Skip to main content
SpringerLink
Log in

The analysis of simple repeat loci as applied in evolutionary and behavioral sciences

  • Chapter
Book cover Molecular Ecology and Evolution: Approaches and Applications

Part of the book series: Experientia Supplementum ((EXS,volume 69))

Summary

This chapter describes several aspects of tandemly organized, simple repetitive DNA sequences and their’ usefulness for genetic relationship analyses. After introducing the structure, the evolution and the biological meaning of such target sequences in a particularly well-studied gene, we discuss oligonucleotide probes for generating individual specific multilo-cus banding patterns. Thus, oligonucleotide fingerprinting allows to approach novel problems in behavioral sciences. Here, we use a passerine bird, the great tit (Parus major) as an example. Finally, genomic fingerprinting is compared to sensitive amplification methods requiring less DNA. Advantages and shortcomings of these techniques need to be evaluated in the context of the biological question(s) asked and, above all, the quality and quantity of the starting material.

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 84.99
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 109.99
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.

References

  • Alatalo, R.V., Gustafsson, L. and Lundberg, A. (1984) High frequency of cuckoldry in pied and collared flycatchers. Oikos 42: 41–47.

    Article  Google Scholar 

  • Alatalo, R.V., Gustafsson, L. and Lundberg, A. (1989) Extra-pair paternity and heritability estimates of tarsus length in pied and collared flycatchers. Oikos 56: 54–58.

    Article  Google Scholar 

  • Ali, S., Müller, C.R. and Epplen, J.T. (1986) DNA fingerprinting by oligonucleotide probes specific for simple repeats. Hum. Genet. 74: 239–243.

    Article  PubMed  CAS  Google Scholar 

  • Andersson, G., Larhammar, D., Widmark, E., Servenius, B., Peterson, P.A. and Rask, L. (1987) Class II genes of the major histocompatibility complex: organization and evolutionary relationship of the DRB genes. J. Biol. Chem. 262: 8748–8758.

    PubMed  CAS  Google Scholar 

  • Ammer, H., Schwaiger, F.-W., Kammerbauer, C., Gomolka, M., Arriens, A., Lazary, S. and Epplen, J.T. (1992) Exonic polymorphism versus intronic simple repeat hypervariability in MHC-DRB-genes. Immunogenet. 32: 330–337.

    Google Scholar 

  • Birkhead, T.R. and Møller, A.P. (1992) Sperm competition in birds; Evolutionary causes and consequences. Academic Press, London, New York.

    Google Scholar 

  • Bjerke, T., Espmark, Y. and Fonstad, T. (1985) Nest defense and parental investment in the redwing Turdus iliacus. Omis scand. 16: 14–19.

    Article  Google Scholar 

  • Brook, J.D., McCurrach, M.E., Harley, H.G., Buckler, A.J., Church, D., Aburatani, H., Hunter, K., Stanton, V.P., Thirion, J.P., Hudson, T., Sohn, R., Zemelmann, B., Snell, R.G., Rundle, S.A., Crow, S., Davies, J., Shelbourne, P., Buxton, J., Jones, C., Juvonen, V., Johnson, K., Harper, P.S., Shaw, D.J. and Housman, D.E. (1992) Molecular basis of myotonic dystrophy: expansion of a trinucleotide repeat at the 3’ end of a transcript encoding a protein kinase family member. Cell 68: 799–808.

    Article  PubMed  CAS  Google Scholar 

  • Buitkamp, J., Schwaiger, F.-W. and Epplen, J.T. (1993) Vb6 T-cell receptor elements in artiodactyls: Conservation and germline polymorphisms. Mamm. Genome 4: 504–510.

    Article  PubMed  CAS  Google Scholar 

  • Dawkins, R. and Carlisle, T.R. (1976) Parental investment, mate desertion and a fallacy. Nature 262: 131–133.

    Article  Google Scholar 

  • Epplen, J.T., Ammer, H., Epplen, C., Kammerbauer, C., Mitreiter, R., Roewer, L., Schwaiger, W., Steimle, V., Zischler, H., Albert, E., Andreas, E., Beyermann, B., Meyer, W., Buitkamp, J., Nanda, I., Schmid, M., Nürnberg, P., Pena, S.D.J., Pöche, H., Sprecher, W., Schartl, M., Weising, K. and Yassouridis, A. (1991) Oligonucleotide fingerprinting using simple repeat motifs: A convenient, ubiquitously applicable method to detect hyper-variability for multiple purposes. In: T. Burke, G. Dolf, A.J. Jeffreys, R. Wolff (eds): DNA fingerprinting: Approaches and applications, Birkhäuser Verlag, Basel, pp. 50–69.

