Skip to main content
SpringerLink
Log in

Nuclear DNA markers in systematics and evolution

  • Chapter
DNA-based markers in plants

Part of the book series: Advances in Cellular and Molecular Biology of Plants ((CMBP,volume 1))

Abstract

Systematic biology studies the organization and origin of biological diversity. Systematists analyze patterns of variation among the products of evolution (species) and attempt to infer the processes involved in evolutionary change from the observed pattern. A variety of approaches have traditionally been used to infer systematic or evolutionary relationships among plant species including morphology, anatomy, cytology, breeding systems, cross-compatibility, secondary compounds (e.g. flavonoids), and isozymes. Each of these approaches has its limitations. For example, although isozymes are useful in analyzing variation within and among closely related species, they are generally not applicable to the study of more distantly related taxa (Crawford 1990). In contrast, morphological comparisons can be made among widely divergent species, but our ignorance of the underlying mechanism of morphological evolution creates uncertainty about the extent to which morphological similarity accurately reflects evolutionary relationships.

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

Access this chapter

Log in via an institution
Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 39.99
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 54.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

Abbreviations

bp:

base pair(s)

cpDNA:

chloroplast DNA

drDNA:

dispersed repetitive DNA

kb:

kilobase(s)

mtDNA:

mitochondrial DNA

PCR:

polymerase chain reaction

QTL:

quantitative trait locus

RAPD:

random amplified polymorphic DNA

RFLP:

restriction fragment length polymorphism

References

  • Aldrich, P.R. and Doebley, J. (1992) Restriction fragment variation in the nuclear and chloroplast genomes of cultivated and wild Sorghum bicolor. Theor. Appl. Genet. 85: 293–302.

    Google Scholar 

  • Aldrich, P.R., Doebley, J., Schertz, K.F. and Stec, A. (1992) Patterns of allozyme variation in cultivated and wild Sorghum bicolor. Theor. Appl. Genet. 85: 451–460.

    CAS  Google Scholar 

  • Anderson, E. (1945) What is Zea mays? A report of progress. Chron. Bot. 9: 88–92.

    Google Scholar 

  • Anderson, E. (1949) Introgressive Hybridization. John Wiley, New York.

    Google Scholar 

  • Arnold, M.L., Bennett, B.D. and Zimmer, E.A. (1990a) Natural hybridization between Iris fulva and I. hexagona: pattern of ribosomal DNA variation. Evolution 44: 1512–1521.

    Article  CAS  Google Scholar 

  • Arnold, M.L., Hamrick, J.L. and Bennett, B.D. (1990b) Allozyme variation in Louisiana irises: a test for introgression and hybrid speciation. Heredity 65: 297–306.

    Article  Google Scholar 

  • Arnold, M.L., Buckner, C.M. and Robinson, J.J. (1991) Pollen-mediated introgression and hybrid speciation in Louisiana irises. Proc. Natl. Acad. Sci. U.S.A. 88: 1398–1402.

    Article  PubMed  CAS  Google Scholar 

  • Bachmann, K. (1983) Evolutionary genetics and the genetic control of morphogenesis in flowering plants. Evol. Biol. 16: 157–208.

    Article  Google Scholar 

  • Ball, R.M. Jr., Neigel, J.E. and Avise, J.C. (1990) Gene genealogies within the organismal pedigrees of random mating populations. Evolution 44: 1109–1119.

    Article  Google Scholar 

  • Baverstock, P.R. and Moritz, C. (1990) Sampling design. In: D.M. Hillis and C. Moritz (eds.), Molecular Systematics, pp. 13–24. Sinauer Associates, Inc., Sunderland, MA.

    Google Scholar 

  • Beckmann, J.S. and Soller, M. (1983) Restriction fragment length polymorphisms in genetic improvement: methodologies, mapping and costs. Theor. Appl. Genet. 67: 35–43.

    Article  Google Scholar 

  • Bonierbale, M.W., Plaisted, R.L. and Tanksley, S.D. (1988) RFLP maps based on a common set of clones reveal modes of chromosomal evolution in potato and tomato. Genetics 120: 1095–1103.

    PubMed  CAS  Google Scholar 

  • Brubaker, C.L. and Wendel J.F. (1994) Reevaluating the origin of domesticated cotton (Gossypium hirsutum: Malvaceae) using nuclear restriction fragment length polymorphisms (RFLPs). Am. J. Bot. (in press).

    Google Scholar 

  • Brummer, E.C., Kochert, G. and Bouton, J.H. (1991) RFLP variation in diploid and tetraploid alfalfa. Theor. Appl. Genet. 83: 89–96.

