Skip to main content
Log in

DNA fingerprinting — A useful tool in fruit breeding

  • Published:
Euphytica Aims and scope Submit manuscript

Summary

Identification of cultivars and selections, pedigree analysis, estimation of genetic relatedness and genome mapping — all of these objects are achieved with various methods of DNA fingerprinting which can distinguish even closely related genotypes. Initial results were obtained by a variation of the well-known RFLP-technique (Restriction Fragment Length Polymorphism): hybridization of restriction enzyme-digested DNA samples with hypervariable minisatellite DNA probes. Technical improvements, including a number of additional DNA probes and various DNA fragment detection methods, have since been published. With the recent advent of the PCR technique (Polymerase Chain Reaction) and PCR-based methods like RAPD (Random Amplified Polymorphic DNA), DNA fingerprinting has widened its applicability and attracted a growing number of scientists.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  • Abbott, A., L. Belthoff, S. Rajapakse, R. Ballard, W.V. Baird, R. Monet, R. Scorza, P Morgans & A. Callahan,1992. Development of a genetic linkage map of peach. Plant Genome I, San Diego Nov. 9–11, 1992:44.

  • Aruna, M., P. Ozias-Akins, M.E. Austin & G. Kochert, 1993. Genetic relatedness among rabbiteye blueberry (Vaccinium ashei) cultivars determined by DNA amplification using single primers of arbitrary sequence. Genome 36: 971–977.

    PubMed  CAS  Google Scholar 

  • Baird, E., S. Cooper-Bland, R. Waugh, M. DeMaine & W. Powell, 1992. Molecular characterization of inter- and intra-specific somatic hybrids of potato using randomly amplified polymorphic DNA (RAPD) markers. Mol. Gen. Genet. 233:469–475.

    Article  PubMed  CAS  Google Scholar 

  • Boury, S., I. Lutz, M.-C. Gavalda, F. Guidet & A. Schlesser, 1992. Empreintes génétiques du chou-fleur par RAPD et vérification de la pureté hybride Fl d'un lot de semences. Agronomie 12: 669–681.

    Google Scholar 

  • Braithwaite, K.S. & J.M. Manners, 1989. Human hypervariable minisatellite probes detect DNA polymorphisms in the fungusColletotrichum gloeosporioides. Curr. Genet. 16: 473–475.

    Article  CAS  Google Scholar 

  • Brown, P.T.H., F.D. Lange, E. Kranz & H. Lörz, 1993. Analysis of single protoplasts and regenerated plants by PCR and RAPD technology. Mol. Gen. Genet. 237: 311–317.

    PubMed  CAS  Google Scholar 

  • Büscher, N., E. Zyprian & R. Blaich, 1993. Identification of grapevine cultivars by DNA analyses — Pitfalls of random amplified polymorphic DNA techniques using 10mer primers. Vitis 32: 187–188.

    Google Scholar 

  • Cai, Q., C. Guy & G.A. Moore (1992) Genetic mapping of random amplified polymorphic DNA (RAPD) markers inCitrus. Plant Genome I, San Diego Nov. 9–11, 1992: 20.

  • Chaparro, J., D. Werner, D. O'Malley & R. Sederoff, 1992. Targetted mapping and linkage analysis in peach. Plant Genome 1, San Diego Nov 9–11, 1992: 21.

  • Collins, G.G. & R.H. Symons, 1993. Polymorphisms in grapevine DNA detected by the RAPD PCR technique. Plant Mol. Biol. Reporter 11: 105–112.

    Article  CAS  Google Scholar 

  • Dallas, J.F., 1988. Detection of DNA “fingerprints” of cultivated rice by hybridization with a human minisatellite probe. Proc. Nad. Acad. Sci. USA 85: 6831–6835.

    Article  CAS  Google Scholar 

  • Dirlewanger, E. & C. Bodo, 1994. Molecular genetic mapping of peach. Eucarpia Fruit Breeding Sect. Meeting, Aug. 30–Sept. 3, 1993. In: H. Schmidt and M. Kellerhals (Eds.) Progress in temperate fruit breeding, pp. 309–311. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • Dunemann, F., 1994. Genetic relationships inMalus evaluated by RAPD “fingerprinting” of cultivars and wild species. In: H. Schmidt and M. Kellerhals (Eds.) Progress in temperate fruit breeding, pp. 293–300. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • European Patent Office, Publication number 0 534 858 Al. (Applicant: Keygene N.V., Wageningen, The Netherlands).

