G. G., Weinstat-Saslow D., Himmelbauer H., Gillespie G. A., Somlo S., Wirth B., Barton N., Harris K. L., Frischauf A. M., Reeders S. T. The gene for autosomal dominant polycystic kidney disease lies in a 750-kb CpG-rich region. Genomics. 1992 May;13(1):144–151. doi: 10.1016/0888-7543(92)90214-d. [DOI] [PubMed] [Google Scholar]
  9. Green E. D., Olson M. V. Systematic screening of yeast artificial-chromosome libraries by use of the polymerase chain reaction. Proc Natl Acad Sci U S A. 1990 Feb;87(3):1213–1217. doi: 10.1073/pnas.87.3.1213. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Harris P. C., Barton N. J., Higgs D. R., Reeders S. T., Wilkie A. O. A long-range restriction map between the alpha-globin complex and a marker closely linked to the polycystic kidney disease 1 (PKD1) locus. Genomics. 1990 Jun;7(2):195–206. doi: 10.1016/0888-7543(90)90541-2. [DOI] [PubMed] [Google Scholar]
  11. Harris P. C., Thomas S., Ratcliffe P. J., Breuning M. H., Coto E., Lopez-Larrea C. Rapid genetic analysis of families with polycystic kidney disease 1 by means of a microsatellite marker. Lancet. 1991 Dec 14;338(8781):1484–1487. doi: 10.1016/0140-6736(91)92300-q. [DOI] [PubMed] [Google Scholar]
  12. Hill W. G. Linkage disequilibrium among multiple neutral alleles produced by mutation in finite population. Theor Popul Biol. 1975 Oct;8(2):117–126. doi: 10.1016/0040-5809(75)90028-3. [DOI] [PubMed] [Google Scholar]
  13. Hirst M. C., Rack K., Nakahori Y., Roche A., Bell M. V., Flynn G., Christadoulou Z., MacKinnon R. N., Francis M., Littler A. J. A YAC contig across the fragile X site defines the region of fragility. Nucleic Acids Res. 1991 Jun 25;19(12):3283–3288. doi: 10.1093/nar/19.12.3283. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Jeffreys A. J., Royle N. J., Wilson V., Wong Z. Spontaneous mutation rates to new length alleles at tandem-repetitive hypervariable loci in human DNA. Nature. 1988 Mar 17;332(6161):278–281. doi: 10.1038/332278a0. [DOI] [PubMed] [Google Scholar]
  15. Kerem B., Rommens J. M., Buchanan J. A., Markiewicz D., Cox T. K., Chakravarti A., Buchwald M., Tsui L. C. Identification of the cystic fibrosis gene: genetic analysis. Science. 1989 Sep 8;245(4922):1073–1080. doi: 10.1126/science.2570460. [DOI] [PubMed] [Google Scholar]
  16. Kimberling W. J., Fain P. R., Kenyon J. B., Goldgar D., Sujansky E., Gabow P. A. Linkage heterogeneity of autosomal dominant polycystic kidney disease. N Engl J Med. 1988 Oct 6;319(14):913–918. doi: 10.1056/NEJM198810063191405. [DOI] [PubMed] [Google Scholar]
  17. Kimberling W. J., Kumar S., Gabow P. A., Kenyon J. B., Connolly C. J., Somlo S. Autosomal dominant polycystic kidney disease: localization of the second gene to chromosome 4q13-q23. Genomics. 1993 Dec;18(3):467–472. doi: 10.1016/s0888-7543(11)80001-7. [DOI] [PubMed] [Google Scholar]
  18. Murray J. C., Shiang R., Carlock L. R., Smith M., Buetow K. H. Rapid RFLP screening procedure identifies new polymorphisms at albumin and alcohol dehydrogenase loci. Hum Genet. 1987 Jul;76(3):274–277. doi: 10.1007/BF00283622. [DOI] [PubMed] [Google Scholar]