    Article  Google Scholar 

  • Chang, C., Bowman, J.L., DeJohn, A.W., Lander, E.S. and Meyerowitz, E.M. (1988) Restriction fragment length polymorphism linkage map for Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A. 85: 6856–6860.

    Article  PubMed  CAS  Google Scholar 

  • Charlesworth, B., Lande, R. and Slatkin, M. (1982) A neo-Darwinian commentary on macroevolution. Evolution 36: 474–498.

    Article  Google Scholar 

  • Chase, CD., Ortega, V.M. and Vallejos, C.E. (1991) DNA restriction fragment length polymorphisms correlate with isozyme diversity in Phaseolus vulgaris L. Theor. Appl. Genet. 81: 806–811.

    Article  CAS  Google Scholar 

  • Coyne, J.A. and Lande, R. (1985) The genetic basis of species differences in plants. Am. Nat. 126: 141–145.

    Article  Google Scholar 

  • Coyne, J.A., Rux, J. and David, J.R. (1991) Genetics of morphological differences and hybrid sterility between Drosophila sechellia and its relatives. Genet. Res., Camb. 57: 113–122.

    Article  CAS  Google Scholar 

  • Crawford, D.J. (1983) Phylogenetic and systematic inferences from electrophoretic studies. In: S.D. Tanksley and T.J. Orton (eds.), Isozymes in Plant Genetics and Breeding, Part A, pp. 257–287. Elsevier, Amsterdam.

    Google Scholar 

  • Crawford, D.J. (1990) Plant Molecular Systematics. John Wiley and Sons, Inc., New York.

    Google Scholar 

  • Dallas, J.F. (1988) Detection of DNA ‘fingerprints’ of cultivated rice by hybridization with a human minisatellite DNA probe. Proc. Natl. Acad. Sci. U.S.A. 85: 6831–6835.

    Article  PubMed  CAS  Google Scholar 

  • Doebley, J. and Stec, A. (1991) Genetic analysis of the morphological differences between maize and teosinte. Genetics 129: 285–295.

    PubMed  CAS  Google Scholar 

  • Doebley, J., Stec, A., Wendel, J. and Edwards, M. (1990) Genetic and morphological analysis of a maize-teosinte F2 population: implications for the origin of maize. Proc. Natl. Acad. Sci. U.S.A. 87: 9888–9892.

    Article  PubMed  CAS  Google Scholar 

  • Doyle, J.J. (1992) Gene trees and species trees: molecular systematics as one-character taxonomy. Syst. Bot. 17: 144–163.

    Article  Google Scholar 

  • Duvall, M.R. and Doebley, J.F. (1990) Restriction site variation in the chloroplast genome of Sorghum (Poaceae). Syst. Bot. 15: 472–480.

    Article  Google Scholar 

  • Edwards, M.D., Stuber, C.W. and Wendel, J.F. (1987) Molecular-marker-facilitated investigations of quantitative-trait loci in maize. I. Numbers, genomic distribution and types of gene action. Genetics 116: 113–125.

    PubMed  CAS  Google Scholar 

  • Epplen, J.T. (1988) On simple repeated GATA/GACA sequences in animal genomes: a critical reappraisal. J. Hered. 79: 409–417.

    PubMed  CAS  Google Scholar 

  • Evola, S.V., Burr, F.A. and Burr, B. (1986) The suitability of restriction fragment length polymorphisms as genetic markers in maize. Theor. Appl. Genet. 71: 765–771.

    Article  CAS  Google Scholar 

  • Fatokun, C.A., Menancio-Hautea, D.I., Danesh, D. and Young, N.D. (1992) Evidence for orthologous seed weight genes in cowpea and mungbean based on RFLP mapping. Genetics 132: 841–846.

    PubMed  CAS  Google Scholar 

  • Felsenstein, J. (1988) Phylogenies from molecular sequences: inference and reliability. Ann. Rev. Genet. 22: 521–565.

    Article  PubMed  CAS  Google Scholar 

  • Figdore, S.S., Kennard, W.D., Song, K.M., Slocum, M.K. and Osborn, T.C. (1988) Assessment of the degree of restriction fragment length polymorphism in Brassica. Theor. Appl. Genet. 75: 833–840.

    CAS  Google Scholar 

  • Flavell, R. (1986) Repetitive DNA and chromosome evolution in plants. Phil. Trans. R. Soc. London Ser. B 312: 227–242.

    Article  CAS  Google Scholar 

  • Georges, M., Lathrop, M., Hilbert, P., Marcotte, A., Schwers, A., Swillens, S., Vassart, G. and Hanset, R. (1990) On the use of DNA fingerprints for linkage studies in cattle. Genomics 6: 461–474.

