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DNA profiling and plant variety registration. III: The statistical assessment of distinctness in wheat using amplified fragment length polymorphisms

Abstract

The use of AFLP analysis to produce DNA profiles from a set of 55 wheat varieties, commonly grown in the UK over the past 60 years, is described. Using six different primer pairs, 90 polymorphic bands were readily recognised and recorded. These AFLP bands are not significantly clustered and hence can be used with some confidence, even though they are not mapped. Statistical approaches to the analysis of the data were developed such that the discrimination between the varieties achieved by the use of the six primer pairs, both separately and in combination, could be derived and compared to that achieved by a common set of morphological descriptors. Various criteria for the definition of distinctness in terms of the number of band differences required between pairs of varieties were also compared. In general, higher levels of discrimination were achieved by the inclusion of greater numbers of bands in the analysis. The optimal number of polymorphic bands appears to be between v and 2v, where v is the number of varieties under test. Discrimination levels were adversely affected if the number of bands was below v/2. Distinctness levels achieved by the use of molecular markers can be calibrated so that they reproduce those seen with morphological characters. The results are discussed in relation to the possible use of DNA profiling methods for distinctness, uniformity and stability testing.

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References

  • Cooke, R.J., 1995. Varietal identification of crop plants. In: J. Skerritt & R. Appels (Eds), New Diagnostics in Crop Sciences, pp. 33-63. CAB International, Wallingford.

    Google Scholar 

  • Cooke, R.J. & J.C. Reeves, 1998. Cultivar identification-a review of new methods. In: A.F. Kelly & R.A.T. George (Eds), Encyclopedia of Seed Production of World Crops, John Wiley & Sons, London (in press).

    Google Scholar 

  • Devos, K.M. & M.D. Gale, 1992. The use of random amplified polymorphic DNA markers in wheat. Theor Appl Genet 84: 567-570.

    Article  Google Scholar 

  • Donini, P., J.R. Law, P. Stephenson, & R.M.D. Koebner, 1997a. Analysis of genetic diversity in past and present varieties of Triticum aestivumusing AFLP and microsatellites. Proceedings of Plant & Animal Genome V, San Diego 1997.

  • Donini, P., L. Elias, S. Bougourd & R.M.D. Koebner, 1997b. AFLP fingerprinting reveals pattern differences between template DNA extracted from different plant organs. Genome 40: 521-526.

    CAS  Google Scholar 

  • Flavell, R.B., J. Rimpau & D.B. Smith, 1977. Repeated DNA relationships in four cereal genomes. Chromosoma 63: 205-222.

    CAS  Article  Google Scholar 

  • Gale, M.D., S. Chao & P.J. Sharp, 1990. RFLP mapping in wheat-progress and problems. Proceedings 19th Stadler Genetics Symposium, pp. 353-363, Plenum Press, New York.

    Google Scholar 

  • Gower, J.C., 1966. Some distance properties of latent root and vector methods used in multivariate analysis. Biometrika 55: 582-585.

    Article  Google Scholar 

  • Hayes, P.M., J. Cerono, H. Witsenboer, M. Kuiper, M. Zabeau, K. Sato, A. Kleinhofs, D. Kudrna, A. Kilian, M. Saghai-Maroof & D. Hoffman and the North American Barley Genome Mapping Project, 1997. Characterizing and exploiting genetic diversity and quantitative traits in barley (Hordeum vulgare) using AFLP markers. J. Quant. Trait Loci 3, Article 2:http://probe.nalusda.gov:8000/otherdocs/jqtl.

  • Lee, D., J.C. Reeves & R.J. Cooke, 1996a. DNA profiling and plant variety registration: 1. The use of random amplified DNA polymorphisms to discriminate between varieties of oilseed rape. Electrophoresis 17: 261-265.

    PubMed  CAS  Article  Google Scholar 

  • Lee, D., J.C. Reeves & R.J. Cooke, 1996b. DNA profiling and plant variety registration: 2. Restriction fragment length polymorphisms in varieties of oilseed rape. Plant Varieties & Seeds 9: 181-190.

    Google Scholar 

  • Lee, D., J.C. Reeves & R.J. Cooke, 1996c. DNA profiling for varietal identification in crop plants. Proceedings BCPC Symposium No. 65: Diagnostics in Crop Production. pp. 235-240.

    CAS  Google Scholar 

  • Moore G, S. Abbo, W. Cheung, T. Foote, M.D. Gale, R.M.D. Koebner, A. Leitch, I. Leitch, T. Money, P. Stancombe, M. Yano M & R.B. Flavell, 1993. Key features of cereal genome organization as revealed by the use of cytosine methylation-sensitive restriction endonucleases. Genomics: 15: 472-482.

    PubMed  CAS  Article  Google Scholar 

  • Morell, M.K., R. Peakall, R. Appels, L.R. Preston, & H.L. Lloyd, 1995. DNA profiling techniques for plant variety identification. Aust J Exp Agric 35: 801-819.

    Article  Google Scholar 

  • Penner, G.A., A. Bush, R. Wise, W. Kim, L. Dornier, K. Kasha, A. Laroche, G. Scoles, S.J. Molnar & G. Fedak, 1993. Reproducibility of random amplified polymorphic DNA (RAPD) analysis among laboratories. PCR Methods & Applications 2: 341-345.

    CAS  Google Scholar 

  • Powell W, W.T.B. Thomas, E. Baird, P. Lawrence, A. Booth, B. Harrower, J.W. McNicol & R. Waugh, 1997. Analysis of quantitative traits in barley by the use of amplified fragment length polymorphism. Heredity: 78: 48-59.

    Article  Google Scholar 

  • Smith, J.S.C., 1995. Identification of cultivated varieties by nucleotide analysis. In: C.W. Wrigley (Ed), Identification of Food Grain Varieties, pp. 131-150, AACC, USA.

  • Sneath, P.H.A. & Sokal, R.R., 1973. Numerical taxonomy. W.H. Freeman & Co., San Francisco. UPOV, 1994. Guidelines for the Conduct of Tests for Distinctness, Uniformity and Stability: Wheat. Paper TG/3/11, UPOV, Geneva.

    Google Scholar 

  • Vos P., R. Hogers, M. Bleeker, M. Reijans, T. van de Lee, M. Hornes, A. Freijters, J. Pot, J. Peleman, M. Kuiper & M. Zabeau, 1995. AFLP: a new technique for DNA fingerprinting. Nucl Acid Res: 23: 4407-4414.

    CAS  Google Scholar 

  • Weatherup, S.T.C., 1974. A computer program, DUST, for the analysis of distinctness, uniformity and stability trials. J Nat Inst Agric Bot: 13, 244-251.

    Google Scholar 

  • Zabeau M.& P. Vos, 1993. Selective restriction fragment amplification: a general method for DNA fingerprinting. European Patent Application number: 92402629.7, Publication number 0 534 858 A1.

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Law, J.R., Donini, P., Koebner, R.M. et al. DNA profiling and plant variety registration. III: The statistical assessment of distinctness in wheat using amplified fragment length polymorphisms. Euphytica 102, 335–342 (1998). https://doi.org/10.1023/A:1018318701458

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  • DOI: https://doi.org/10.1023/A:1018318701458

  • AFLP
  • distinctness testing
  • wheat