  19. Nelson D. L., Ledbetter S. A., Corbo L., Victoria M. F., Ramírez-Solis R., Webster T. D., Ledbetter D. H., Caskey C. T. Alu polymerase chain reaction: a method for rapid isolation of human-specific sequences from complex DNA sources. Proc Natl Acad Sci U S A. 1989 Sep;86(17):6686–6690. doi: 10.1073/pnas.86.17.6686. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Peral B., San Millán J. L., Hernández C., Valero A., Lathrop G. M., Beckmann J. S., Moreno F. Estimating locus heterogeneity in autosomal dominant polycystic kidney disease (ADPKD) in the Spanish population. J Med Genet. 1993 Nov;30(11):910–913. doi: 10.1136/jmg.30.11.910. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Peters D. J., Sandkuijl L. A. Genetic heterogeneity of polycystic kidney disease in Europe. Contrib Nephrol. 1992;97:128–139. doi: 10.1159/000421651. [DOI] [PubMed] [Google Scholar]
  22. Peters D. J., Spruit L., Saris J. J., Ravine D., Sandkuijl L. A., Fossdal R., Boersma J., van Eijk R., Nørby S., Constantinou-Deltas C. D. Chromosome 4 localization of a second gene for autosomal dominant polycystic kidney disease. Nat Genet. 1993 Dec;5(4):359–362. doi: 10.1038/ng1293-359. [DOI] [PubMed] [Google Scholar]
  23. Pound S. E., Carothers A. D., Pignatelli P. M., Macnicol A. M., Watson M. L., Wright A. F. Evidence for linkage disequilibrium between D16S94 and the adult onset polycystic kidney disease (PKD1) gene. J Med Genet. 1992 Apr;29(4):247–248. doi: 10.1136/jmg.29.4.247. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Reeders S. T., Breuning M. H., Davies K. E., Nicholls R. D., Jarman A. P., Higgs D. R., Pearson P. L., Weatherall D. J. A highly polymorphic DNA marker linked to adult polycystic kidney disease on chromosome 16. Nature. 1985 Oct 10;317(6037):542–544. doi: 10.1038/317542a0. [DOI] [PubMed] [Google Scholar]
  25. Romeo G., Devoto M., Costa G., Roncuzzi L., Catizone L., Zucchelli P., Germino G. G., Keith T., Weatherall D. J., Reeders S. T. A second genetic locus for autosomal dominant polycystic kidney disease. Lancet. 1988 Jul 2;2(8601):8–11. doi: 10.1016/s0140-6736(88)92943-1. [DOI] [PubMed] [Google Scholar]
  26. Schlötterer C., Tautz D. Slippage synthesis of simple sequence DNA. Nucleic Acids Res. 1992 Jan 25;20(2):211–215. doi: 10.1093/nar/20.2.211. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Somlo S., Wirth B., Germino G. G., Weinstat-Saslow D., Gillespie G. A., Himmelbauer H., Steevens L., Coucke P., Willems P., Bachner L. Fine genetic localization of the gene for autosomal dominant polycystic kidney disease (PKD1) with respect to physically mapped markers. Genomics. 1992 May;13(1):152–158. doi: 10.1016/0888-7543(92)90215-e. [DOI] [PubMed] [Google Scholar]
  28. Stallings R. L., Torney D. C., Hildebrand C. E., Longmire J. L., Deaven L. L., Jett J. H., Doggett N. A., Moyzis R. K. Physical mapping of human chromosomes by repetitive sequence fingerprinting. Proc Natl Acad Sci U S A. 1990 Aug;87(16):6218–6222. doi: 10.1073/pnas.87.16.6218. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Thompson A. D., Shen Y., Holman K., Sutherland G. R., Callen D. F., Richards R. I. Isolation and characterisation of (AC)n microsatellite genetic markers from human chromosome 16. Genomics. 1992 Jun;13(2):402–408. doi: 10.1016/0888-7543(92)90260-y. [DOI] [PubMed] [Google Scholar]
  30. Weber J. L. Informativeness of human (dC-dA)n.(dG-dT)n polymorphisms. Genomics. 1990 Aug;7(4):524–530. doi: 10.1016/0888-7543(90)90195-z. [DOI] [PubMed] [Google Scholar]
  31. Weir B. S., Cockerham C. C. Testing Hypotheses about Linkage Disequilibrium with Multiple Alleles. Genetics. 1978 Mar;88(3):633–642. doi: 10.1093/genetics/88.3.633. [DOI] [PMC free article] [PubMed] [Google Scholar]

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