    Article  PubMed  CAS  Google Scholar 

  • Gepts, P. (1993) The use of molecular and biochemical markers in crop evolution studies. Evol. Biol. 27: 51–94.

    Article  Google Scholar 

  • Goodman, M.M. and Stuber, G.W. (1983) Maize. In: S.D. Tanksley and T.J. Orton (eds.), Isozymes in Plant Genetics and Breeding, Part B, pp. 1–33. Elsevier, Amsterdam.

    Google Scholar 

  • Gottlieb, L.D. (1981) Electrophoretic evidence and plant populations. Prog. Phytochem. 7: 1–46.

    CAS  Google Scholar 

  • Gottlieb, L.D. (1984) Genetics and morphological evolution in plants. Am. Nat. 123: 681–709.

    Article  Google Scholar 

  • Graner, A., Jahoor, A., Schondelmaier, J., Siedler, H., Pillen, K., Fischbeck, G., Wenzel, G. and Herrmann, R.G. (1991) Construction of an RFLP map of barley. Theor. Appl. Genet. 83: 250–256.

    Article  Google Scholar 

  • Grant, V. (1981) Plant Speciation, 2nd ed. Columbia University Press, New York.

    Google Scholar 

  • Guo, M., Lightfoot, D.A., Mok, M.C. and Mok, D.W.S. (1991) Analyses of Phaseolus vulgaris L. and P. coccineus Lam. hybrids by RFLP: preferential transmission of P. vulgaris alleles. Theor. Appl. Genet. 81: 703–709.

    Article  CAS  Google Scholar 

  • Halward, T.M., Stalker, H.T., LaRue, E.A. and Kochert, G. (1991) Genetic variation detectable with molecular markers among unadapted germ-plasm resources of cultivated peanut and related wild species. Genome 34: 1013–1020.

    Article  CAS  Google Scholar 

  • Hamby, R.K. and Zimmer, E.A. (1992) Ribosomal RNA as a phylogenetic tool in plant systematics. In: P.S. Soltis, D.E. Soltis and J.J. Doyle (eds.), Molecular Systematics of Plants, pp. 50–91. Chapman.and Hall, New York.

    Chapter  Google Scholar 

  • Hamrick, J.L. and Godt, M. J.W. (1990) Allozyme diversity in plant species. In: A.H.D. Brown, M.T. Clegg, A.L. Kahler and B.S. Weir (eds.), Plant Population Genetics, Breeding, and Genetic Resources, pp. 43–63. Sinauer Associates, Inc., Sunderland, MA.

    Google Scholar 

  • Hartl, D.L. and Clark, A.G. (1989) Principles of Population Genetics, 2nd ed. Sinauer Associates, Inc., Sunderland, MA.

    Google Scholar 

  • Helentjaris, T., King, G., Slocum, M., Siedenstrang, C. and Wegman, S. (1985) Restriction fragment polymorphisms as probes for plant diversity and their development as tools for applied plant breeding. Plant Mol. Biol. 5: 109–118.

    Article  CAS  Google Scholar 

  • Helentjaris, T., Slocum, M., Wright, S., Schaefer, A. and Nienhuis, J. (1986) Construction of genetic linkage maps in maize and tomato using restriction fragment length polymorphisms. Theor. Appl. Genet. 72: 761–769.

    Article  CAS  Google Scholar 

  • Helentjaris, T., Weber, D. and Wright, S. (1988) Identification of the genomic locations of duplicate nucleotide sequences in maize by analysis of restriction fragment length polymorphisms. Genetics 118: 353–363.

    PubMed  CAS  Google Scholar 

  • Heun, M., Kennedy, A.E., Anderson, J.A., Lapitan, N.L.V., Sorrells, M.E. and Tanksley, S.D. (1991) Construction of a restriction fragment length polymorphism map for barley (Hordeum vulgare). Genome 34: 437–447.

    Article  Google Scholar 

  • Hillis, D.M. and Moritz, C. (eds.) (1990) Molecular Systematics. Sinauer Associates, Inc., Sunderland, MA.

    Google Scholar 

  • Hilu, K.W. (1983) The role of single-gene mutations in the evolution of flowering plants. Evol. Biol. 26: 97–128.

    Article  Google Scholar 

  • Hosaka, K., Kianian, S.F., McGrath, J.M. and Quiros, C.F. (1990) Development and chromosomal localization of genome-specific DNA markers of Brassica and the evolution of amphidiploids and n = 9 diploid species. Genome 33: 131–142.

    Article  CAS  Google Scholar 

  • Hulbert, S.H., Richter, T.E., Axtell, J.D. and Bennetzen, J.L. (1990) Genetic mapping and characterization of sorghum and related crops by means of maize DNA probes. Proc. Natl. Acad. Sci. U.S.A. 87: 4251–4255.

