Abstract
RFLP and RAPD markers were evaluated and compared for their ability to determine genetic relationships in a set of three B. napus breeding lines. Using a total of 50 RFLP and 92 RAPD markers, the relatedness between the lines was determined. In total, the RFLP and the RAPD analysis revealed more than 500 and 400 bands, respectively. The relative frequencies of loci with allele differences were estimated from the band data. The RFLP and RAPD marker sets detected very similar relationships among the three lines, consistent with known pedigree data. Bootstrap analyses showed that the use of approximately 30 probes or primers would have been sufficient to achieve these relationships. This indicates that RAPD markers have the same resolving power as RFLP markers when used on exactly the same set of B. napus genotypes. Since RAPD markers are easier and quicker to use, these markers may be preferred in applications where the relationships between closely-related breeding lines are of interest. The use of RAPD markers in fingerprinting applications may, however, not be warranted, and this is discussed in relation to the reliability of RAPD markers.
This is a preview of subscription content, log in via an institution to check access.
Similar content being viewed by others
References
Demeke T, Adams RP, Chibbar, R (1992) Potential taxonomic use of random amplified polymorphic DNA (RAPD): a case study in Brassica. Theor Appl Genet 84:990–994
Echt CS, Erdahl LA, McCoy TJ (1992) Genetic segregation of random amplified polymorphic DNA in diploid cultivated alfalfa. Genome 35:84–87
Efron B, Tibshirani R (1991) Statistical data analysis in the computer age. Science 253:390–395
Figdore SS, Kennard WC, Song KM, Slocum MK, Osborn TC (1988) Assessment of the degree of restriction fragment length polymorphism in Brassica. Theor Appl Genet 75:833–840
Grattapaglia D, Chaparro J, Wilcox P, McCord S, Werner D, Amerson H, McKeand S, Bridgwater F, Whetten R, O'Malley D, Sederoff R (1992) Mapping in woody plants with RAPD markers: application to breeding in forestry and horticulture. In: Proc Conf Appl RAPD Tech Plant Breed. Minneapolis, pp 37–40
Güssow D, Clackson T (1989) Direct clone characterization from plaques and colonies by the polymerase chain reaction. Nucleic Acids Res 17:4000
Hjerdin A, Säll T, Tuvesson S, Halldén C (1994) RFLP markers in the genus Beta (L.). Characterization of DNA sequences from a Beta vulgaris library. (Submitted)
Heun M, Helentjaris T (1993) Inheritance of RAPDs in F1 hybrids of corn. Theor Appl Genet 85:961–968
Hu J, Quiros CF (1991) Identification of broccoli and cauliflower cultivars with RAPD markers. Plant Cell Rep 10:505–511
Kresovich S, Williams JGK, McFerson JR, Routman EJ, Schaal BA (1992) Characterization of genetic identities and relationships of Brassica oleracea L. via a random amplified polymorphic DNA assay. Theor Appl Genet 85:190–196
Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease resistance genes by bulked segregant analysis: a rapid method to detect markers in specific genomic regions using segregating populations. Proc Natl Acad Sci USA 88:9828–9832
Nei M, Li WH (1979) Mathematical model for studying genetic variation in terms of restriction endonuclease. Proc Natl Acad Sci USA 76:5269–5273
Reiter RS, Williams JGK, Feldmann KA, Rafalski JA, Tingey SV, Scolnik PA (1992) Global and local genome mapping in Arabidopsis thaliana by using recombinant inbred lines and random amplified polymorphic DNAs. Proc Natl Acad Sci USA 89:1477–1481
Riedy MF, Hamilton WJ, Aquadro CF (1992) Excess of non-parental bands in offspring from known primate pedigrees assayed using RAPD PCR. Nucleic Acids Res 20:918
Saghai-Maroof MA, Soliman KM, Jorgensen RA, Allard RW (1984) Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. Proc Natl Sci USA 81:8014–8018
Skroch P, Tivang J, Nienhuis J (1992) Analysis of genetic relationships using RAPD marker data. In: Proc Conf Appl RAPD Tech Plant Breed. Minneapolis, pp 26–30
Slocum MK, Figdore SS, Kennard WC, Suzuki JY, Osborn TC (1990) Linkage arrangement of restriction fragment length polymorphism loci in Brassica oleracea. Theor Appl Genet 80:57–64
Tanksley SD, Young ND, Paterson AH, Bonierbale MW (1989) RFLP mapping in plant breeding: new tools for an old science. Bio/Technology 7:257–264
Tanksley SD, Ganal MW, Prince JP, de Vincente MC, Bonierbale MW, Broun P, Fulton TM, Giovannoni JJ, Grandillo S, Martin GB, Messeguer R, Miller JC, Miller L, Paterson AH, Pineda O, Röder MS, Wing RA, Wu W, Young ND (1992) High density molecular linkage maps of the tomato and potato genomes. Genetics 132:1141–1160
Thormann CE, Osborn TC (1992) Use of RAPD and RFLP markers for germplasm evaluation. In: Proc Conf Appl RAPD Tech Plant Breed. Minneapolis, pp 9–11
Tulsieram LK, Glaubitz JC, Kiss G, Carlson JE (1992) Single-tree genetic linkage mapping in conifers using haploid DNA from megagametophytes. Bio/Technology 10:686–690
Welsh J, McClelland M (1990) Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Res 18:7213–7218
Whitkus R, Doebley J, Lee M (1992) Comparative genome mapping of sorghum and maize. Genetics 132:1119–1130
Williams JGK, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535
Author information
Authors and Affiliations
Additional information
Communicated by G. Wenzel
Rights and permissions
About this article
Cite this article
Halldén, C., Nilsson, N.O., Rading, I.M. et al. Evaluation of RFLP and RAPD markers in a comparison of Brassica napus breeding lines. Theoret. Appl. Genetics 88, 123–128 (1994). https://doi.org/10.1007/BF00222404
Received:
Accepted:
Issue Date:
DOI: https://doi.org/10.1007/BF00222404