  • Fauré, S., J.L. Noyer, J.P. Horry, F. Bakry, C. Lanaud & D. Gonzalez de Léon, 1992. Genetic mapping of the diploid banana genome using molecular markers. Plant Genome I San Diego Nov. 9–11, 1992: 46.

  • Gardiner, S.E., J.M. Zhu, H.C.M. Whitehead & C. Madie, 1994. The New Zealand apple genome mapping project. In: H. Schmidt and M. Kellerhals (Eds.) Progress in temperate fruit breeding, pp. 275–279. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • Gianfranceschi, L., J.M. McDermott, N. Seglias, B. Koller, M. Kellerhals & C. Gessler, 1994. First results in developing a marker assisted breeding for resistance against scab. In: H. Schmidt and M. Kellerhals. Progress in temperate fruit breeding, pp. 291–294. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • Giovanonni, J.J., R.A. Wing, M.W. Ganal & S.D. Tanksley, 1991. Isolation of molecular markers from specific chromosomal intervals using DNA pools from existing mapping populations. Nucleic Acids Res. 19: 6553–6558.

    Article  Google Scholar 

  • Gogorcena, Y., S. Arulsekar, A.M. Dandekar & D.E. Parfitt, 1993. Molecular markers for grape characterization. Vitis 32: 183–185.

    CAS  Google Scholar 

  • Grattapaglia, D., J. Chaparro, P. Wilcox, S. McCord, D. Wemer, H. Amerson, S. McKeand, F. Bridgewater, L. McIntyre, R. Doerge, B. Weir, R. Whetten, D. O'Malley & R. Sederoff, 1992a. RAPD mapping and tree improvement. Plant Genome I, San Diego Nov. 9–11, 1992:14.

  • Grattapaglia, D., J. Chaparro, P Wilcox, S. McCord, D. Werner, H. Amerson, S. McKeand, F Bridgewater, R. Whetten, D. O'Malley & R. Sederoff, 1992b. Mapping in woody plants with RAPD markers: Applications to breeding in forestry and horticulture. Application of RAPD technology to plant breeding, Joint plant breeding symposia series, Minneapolis Nov. 1, 1992: 37–40.

  • Harada, T., K. Matsuyama, T. Sato, R. Ishikawa, M. Niizeki & K. Saito, 1993. DNA-RAPDs detect genetic variation and paternity in Malus. Euphytica 65: 87–91.

    Article  Google Scholar 

  • Hemmat M., N.Y. Weeden, A.G. Manganaris & D.M. Lawson, 1994. Molecular marker linkage map for apple. J. Hered. 85: 4–11.

    PubMed  CAS  Google Scholar 

  • Hem, M. & T. Helentjaris, 1993. Inheritance of RAPDs in Fl hybrids of corn. Theor. Appl. Genet. 85: 961–968.

    Google Scholar 

  • Hoepfner, A.-S., H. Nybom, U. Carlsson & R. Franzén, 1993. DNA fingerprinting useful for monitoring cell line identity in micro propagated raspberries. Acta Agricult. Scand., Sect. B 43: 53–57.

    Article  CAS  Google Scholar 

  • Jeanjaques, I., A. Defontaine & J.N. Hallet, 1993. Characterization ofVitis vinifera cultivars by random amplified polymorphic DNA markers. Vitis 32: 189–190.

    CAS  Google Scholar 

  • Kaemmer, D., R. Afza, K. Weising, G. Kahl & F.J. Novak, 1992. Oligonucleotide and amplification fingerprinting of wild species and cultivars of banana (Musa spp.) Bio/Technology 10: 1030–1035.

    Article  PubMed  CAS  Google Scholar 

  • King, G., 1994. The European apple genome mapping project - progress in mapping agronomic genes in apple. in: H. Schmidt and M. Kellerhals. Progress in temperate fruit breeding, pp. 263–267. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • Koller, B., A. Lehmann, J.M. McDermott & C. Gessler, 1993. Identification of apple cultivars using RAPD markers. Theor. Appl. Genet. 85: 901–904.