    Article  PubMed  CAS  Google Scholar 

  • Jeffreys, A.J., Wilson, V. and Thein, S.L. (1985a) Hypervariable ‘minisatellite’ regions in human DNA. Nature 314: 67–73.

    Article  PubMed  CAS  Google Scholar 

  • Jeffreys, A.J., Wilson, V. and Thein, S.L. (1985b) Individual-specific ‘fingerprints’ of human DNA. Nature 316: 76–79.

    Article  PubMed  CAS  Google Scholar 

  • Jeffreys, A.J., Wilson, V., Kelly, R., Taylor, B.A. and Bulfield, G. (1987) Mouse DNA ‘fingerprints’: analysis of chromosome localization and germ-line stability of hypervariable loci in recombinant inbred strains. Nucl. Acids Res. 15: 2823–2836.

    Article  PubMed  CAS  Google Scholar 

  • Jeffreys, A.J., Royle, N.J., Wilson, V. and Wong, Z. (1988) Spontaneous mutation rates to new length alleles at tandem-repetitive hypervariable loci in human DNA. Nature 332: 278–281.

    Article  PubMed  CAS  Google Scholar 

  • Jena, K.K. and Kochert, G. (1991) Restriction fragment length polymorphism analysis of CCDD genome species of the genus Oryza L. Plant Mol. Biol. 16: 831–839.

    Article  PubMed  CAS  Google Scholar 

  • Jones, C.W. and Kafatos, F.C. (1982) Accepted mutations in a gene family: evolutionary diversification of duplicated DNA. J. Mol. Evol. 19: 87–103.

    Article  PubMed  CAS  Google Scholar 

  • Keim, P., Paige, K.N., Whitham, T.G. and Lark, K.G. (1989) Genetic analysis of an interspecific hybrid swarm of Populus: occurrence of unidirectional introgression. Genetics 123: 557–565.

    PubMed  CAS  Google Scholar 

  • Kesseli, R., Ochoa, O. and Michelmore, R. (1991) Variation at RFLP loci in Lactuca subsp. and origin of cultivated lettuce (L. sativa). Genome 34: 430–436.

    Article  Google Scholar 

  • Kim, K.-J., Jansen, R.K., Wallace, R.S., Michaels, H.J. and Parker, J.D. (1992) Phylogenetic implications of rbcL sequence variation in the Asteraceae. Ann. Missouri Bot. Gard. 79: 428–445.

    Article  Google Scholar 

  • Kochert, G., Halward, T., Branch, W.D. and Simpson, C.E. (1991) RFLP variability in peanut (Arachis hypogaea L.) cultivars and wild species. Theor. Appl. Genet. 81: 565–570.

    Article  CAS  Google Scholar 

  • Knapp, S.J., Bridges, W.C. Jr. and Birkes, D. (1990) Mapping quantitative trait loci using molecular marker linkage maps. Theor. Appl. Genet. 79: 583–592.

    Article  Google Scholar 

  • Lander, E.S. and Botstein, D. (1989) Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics 121: 185–199.

    PubMed  CAS  Google Scholar 

  • Landry, B.S. and Michelmore, R.W. (1987) Methods and applications of restriction fragment length polymorphism analysis to plants. In: G. Bruening, J. Harada, T. Kosuge and A. Hollaender (eds.), Tailoring Genes for Crop Improvement, pp. 25–44. Plenum Publishing Corporation, New York.

    Chapter  Google Scholar 

  • Landry, B.S., Kesseli, R., Leung, H. and Michelmore, R.W. (1987) Comparison of restriction endonucleases and sources of probes for their efficiency in detecting restriction fragment length polymorphisms in lettuce (Lactuca sativa L.). Theor. Appl. Genet. 74: 646–653.

    Article  CAS  Google Scholar 

  • Lewin, B. (1990) Genes IV. Oxford University Press, Oxford.

    Google Scholar 

  • Lewis, H. (1962) Catastrophic selection as a factor in speciation. Evolution 16: 257–271.

    Article  Google Scholar 

  • Lewis, H. (1966) Speciation in flowering plants. Science 152: 167–172.

    Article  PubMed  CAS  Google Scholar 

  • Liu, Y.G., Mori, N. and Tsuenewaki, K. (1990) Restriction fragment length polymorphism (RFLP) analysis of wheat. I. Genomic DNA library construction and RFLP analysis in common wheat. Jpn. J. Genet. 65: 367–380.

    Article  PubMed  CAS  Google Scholar 

  • Loveless, M.D. and Hamrick, J.L. (1984) Ecological determinants of genetic structure in plant populations. Ann. Rev. Ecol. Syst. 15: 65–95.

