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The calculation of recombination frequencies in crosses of allogamous plant species with applications to linkage mapping

Published online by Cambridge University Press:  14 April 2009

E. Ritter  and
F. Salamini
E. Ritter
Affiliation:
CIMA-Arkaute, Apartado 46, E-01080 Vitoria-Gasteiz, Spain
F. Salamini*
Affiliation:
Max-Planck-Institute for Plant Breeding Research, Carl-von-Linne-Weg 10, D-50829 Köln, Germany
*
* Corresponding author

Summary

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The recombination frequency (r) between two loci defined by conventional or molecular markers can be estimated by solving proper Maximum Likelihood equations. These are based on expected and observed marker class frequencies in the progeny of a cross, and are specific for each allelic configuration of the parents(1). In a cross between two diploid parents up to four different alleles, besides a null allele, can be detected at one locus. This defines in each parent, considering a locus A, nine basic allelic configurations based on two allelic marker fragments(Ai/Aj), one single marker allele and a null allele (Ai/AO), or just null alleles (AO/AO). With respect to two loci the consideration of all possible diploid allelic configurations in the parents of a cross allows the detection of 21 different expected marker class distributions producing estimates of r in the progeny. General formulas for calculating the ML equations and the corresponding information functions have been developed for the 21 marker class distributions. Simplified formulas have been also derived and the relative efficiency of the information functions compared. As expected, in the majority of cases, allelic marker configurations give more precise estimates of linkage values than single marker configurations. A method for the construction of linkage maps based on two point estimates, linkage subgroups and allelic bridges is presented. The method is an improvementon an original proposal by Ritter et al.(1990).

Type
Research Article
Information
Genetics Research , Volume 67 , Issue 1 , February 1996 , pp. 55 - 65
Copyright
Copyright © Cambridge University Press 1996

References

Allard, R. W., (1956). Formulas and tables to facilitate the calculation of recombination values in heredity. Hilgardia 24, 235–278.CrossRefGoogle Scholar
Bailey, N. T. J., (1961). Introduction to the mathematical theory of linkage. Oxford: Clarendon Press.Google Scholar
Barzen, E., Mechelke, W., Ritter, E., Seitzer, J. F., & Salamini, F., (1992). RFLP markers for sugar beet breeding: chromosomal linkage maps and location of major genes for rhizomania resistance, monogermy and hypocotyl colour. Plant Journal 2(4), 601–611.CrossRefGoogle Scholar
Fisher, R. A., (1921). On the mathematical foundations of theoretical statistics. Philos. trans. Royal Society of London A 122, 309–368.Google Scholar
Fisher, R. A., & Balmakund, B., (1928). The estimation of linkage from the offspring of selfed heterozygotes. Journal of Genetics 20, 79–92.CrossRefGoogle Scholar
Gebhardt, C., Ritter, E., Debener, T., Schachtschabel, U., Walkemeier, B., Uhrig, H., & Salamini, F., (1989). RFLP analysis and linkage mapping in Solanum tuberosum. Theoretical and Applied Genetics 78, 65–75.CrossRefGoogle ScholarPubMed
Gebhardt, C., Ritter, E., Barone, A., Debener, T., Walkemeier, B., Schachtschabel, U., Kaufmann, H., Thompson, R. D., Bonierbale, M. W., Tanksley, S. D., & Salamini, F., (1991). RFLP maps of potato and their alignment with the homoeologous tomato genome. Theoretical and Applied Genetics 83, 49–57.CrossRefGoogle ScholarPubMed
Görg, R., Schachtschabel, U., Ritter, E., Salamini, F., & Gebhardt, C., (1992). Discrimination among 136 tetraploid potato varieties by fingerprints using highly polymorphic DNA markers. Crop Science 32: 815–819.CrossRefGoogle Scholar
Lander, E. S., Green, P., Abrahamson, J., Barlow, A., Daly, M. J., Lincoln, S. E., & Newburg, L., (1987). Mapmaker: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1, 174–181.CrossRefGoogle ScholarPubMed
Press, W. H., Flannery, B. P., Teukolsky, S. A., & Vetterling, W. T., (1989). Numerical Recipes (FORTRAN Version). Cambridge: Cambridge University Press.Google Scholar
Ritter, E., Gebhardt, C., & Salamini, F., (1990). Estimation of recombination frequencies and construction of RFLP linkage maps in plants from crosses between heterozygous parents. Genetics 125, 645–654.CrossRefGoogle ScholarPubMed
Stam, P., (1993). Construction of integrated genetic linkage maps by means of a new computer package: JOINMAP. Plant Journal 3(5), 739–744.CrossRefGoogle Scholar
Suiter, K. A., Wendel, J. F., & Case, J. S., (1983). LINKAGE-1: a PASCAL computer program for the detection and analysis of genetic linkage. Journal of Heredity 74, 203–204.CrossRefGoogle ScholarPubMed
Vowden, C. & Ridout, M., (1994). LINKEM a program for genetic linkage analysis. Kent, UK: Horticulture Research International East Mailing, West Mailing.Google Scholar