Linkage disequilibrium between SSR markers in six pools of elite lines of an European breeding program for hybrid maize

Maydica

Volumn 51, Issue 2, 2006, Pages 269-279

  Maurer, H P ^a   Knaak, C ^b   Melchinger, A E ^a   Ouzunova, M ^b   Frisch, M ^a  

^a UNIVERSITY OF HOHENHEIM   (Germany)

^b KWS SAAT SE   (Germany)

Author keywords

Association mapping; Linkage disequilibrium; Molecular genetic diversity

Indexed keywords

ZEA MAYS;

EID: 33746461843     PISSN: 00256153     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (34)

1. CHAPMAN E.W., E.M. WIJSMAN, 1998 Genome screens using linkage disequilibrium tests: optimal marker characteristics and feasibility. Am. J. Hum. Genet. 63: 1872-1885.
2. DEVLIN B., N. RISCH, 1995 A comparison of linkage disequilibrium measures for fine-scale mapping. Genomics 29: 311-322.
3. FALUSH D., M. STEPHENS, J.K. PRITCHARD, 2003 Interference of population structure using multilocus genotype data: Linked loci and correlated allele frequencies. Genetics 164: 1567-1587.
4. FRANKLIN I., R.C. LEWONTIN, 1970 Is the gene the unit of selection? Genetics 65: 707-734.
5. GOODMAN M.M., C.W. STUBER, 1983 Races of maize: VI. Isozyme variation among races of maize in Bolivia. Maydica 28: 169-187.
6. GOWER J.C., 1966 Some distance properties of latent root and vector methods used in multivariate analysis. Biometrika 53: 325-338.
7. GUO S.W., E.A. THOMPSON, 1992 Performing the exact test of Hardy-Weinberg proportion for multiple alleles. Biometrics 48: 361-372.
8. HALDANE J.B.S., 1919 The combination of linkage values and the calculation of distance between the loci of linkage factors. J. Genet. 8: 299-309.
9. HEDRICK P.W., 1987 Gametic disequilibrium measures: Proceed with caution. Genetics 117: 331-341.
10. HILL W.G., A. ROBERTSON, 1968 Linkage disequilibrium in finite populations. Theor. Appl. Genet. 38: 226-231.
11. JANNINK J.-L., M.C.A.M. BINK, R.C. JANSEN, 2001 Using complex plant pedigrees to map valuable genes. Trends Plant Sci. 6: 337-342.
12. JORDE L.B., 2000 Linkage disequilibrium and the search for complex disease genes. Genome Res. 10: 1435-1444.
13. LEWONTIN R.C., 1964 The interaction of selection and linkage. I. General considerations; Heterotic models. Genetics 49: 49-67.
14. LEWONTIN R.C., K. KOJIMA, 1960 The evolutionary dynamics of complex polymorphisms. Evolution 14: 458-472.
15. LIU K., S. MUSE, 2005 PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21: 2128-2129.
16. LIU K., M. GOODMAN, S. MUSE, J.S. SMITH, E. BUCKLER, J. DOEBLEY, 2003 Genetic structure and diversity among maize inbred lines as inferred from DNA microsatellites. Genetics 165: 2117-2128.
17. LYNCH M., B. WALSH, 1997 Genetics and Analysis of Quantitative Traits. Sinauer Assoc., Inc., Sunderland, MA.
18. MARTIN E.A., E.H. LAI, J.R. GILBERT, A.R. ROGALA, A.J. AFSHARI, J. RILEY, K.L. FINCH, J.F. STEVENS, K.J. LIVAK, B.D. SLOTTERBECK, S.H. SLIFER, L.L. WARREN, P.M. CONNEALLY, D.E. SCHMECHEL, I. PURVIS, M.A. PERICAK-VANCE, A.D. ROSES, J.M. VANCE, 2000 SNPing away at complex diseases: Analysis of single-nucleotide polymorphisms around APOE in Alzheimer disease. Am. J. Hum. Genet. 67: 383-394.
19. MARUYAMA T., 1982 Stochastic integrals and their application to population genetics. pp. 151-166. In: M. Kimura (Ed.), Molecular Evolution, Protein Polymorphism and the Neutral Theory. Springer-Verlag, Berlin.
20. MAURER H.P., A.E. MELCHINGER, M. FRISCH, 2004 Plabsoft: Software for simulation and data analysis in plant breeding. pp. 359-362. In: Proc. 17th Eucarpia General Congress, 8-11 September 2004, Tulln, Austria.
21. MESSMER M.M., A.E. MELCHINGER, R. HERRMANN, J. BOPPENMAIER, 1993 Relationships among early European maize inbreds: II. Comparisons of pedigree and RELP data. Crop Sci. 33: 944-950.
22. NEI M., 1987 Molecular Evolutionary Genetics. Columbia Univ. Press, New York.
23. PRITCHARD J.K., M. STEPHENS, P. DONELLY, 2000 Inference of population structure using multilocus genotype data. Genetics 155: 945-959.
24. R DEVELOPMENT CORE TEAM, 2004 R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. ISBN 3-900051-00-3, URL http://www.R-project.org.
25. REMINGTON D.L., J.M. THORNSBERRY, Y. MATSUOKA, L.M. WILSON, S.R. WHITT, J. DOEBLEY, S. KRESOVICH, M.M. GOODMAN, E. BUCKLER, 2001 Structure of linkage disequilibrium and phenotypic associations in the maize genome. Proc. Natl. Acad. Sci. 98: 11479-11484.
26. SHAM P.C., D. CURTIS, 1995 Monte Carlo tests for associations between disease and alleles at highly polymorphic loci. Ann. Hum. Genet. 59: 97-105.
27. TERWILLIGER J.D., 1995 A powerful likelihood method for the analysis of linkage disequilibrium between trait loci and one or more polymorphic marker loci. Am. J. Hum. Genet. 56: 777-787.
28. WATKINS W.S., R. ZENGER, E. O'BRIEN, D. NYMAN, A.W. ERIKSSON, M. RENLUND, L.B. JORDE, 1994 Linkage disequilibrium patterns vary with chromosomal location: a case study from the von Willebrand factor region. Am. J. Hum. Genet. 55: 348-355.
29. WEIR B.S., 1996 Genetic Data Analysis II. Sinauer, Sunderland, MA.
30. WEIR B.S., C.C. COCKERHAM, 1978 Testing hypothesis about linkage disequilibrium with multiple alleles. Genetics 88: 633-642.
31. WRIGHT S., 1965 The interpretation of population structure by F-statistics with special regard to systems of mating. Evolution 19: 395-420.
32. WRIGHT S., 1978 Evolution and genetics of populations, Vol. IV. The Univ. of Chicago Press, Chicago.
33. ZAPATA C., C. CAROLLO, S. RODRIGUEZ, 2001 Sampling variance and distribution of the D' measure of overall gametic disequilibrium between multiallelic loci. Ann. Hum. Genet. 65: 395-406.
34. ZAYKIN D., L. ZHIVOTOVSKY, B.S. WEIR, 1995 Exact tests for association between alleles at arbitrary numbers of loci. Genetica 96: 169-178.