    Article  Google Scholar 

  • Lynch, M. (1988) Estimation of relatedness by DNA fingerprinting. Mol. Biol. Evol. 5: 584–599.

    PubMed  CAS  Google Scholar 

  • Lynch, M. (1990) The similarity index and DNA fingerprinting. Mol. Biol. Evol. 7: 478–484.

    PubMed  CAS  Google Scholar 

  • Lynch, M. (1991) Analysis of population genetic structure by DNA fingerprinting. In: T. Burke, G. Dolf, A.J. Jeffreys and R. Wolff (eds.), DNA Fingerprinting: Approaches and Applications, pp. 113–126. Birkhäuser Verlag, Basel, Switzerland.

    Chapter  Google Scholar 

  • McClean, P.E. and Hanson, M.R. (1986) Mitochondrial DNA sequence divergence among Lycopersicon and related Solanum species. Genetics 112: 649–667.

    PubMed  CAS  Google Scholar 

  • McCouch, S.R., Kochert, G., Yu, Z.H., Wang, Z.Y., Khush, G.S., Coffman, W.R. and Tanksley, S.D. (1988) Molecular mapping of rice chromosomes. Theor. Appl. Genet. 76: 815–829.

    Article  CAS  Google Scholar 

  • McGrath, J.M. and Quiros, C.F. (1991) Inheritance of isozyme and RFLP markers in Brassica campestris and comparison with B. oleracea. Theor. Appl. Genet. 82: 668–673.

    Article  CAS  Google Scholar 

  • McGrath, J.M. and Quiros, C.F. (1992) Genetic diversity at isozyme and RFLP loci in Brassica campestris as related to crop type and geographical origin. Theor. Appl. Genet. 83: 783–790.

    Article  CAS  Google Scholar 

  • Miller, J.C. and Tanksley, S.D. (1990a) Effect of different restriction enzymes, probe source, and probe length on detecting restriction fragment length polymorphism in tomato. Theor. Appl. Genet. 80: 385–389.

    CAS  Google Scholar 

  • Miller, J.C. and Tanksley, S.D. (1990b) RFLP analysis of phylogenetic relationships and genetic variation in the genus Lycopersicon. Theor. Appl. Genet. 80: 437–448.

    CAS  Google Scholar 

  • Miyamoto, M.M. and Cracraft, J. (eds.) (1991) Phylogenetic Analysis of DNA Sequences. Oxford University Press, New York.

    Google Scholar 

  • Morden, C.W., Doebley, J.F. and Schertz, K.F. (1989) Allozyme variation in old world races of Sorghum bicolor (Poaceae). Am. J. Bot. 76: 247–255.

    Article  Google Scholar 

  • Morden, C.W., Doebley, J.F. and Schertz, K.F. (1990) Allozyme variation among the spontaneous species of Sorghum section Sorghum (Poaceae). Theor. Appl. Genet. 80: 296–304.

    Article  Google Scholar 

  • Nason, J.D., Ellstrand, N.C. and Arnold, M.L. (1992) Patterns of hybridization and introgression in populations of oaks, manzanitas, and irises. Am. J. Bot. 79: 101–111.

    Article  Google Scholar 

  • Nei, M. (1978) Estimation of average heterozygosity and genetic distance from a small number of individuals. Genetics 89: 583–590.

    PubMed  CAS  Google Scholar 

  • Nei, M. (1987) Molecular Evolutionary Genetics. Columbia University Press, New York.

    Google Scholar 

  • Nei, M., Tajima, F. and Tateno, Y. (1983) Accuracy of estimated phylogenetic trees from molecular data. II. Gene frequency data. J. Mol. Evol. 19: 153–170.

    Article  PubMed  CAS  Google Scholar 

  • Neuhausen, S.L. (1992) Evaluation of restriction fragment length polymorphism in Cucumis melo. Theor. Appl. Genet. 83: 379–384.

    Article  Google Scholar 

  • Nybom, H. (1990) Genetic variation in ornamental apple trees and their seedlings (Malus ,Rosaceae) revealed by DNA ‘fingerprinting’ with the M13 repeat probe. Hereditas 113: 17–28.

    Article  CAS  Google Scholar 

  • Nybom, H. and Rogstad, S.H. (1990) DNA ’fingerprints’ detect genetic variation in Acer negundo (Aceraceae). Plant Syst. Evol. 173: 49–56.

    Article  CAS  Google Scholar 

  • Nybom, H. and Schaal, B.A. (1990) DNA ‘fingerprints’ reveal genotypic distributions in natural populations of blackberries and raspberries (Rubus ,Rosaceae). Am. J. Bot. 77: 883–888.