    Article  CAS  Google Scholar 

  • Komatsu, A., T. Akihama, T. Hidaka & M. Omura, 1993. Identification ofPoncirus strains by DNA fingerprinting. In: T. Hayashi, M. Omura & N.S. Scott (Eds). Techniques on Gene Diagnosis and Breeding in Fruit Trees, pp. 88–95. Fruit tree research station, Ibaraki.

    Google Scholar 

  • Lavi, U., J. Hillel, A. Vainstein, E. Lahav & D. Sharon, 1991. Application of DNA fingerprints for identification and genetic analysis of avocado. J. Amer. Soc. Hort. Sci. 116: 1078–1081.

    CAS  Google Scholar 

  • Lodhi, M.A., B.I. Reisch & N.F. Weeden, 1992. Molecular genetic mapping and genome size ofVitis. Plant Genome I, San Diego Nov. 9–11, 1992: 37.

  • Martin, G.B., M.C. de Vicente & S.D. Tanksley, 1993. High-resolution linkage analysis and physical characterization of thePto bacterial resistance locus in tomato. Molecular Plant-Microbe Interactions 6: 26–34.

    CAS  Google Scholar 

  • Matsuyama, T., R. Motohashi, T. Akihama & M. Omura, 1992. DNA fingerprinting in Citrus cultivars. Japan. J. Breed. 42: 155–159.

    CAS  Google Scholar 

  • Matsuyama, T., M. Omura & T. Akihama, 1993. DNA fingerprinting in Citrus cultivars. In: T. Hayashi, M. Omura & N.S. Scott (Eds). Techniques on Gene Diagnosis and Breeding in Fruit Trees, pp. 26–30. Fruit tree research station, Ibaraki.

    Google Scholar 

  • Michelmore, R.W., I. Paran & R.V. Kesseli, 1991. Identification of markers linked to disease-resistance genes by bulked segregant analysis: A rapid method to detect markers in specific genomic regions by using segregating populations. Proc. Natl. Acad. Sci. USA 88: 9828–9832.

    Article  PubMed  CAS  Google Scholar 

  • Miklas, P.N., J.R. Stavely & J.D. Kelly, 1993. Identification and possible use of a molecular marker for rust resistance in common bean. Theor. Appl. Genet. 85: 745–749.

    Article  CAS  Google Scholar 

  • Mulcahy, D.L., M. Cresti, S. Sansavini, G.C. Douglas, H.F. Linskens, G.B. Mulcahy, R. Vignani & M. Pancaldi, 1993. The use of random amplified polymorphic DNAs to fingerprint apple genotypes. Sci. Horticult. 54: 89–96.

    Article  CAS  Google Scholar 

  • Nybom, H., 1990a. Genetic variation in ornamental apple trees and their seedlings (Malus, Rosaceae) revealed by DNA ‘fingerprinting’. Hereditas 113: 17–28.

    CAS  Google Scholar 

  • Nybom, H., 1990b. DNA fingerprints in sports of ‘Red Delicious’ apples. HortScience 25: 1641–1642.

    CAS  Google Scholar 

  • Nybom, H., 1991. Applications of DNA fingerprinting in plant breeding. In: T. Burke, G. Dolf, A.J. Jeffreys & R. Wolff (Eds). DNA Fingerprinting: Approaches and Applications, pp. 294–311. Birkhäuser, Basel.

    Google Scholar 

  • Nybom, H. & H.K. Hall, 1991. Minisatellite DNA “fingerprints” can distinguishRubus cultivars and estimate their degree of relatedness. Euphytica 53: 107–114.

    Article  CAS  Google Scholar 

  • Nybom, H. & B.A. Schaal, 1990. DNA “fingerprints” applied to paternity analysis in apples (Malus ×domestica). Theor. Appl. Genet. 79: 763–768.

    CAS  Google Scholar 

  • Nybom, H., B.A. Schaal & S.H. Rogstad, 1989. DNA “fingerprints” can distinguish cultivars of blackberries and raspberries. 5th International Symposium onRubus & Ribes, Acta Horticult. 262: 305–310.

    Google Scholar 

  • Nybom, H., S.H. Rogstad & B.A. Schaal, 1990. Genetic variation detected by use of the M13 “DNA fingerprint” probe inMalus, Prunus, andRubus (Rosaceae). Theor. Appl. Genet. 79: 153–156.

