Abstract
The Mendelian analysis of genetic variation, available as induced mutants or as natural variation, requires a number of steps that are described in this chapter. These include the determination of the number of genes involved in the observed trait’s variation, the determination of dominance relationships between alleles of the same locus, and epistatic interactions with related genetic variants. A new variant should be compared with previously identified genetic variants, which is most efficiently done by allelism tests in case of recessive mutants. In addition the locus should be localized on the genetic and physical map by linkage analysis. The mapping of mutant loci in Arabidopsis is facilitated by the genomic resources available in Arabidopsis and often consists of two steps, a crude and a fine mapping, the latter enabling the approximate location of a variant on the sequence map of Arabidopsis.
This is a preview of subscription content, log in via an institution to check access.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
The Arabidopsis Genome Initiative. (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408, 796–815.
Jander, G., Norris, R. R., Rounsley, S. D., Bush, D. F., Levin, I. M., and Last, R. L. (2002) Arabidopsis map-based cloning in the post-genome era. Plant Physiol. 129, 440–450.
Lukowitz, W., Gillmor, C. S., and Scheible, W. R. (2000) Positional cloning in Arabidopsis. Why it feels good to have a genome initiative working for you. Plant Physiol. 123, 795–805.
Peters, J. L., Cnudde, F., and Gerats, T. (2003) Forward genetics and map-based cloning approaches. Trends Plant Sci. 8, 484–491.
Suiter, K. A., Wendel, J. F., and Case, J. S. (1983) LINKAGE-1: a PASCAL computer program for detection and analysis of genetic linkage. J. Heredity 74, 203–204.
Lander, E. S., Green, P., Abrahamson, J., Barlow, A., Daly, M. J., Lincoln, S. E., and Newberg, L. (1987) MAPMAKER: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1, 174–181.
Stam, P. (1993) Construction of integrated linkage maps by means of a new computer package: Joinmap. Plant J. 3, 739–744.
Liu, B. H. and Knapp, S. J. (1990) GMENDEL: a program for Mendelian segregation and linkage analysis of individual or multiple progeny populations using log-likelihood ratios. J. Heredity 81, 407.
van Ooijen, J. W. (1994) Drawmap: A computer program for drawing genetic linkage maps. J. Heredity 85, 66.
Voorrips, R. E. (2001) MapChart version 2.0: Windows software for the graphical presentation of linkage maps and QTLs. Plant Research International, Wageningen, The Netherlands.
Dellaert, L. M. W. (1980) Segregation frequencies of radiation-induced viable mutants in Arabidopsis thaliana (L.) Heynh. Theor. Appl. Genet. 57, 137–143.
Li, L. and Rédei, G. P. (1969) Direct evidence for models of heterosis provided by mutants of Arabidopsis blocked in the thiamine pathway. Theor. Appl. Genet. 39, 68–72.
Koumproglou, R., Wilkes, T. M., Townson, P., et al. (2002) STAIRS: a new genetic resource for functional genomic studies of Arabidopsis. Plant J. 31, 355–364.
Vizir, I. Y. and Korol, A. B. (1990) Sex differences in recombination frequency in Arabidopsis. Heredity 65, 379–383.
Stevens, W. L. (1939) Tables of the recombination fraction estimated from the product ratio. J. Genet. 39, 171–180.
Rédei, G. P. (1982) Genetics. Macmillan, New York, p. 736.
Allard, R. W. (1956) Formulas and tables to facilitate the calculation of recombination values in heredity. Hilgardia 24, 235–278.
Ritter, E., Gebhardt, C., and Salamini, F. (1990) Estimation of recombination frequencies and contruction of RFLP linkage maps in plants from crosses between heterozygous parents. Genetics 125, 645–654.
Maliepaard, C., Jansen, J., and van Ooijen, J. W. (1997) Linkage analysis in a full-sib family of an outbreeding plant species: overview and consequences for applications. Gen. Research 70, 237–250.
Haldane, J. B. S. (1919) The combination of linkage values, and the calculation of distance between linked factors. J. Genet. 8, 299–309.
Kosambi, D. D. (1944) The estimation of map distances from recombination values. Ann. Eugen. 12, 172–175.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2006 Humana Press Inc.
About this protocol
Cite this protocol
Koornneef, M., Alonso-Blanco, C., Stam, P. (2006). Genetic Analysis. In: Salinas, J., Sanchez-Serrano, J.J. (eds) Arabidopsis Protocols. Methods in Molecular Biology™, vol 323. Humana Press. https://doi.org/10.1385/1-59745-003-0:65
Download citation
DOI: https://doi.org/10.1385/1-59745-003-0:65
Publisher Name: Humana Press
Print ISBN: 978-1-58829-395-4
Online ISBN: 978-1-59745-003-4
eBook Packages: Springer Protocols