    Article  CAS  Google Scholar 

  • Nybom, H., Schaal, B.A. and Rogstad, S.H. (1989) DNA ‘fingerprints’ can distinguish cultivars of blackberries and raspberries. Acta Hort. 262: 305–310.

    Google Scholar 

  • Nybom, H., Rogstad, S.H. and Schaal, B.A. (1990) Genetic variation detected by use of the M13 ‘DNA fingerprint’ probe in Malus, Prunus ,and Rubus (Rosaceae). Theor. Appl. Genet. 79: 153–156.

    Google Scholar 

  • Palmer, J.D. and Zamir, D. (1982) Chloroplast DNA evolution and phylogenetic relationships in Lycopersicon. Proc. Natl. Acad. Sci. U.S.A. 79: 5006–5010.

    Article  PubMed  CAS  Google Scholar 

  • Palmer, J.D., Jansen, R.K., Michaels, H.J., Chase, M.W. and Manhart, J.R. (1988) Chloroplast DNA variation and plant phylogeny. Ann. Missouri Bot. Gard. 75: 1180–1206.

    Article  Google Scholar 

  • Paran, I., Kesseli, R. and Michelmore, R. (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.

    Article  PubMed  CAS  Google Scholar 

  • Paterson, A.H., Damon, S., Hewitt, J.D., Zamir, D., Rabinowitch, H.D., Lincoln, S.E., Lander, E.S. and Tanksley, S.D. (1991) Mendelian factors underlying quantitative traits in tomato: comparison across species, generations and environments. Genetics 127: 181–197.

    PubMed  CAS  Google Scholar 

  • Prakash, S. and Hinata, K. (1980) Taxonomy, cytogenetics, and origin of crop Brassica ,a review. Opera Bot. 55: 1–57.

    Google Scholar 

  • Rhoades, M.M. (1951) Duplicated genes in maize. Am. Nat. 85: 105–110.

    Article  Google Scholar 

  • Riley, H.P. (1938) A character analysis of colonies of Iris fulva and Iris hexagona var. giganticaerulea and natural hybrids. Am. J. Bot. 25: 727–738.

    Article  Google Scholar 

  • Rieseberg, L.H. and Soltis, D.E. (1991) Phylogenetic consequences of cytoplasmic gene flow in plants. Evol. Trends Plants 5: 65–84.

    Google Scholar 

  • Rieseberg, L.H. and Wendel, J.F. (1993) Introgression and its consequences. In: R. Harrison (ed.), Hybrid Zones and the Evolutionary Process, pp. 70–109. Oxford University Press.

    Google Scholar 

  • Rieseberg, L.H. and Brunsfeld, S.J. (1992) Molecular evidence and plant introgression. In: P.S. Soltis, D.E. Soltis and J.J. Doyle (eds.), Molecular Systematics of Plants, pp. 151–201. Chapman and Hall, New York.

    Chapter  Google Scholar 

  • Rieseberg, L.H., Choi, H., Chan, R. and Spore, CD. (1993) Genomic map of a diploid hybrid species. Heredity 70: 285–293.

    Article  CAS  Google Scholar 

  • Ritter, E., Gebhardt, G. and Salamini, F. (1990) Estimation of recombination frequencies and construction of RFLP linkage maps in plants from crosses between heterozygous parents. Genetics 125: 645–654.

    PubMed  CAS  Google Scholar 

  • Rogstad, S.H., Patton, J.C. and Schaal, B.A. (1988) A human minisatellite probe reveals RFLPs among individuals of two angiosperms. Nucl. Acids Res. 16: 11378.

    Article  PubMed  CAS  Google Scholar 

  • Rogstad, S.H., Nybom, H.‘and Schaal, B.A. (1991a) The tetrapod ’DNA fingerprintingM13 repeat probe reveals genetic diversity and clonal growth in quaking aspen (Populus tremuloides, Salicaceae). Plant Syst. Evol. 175: 115–123.

    Article  CAS  Google Scholar 

  • Rogstad, S.H., Wolff, K. and Schaal, B.A. (1991b) Geographical variation in Asimina triloba Dunal (Annonaceae) revealed by the M13 ‘DNA fingerprinting’ probe. Am. J. Bot. 78: 1391–1396.

    Article  Google Scholar 

  • Ryskov, A.P., Jincharadze, A.G., Prosnyak, M.I., Ivanov, P.L. and Limborska, S.A. (1988) M13 phage DNA as a universal marker for DNA fingerprinting of animals, plants and microorganisms. FEBS Lett. 233: 388–392.