    Google Scholar 

  • Nybom, H., U. Carlson & A.-S. Hoepfner, 1992. [The DNA laboratory at Balsgård]. Balsgård - Dept. Horticult. Plant Breeding, Swedish Univ. Agricult. Sci., Biennial Rept 1990–91: 146–154.

  • Nyman, M., 1993. Protoplast technology in strawberries. Acta Universitatis Upsaliensis, Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science, No. 451.

  • Paran, L., R. Kesseli & R. Michelmore, 1991. Identification of restriction fragment length polymorphism and random amplified polymorphic DNA markers linked to downy mildew resistance genes in lettuce, using near-isogenic lines. Genome 34: 1021–1027.

    PubMed  CAS  Google Scholar 

  • Parent, J.-G. & D. Pagé, 1992. Identification of raspberry cultivars by nonradioactive-DNA fingerprinting. HortScience 27: 1108–1110.

    Google Scholar 

  • Parent, J.-G., M.G. Fortin & D. Pagé, 1993. Identification de cultivars de framboisier par l'analyse d'ADN polymorphe amplifié au hasard (RAPD). Can. J. Plant Sci. 73: 1115–1122.

    Google Scholar 

  • Poulsen, G.B., G. Kahl & K. Weising, 1993. Abundance and polymorphism of simple repetitive DNA sequences inBrassica napus L. Theor. Appl. Genet. 85: 994–1000.

    Article  CAS  Google Scholar 

  • Poulsen, G.B., G. Kahl & K. Weising, 1993. Oligonucleotide fingerprinting of resynthesizedBrassica napus. Euphytica. 70: 53–59.

    Article  CAS  Google Scholar 

  • Rogstad, S.H., J.C. Patton II & B.A. Schaal, 1988. M13 repeat probe detects DNA minisatellite-like sequences in gymnosperms and angiosperms. Proc. Natl. Acad. Sci. USA 85: 9176–9178.

    Article  PubMed  CAS  Google Scholar 

  • Ryskov, A.P., A.G. Jincharadze, M.I. Prosnyak, P.L. Ivanov & S.A. Limborska, 1988. M13 phage DNA as a universal marker for DNA fingerprinting of animals, plants and microorganisms. F.E.B.s Letters 233: 388–392.

    Article  CAS  Google Scholar 

  • Schmidt, T., K. Boblenz, M. Metzlaff, D. Kaemmer, K. Weising & G. Kahl, 1993. DNA fingerprinting in sugar beet (Beta vulgaris) - Identification of double-haploid breeding lines. Theor. Appl. Genet. 85: 653–657.

    Article  CAS  Google Scholar 

  • Sharon, D., J. Hillel, A. Vainstein & U. Lavi, 1992. Application of DNA fingerprints for identification and genetic analysis of Carica papaya and otherCarica species. Euphytica 62: 119–126.

    Article  CAS  Google Scholar 

  • Shimada, T., T. Haji & K. Hosaka, 1993. Classification and parent determination by RAPD in mume. In: T. Hayashi, M. Omura & N.S. Scott (Eds). Techniques on Gene Diagnosis and Breeding in Fruit Trees, pp. 77–80. Fruit tree research station, Ibaraki.

    Google Scholar 

  • Sierotzki, H., M. Eggenschwiler, J. McDermott & C. Gessler, 1994. Specific virulence of isolates ofVenturia inaequalis on “susceptible” apple cultivars. EucarpiaFruit Breeding Sect. Meeting, Aug. 30–Sept. 3, 1993.

  • Stiles, J.I., C. Lemme, S. Sondur, M.B. Morshidi & R. Manshardt, 1993. Using randomly amplified polymorphic DNA for evaluating genetic relationships among papaya cultivars. Theor. Appl. Genet, 85: 697–701.

    Article  CAS  Google Scholar 

  • Striem, M.J., P. Spiegel-Roy, G. Ben-Hayyim, J. Beckmann & D. Gidoni, 1990. Genomic DNA fingerprinting ofVitis vinifera by the use of multi-locus probes. Vitis 29: 223–227.