    Article  PubMed  CAS  Google Scholar 

  • Sambrook, J., Fritsch, E.F. and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.

    Google Scholar 

  • Shattuck-Eidens, D.M., Bell, R.N., Neuhausen, S.L. and Helentjaris, T. (1990) DNA sequence variation within maize and melon: observations from polymerase chain reaction amplification and direct sequencing. Genetics 126: 207–217.

    PubMed  CAS  Google Scholar 

  • Slocum, M.K., Figdore, S.S., Kennard, W.C., Suzuki, J.Y. and Osborn, T.C. (1990) Linkage arrangement of restriction fragment length polymorphism loci in Brassica oleracea. Theor. Appl. Genet. 80: 57–64.

    Article  CAS  Google Scholar 

  • Smith, G.P. (1976) Evolution of repeated DNA sequences by unequal crossover. Science 191: 528–535.

    Article  PubMed  CAS  Google Scholar 

  • Smith, J.S.C. and Smith, O.S. (1991) Restriction fragment length polymorphisms can differentiate among U.S. maize hybrids. Crop Sci. 31: 893–899.

    Google Scholar 

  • Soltis, D.E. and Soltis, P.S. (eds.) (1989) Isozymes in Plant Biology. Dioscorides Press, Portland, OR.

    Google Scholar 

  • Soltis, D.E., Soltis, P.S. and Milligan, B.G. (1992a) Intraspecific chloroplast DNA variation: systematic and phylogenetic implications. In: P.S. Soltis, D.E. Soltis and J.J. Doyle (eds.), Molecular Systematics of Plants, pp. 117–150. Chapman and Hall, New York.

    Chapter  Google Scholar 

  • Soltis, P.S., Soltis, D.E. and Doyle, J.J. (eds.) (1992b) Molecular Systematics of Plants. Chapman and Hall, New York.

    Google Scholar 

  • Song, K.M., Osborn, T.C. and Williams, P.H. (1988) Brassica taxonomy based on nuclear restriction fragment length polymorphisms (RFLPs). 1. Genome evolution of diploid and amphidiploid species. Theor. Appl. Genet. 75: 784–794.

    Article  CAS  Google Scholar 

  • Song, K.M., Osborn, T.C. and Williams, P.H. (1990) Brassica taxonomy based on nuclear restriction fragment length polymorphisms (RFLPs). 3. Genome relationships in Brassica and related genera and the origin of B. oleracea and B. rapa (syn. campestris). Theor. Appl. Genet. 79: 497–506.

    Article  Google Scholar 

  • Song, K.M., Suzuki, J.Y., Slocum, M.K., Williams, P.H. and Osborn, T.C. (1991) A linkage map of Brassica rapa (syn. campestris) based on restriction fragment length polymorphism loci. Theor. Appl. Genet. 82: 296–304.

    Article  CAS  Google Scholar 

  • Stebbins, G.L. (1971) Chromosomal Evolution in Higher Plants. Edward Arnold, London.

    Google Scholar 

  • Stephens, S.G. (1949) The cytogenetics of speciation in Gossypium. I. Selective elimination of the donor parent genotype in interspecific backcrosses. Genetics 34: 627–637.

    Google Scholar 

  • Stephens, S.G. (1950) The internal mechanism of speciation in Gossypium. Bot. Rev. 16: 115–149

    Article  Google Scholar 

  • Swofford, D.L. and Olsen, G.J. (1990) Phylogeny reconstruction. In: D.M. Hillis and C. Moritz (eds.), Molecular Systematics, pp. 411–501. Sinauer Associates, Inc., Sunderland, MA.

    Google Scholar 

  • Tanksley, S.D., Bernatzky, R., Lapitan, N.L. and Prince, J.P. (1988) Conservation of gene repertoire but not gene order in pepper and tomato. Proc. Natl. Acad. Sci. U.S.A. 85: 6419–6423.

    Article  PubMed  CAS  Google Scholar 

  • Tautz, D. (1989) Hypervariability of simple sequences as a general source for polymorphic DNA markers. Nucl. Acids Res. 17: 6463–6471.

    Article  PubMed  CAS  Google Scholar 

  • Tautz, D. and Renz, M. (1984) Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucl. Acids Res. 17: 6463–6471.

    Article  Google Scholar 

  • Ting, Y.C. (1966) Duplications and meiotic behavior of the chromosomes in haploid maize (Zea mays L.). Cytologia 31: 324–329.

    Article  Google Scholar 

  • U, N. (1935) Genome analysis in Brassica with special reference to the experimental formation of B. napus and peculiar mode of fertilization. Jpn. J. Bot. 7: 389–452.

    Google Scholar 

  • Van de Ven, M., Powell, W., Ramsay, G. and Waugh, R. (1990) Restriction fragment length polymorphisms as genetic markers in Vicia. Heredity 65: 329–342.

    Article  Google Scholar 

  • Van Heusden, A.W. and Bachmann, K. (1992) Genotype relationships in Microseris elegans (Asteraceae, Lactuceae) revealed by DNA amplification from arbitrary primers (RAPDs). Plant Syst. Evol. 179: 221–233.

    Article  Google Scholar 

  • Van Houten, W.H.J., van Heusden, A.W., Rouppe, J., Voort, V.D., Raijmann, L. and Bachmann, K. (1991) Hypervariable DNA fingerprint loci in Microseris pygmaea (Asteraceae, Lactuceae). Bot. Acta 104: 252–265.

    Google Scholar 

  • Vassart, G., Georges, M., Monsieur, R., Brocas, H., Lequarre, A.S. and Christophe, D. (1987) A sequence in M13 phage detects hypervariable minisatellite in human and animal DNA. Science 235: 683–684.

    Article  PubMed  CAS  Google Scholar 

  • Walsh, J.B. (1987) Persistence of tandem arrays: implications for satellite and simple-sequence DNA. Genetics 115: 553–567.

    PubMed  CAS  Google Scholar 

  • Weeden, N.F., Muehlbauer, F.J. and Ladizinsky, J. (1992) Extensive conservation of linkage relationships between pea and lentil genetic maps. J. Hered. 83: 123–129.

    Google Scholar 

  • Weir, B.S. (1990a) Genetic Data Analysis. Sinauer Associates, Inc., Sunderland, MA.

    Google Scholar 

  • Weir, B.S. (1990b) Intraspecific differentiation. In: D.M. Hillis and C. Moritz (eds.), Molecular Systematics, pp. 373–410. Sinauer Associates, Inc. Sunderland, MA.

    Google Scholar 

  • Wendel, J.F., Stuber, C.W., Goodman, M.M. and Beckett, J.B. (1989) Duplicated plastid and triplicated cytosolic isozymes of triosephosphate isomerase in maize (Zea mays L.). J. Hered. 80: 218–228.

    PubMed  CAS  Google Scholar 

  • Wilde, J., Waugh, R. and Powell, W. (1992) Genetic fingerprinting of Theobroma clones using random amplified polymorphic DNA markers. Theor. Appl. Genet. 83: 871–877.

    Article  CAS  Google Scholar 

  • Williams, J.G.K., Kubelik, A.R., Livak, K.J., Rafalski, J.A. and Tingey, S.V. (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucl. Acids Res. 18: 6531–6535.

    Article  PubMed  CAS  Google Scholar 

  • Whitkus, R., Doebley, J. and Lee, M. (1992) Comparative genome mapping of sorghum and maize. Genetics 132: 1119–1130.

    PubMed  CAS  Google Scholar 

  • Zimmerman, P.A., Lang-Unnasch, N. and Cullis, C.A. (1989) Polymorphic regions in plant genomes detected by an M13 probe. Genome 32: 824–828.

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Department of Botany and Plant Sciences, University of California, Riverside, CA, 92521, USA

    Richard Whitkus

  2. Department of Plant Biology, University of Minnesota, St. Paul, MN, 55108, USA

    John Doebley

  3. Department of Botany, Iowa State University, Ames, IA, 50011, USA

    Jonathan F. Wendel

Authors
  1. Richard Whitkus
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. John Doebley
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Jonathan F. Wendel
    View author publications

    You can also search for this author in PubMed Google Scholar

Editor information

Editors and Affiliations

  1. Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota, 55108-6026, USA

    Ronald L. Phillips

  2. Laboratory of Plant Cell and Molecular Biology, University of Florida, Gainesville, Florida, 32611-0690, USA

    Indra K. Vasil

Rights and permissions

Reprints and permissions

Copyright information

© 1994 Springer Science+Business Media Dordrecht

About this chapter

Cite this chapter

Whitkus, R., Doebley, J., Wendel, J.F. (1994). Nuclear DNA markers in systematics and evolution. In: Phillips, R.L., Vasil, I.K. (eds) DNA-based markers in plants. Advances in Cellular and Molecular Biology of Plants, vol 1. Springer, Dordrecht. https://doi.org/10.1007/978-94-011-1104-1_6

Download citation

  • DOI: https://doi.org/10.1007/978-94-011-1104-1_6

  • Publisher Name: Springer, Dordrecht

  • Print ISBN: 978-94-010-4482-0

  • Online ISBN: 978-94-011-1104-1

  • eBook Packages: Springer Book Archive

Publish with us

Policies and ethics

Search

Navigation