    Google Scholar 

  • Teramoto, S., Y. Kano-Murakami, M. Hori & K. Kamiyama, 1993. “DNA fingerprinting” can distinguish cultivar of Japanese pear. In: T. Hayashi, M. Omura & N.S. Scott (Eds). Techniques on Gene Diagnosis and Breeding in Fruit Trees, pp. 74–76. Fruit tree research station, Ibaraki.

    Google Scholar 

  • Vosman, B., P. Arens, W. Rus-Kortekaas & M.J.M. Smulders, 1992. Identification of highly polymorphic DNA regions in tomato. Theor. Appl. Genet. 85: 239–244.

    Article  CAS  Google Scholar 

  • Waugh, R., E. Baird & W. Powell, 1992. The use of RAPD markers for the detection of gene introgression in potato. Plant Cell Reports 11: 466–469.

    Article  CAS  Google Scholar 

  • Weeden, M.E., G.M. Timmerman, M. Hemmat, B.E. Kneen & M.A. Lodhi, 1992. Inheritance and reliability of RAPD markers. Application of RAPD technology to plant breeding, Joint plant breeding symposia series, Minneapolis Nov. 1, 1992: 12–17.

  • Weeden, N.F., M. Hemmat, D.M. Lawson, M. Lohdi, R.L. Bell, A. Manganaris, B.I. Reisch, S.K. Brown & G.N. Ye, 1994. Development and application of molecular marker linkage maps in woody fruit crops. In: H. Schmidt and M. Kellerhals (Eds.) Progress in temperate fruit breeding, pp. 269–273. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • Weising, K., J. Ramser, D. Kaemmer, G. Kahl & J.T. Epplen, 1991. Oligonucleofide fingerprinting in plants and fungi. In: T. Burke, G. Dolf, A.J. Jeffreys & R. Wolff (Eds). DNA Fingerprinting: Approaches and Applications, pp. 313–329. Birkhäuser, Basel.

    Google Scholar 

  • Weising, K., D. Kaemmer, F. Weigand, J.T. Epplen & G. Kahl, 1992. Oligonucleotide fingerprinting reveals various probe-dependent levels of informativeness in chickpea (Cicer arietinum). Genome 35:436–442.

    CAS  Google Scholar 

  • Williams, J.G.K., A.R. Kubelik, K.J. Livak, J.A. Rafalski & S.V. Tingey, 1990. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucl. Acids Res. 18: 6231–6235.

    Article  Google Scholar 

  • Wong, Z., V. Wilson, I. Patel, S. Povey & A.J. Jeffreys, 1987. Characterization of a panel of highly variable minisatellites cloned from human DNA. Ann. Hum. Genet. 51: 269–288.

    PubMed  CAS  Google Scholar 

  • Xu, Y.-S., M.S. Clark & E. Pehu, 1993. Use of RAPD markers to screen somatic hybrids betweenSolanum tuberosum andS. brevidens. Plant Cell Reports 12: 107–109.

    Google Scholar 

  • Yang, H. & J. Krüger,1994. Identification of a RAPD marker linked to theVf gene for scab resistance in apples. Plant Breeding, in press.

  • Yang, H. & H. Schmidt, 1994. Selection of a mutant from adventitious shoots formed in X-ray treated cherry leaves and differentiation of standard and mutant with RAPDs. In: H. Schmidt and M. Kellerhals (Eds.) Progress in temperate fruit breeding, pp. 287–290. Kluwer Academic Publishers, Dordrecht.

    Google Scholar 

  • Zhao, X.P. & G. Kochert, 1993. Phylogenetic distribution and genetic mapping of a (GGC)( n ) microsatellite from rice (Oryza sativa). Plant Molec. Biol.21: 607–614.

    Article  CAS  Google Scholar 

  • Zischler, H., A. Hinkkanen & R. Studer, 1991. Oligonucleotide fingerprinting with (CAC)5: Nonradioactive in-gel hybridization and isolation of individual hypervariable loci. Electrophoresis 12: 141–146.

    Article  PubMed  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Rights and permissions

Reprints and permissions

About this article

Cite this article

Nybom, H. DNA fingerprinting — A useful tool in fruit breeding. Euphytica 77, 59–64 (1994). https://doi.org/10.1007/BF02551462

Download citation

  • Issue Date:

  • DOI: https://doi.org/10.1007/BF02551462

Key words

Navigation