    Chapter  Google Scholar 

  • Epplen, J.T. (1992) The methodology of multilocus DNA fingerprinting using radioactive or nonradioactive oligonucleotide probes specific for simple repeat motifs. In: A. Chrambach, M.J. Dunn, B.J. Radola (eds): Advances in Electrophoresis, Vol. 5., VCH, Weinheim, pp. 59–112.

    Google Scholar 

  • Evarts, S. and Williams, C.J. (1987) Multiple paternity in a wild population of mallards. Auk. 104: 597–602.

    Google Scholar 

  • Fitch, D.H.A., Mainone, C., Goodman, M. and Slightom, J.L. (1990) Molecular history of gene conversion in the primate fetal g-globin genes. J. Biol. Chem. 265: 781–793.

    PubMed  CAS  Google Scholar 

  • Georges, M., Drinkwater, R., King, T., Mishra, A., Moore, S.S., Nielsen, D., Sargeant, L.S., Sorensen, A., Steele, M.R., Zhao, X., Womack, J.E. and Hetzel, J. (1993) Microsatellite mapping of a gene affecting horn development in Bos taurus. Nature Genetics 4: 206–210.

    Article  CAS  Google Scholar 

  • Greig-Smith, P.W. (1980) Parental investment in nest defence by stonechats (Saxicola torquata), Anim. Behav. 28: 604–619.

    Article  Google Scholar 

  • Groenen, M.A.M., van der Poel, J.J., Dijkhof, R.J.M., and Giphart, R.J. (1990) The nucleotide sequence of bovine MHC class II DQB and DRB genes. Immunogenet. 31: 37–44.

    Article  CAS  Google Scholar 

  • Hadrys, H., Balick, M., Schierwater, B. (1992) Applications of random amplified polymorphic DNA (RAPD) in molecular ecology. Mol. Ecol. 1: 55–63.

    Article  PubMed  CAS  Google Scholar 

  • Hungtington’s Disease Collaborative Research Group (1993) A novel gene containing a trinucleotide repeat that is expanded and unstable on Huntington’s disease chromosomes. Cell 72: 971–983.

    Article  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 

  • Kremer, E.J., Pritchard, M., Lynch, M., Yu, S., Holman, K., Baker, E., Warren, S.T., Schlessinger, D., Sutherland, G.R. and Richards, R.I. (1991) Mapping of DNA instability at the fragile X to a trinucloetide repeat sequence p(CCG)n. Science 252: 1711–1714.

    Article  PubMed  CAS  Google Scholar 

  • La Spada, A.R., Wilson, E.M., Lubahn, D.B., Harding, A.E. and Fischbeck, K.H. (1991) Androgen receptor gene mutations in X-linked spinal and bulbar muscular atrophy. Nature 352: 77–79.

    Article  PubMed  Google Scholar 

  • Lifjeld, J.T. and Slagsvold, T. (1989) How frequent is cuckoldry in pied flycatchers Ficedula hypoleuca? — Problems with the use of heritability estimates of tarsus length. Oikos 54: 205–210.

    Article  Google Scholar 

  • Lubjuhn, T., Curio, E., Muth, S.C., Brün, J. and Epplen, J.T. (1993a) Influence of extra-pair paternity on parental care in great tits (Parus major). In: S.D.J. Pena, R. Chakraborty, J.T. Epplen and A.J. Jeffreys (eds): DNA fingerprinting: State of the science. Birkhäuser Verlag, Basel, pp. 379–386.

    Chapter  Google Scholar 

  • Lubjuhn, T., Epplen, C., Brün, J. and Epplen, J.T. (1993b) Multilocus fingerprinting using oligonucleotide probes reveals a highly polymorphic single locus system in great tits (Parus major). Mol. Ecol. 2: 260–270.

    Article  Google Scholar 

  • Mäueler, W., Frank, G., Siedlaczck, I., Epplen, J.T. and Meimer, G. (1992) PCR amplification products are of limited use for the study of DNA/protein interaction. Electrophoresis 13:641–643.

    Article  PubMed  Google Scholar 

  • Melmer, G. and Epplen, J.T. (1993) Catching genes in the “genomic desert” with short synthetic oligonucleotide probes. In: B.J. Radola (ed.): Advances in Electrophoresis, Vol. 6., VCH, Weinheim, pp. 1–87.

    Google Scholar 

  • Ohno, S. (1972) Evolutional reason for having so much junk DNA. In: R.A. Pfeiffer (ed.): Modern aspects of cytogenetics: constitutive hetero chromatin in man. FK Schattauer. Stuttgart, pp. 169–180.

    Google Scholar 

  • Regelmann, K. and Curio, E. (1983) Determinants of brood defence in the great tit Parus major L. Behav. Ecol. Sociobiol. 13: 131–145.

    Article  Google Scholar 

  • Rieß, O., Kammerbauer, C., Roewer, L., Steimle, V., Andreas, A., Albert, E., Nagai, T. and Epplen, J.T. (1990) Hypervariability of intronic simple (gt)n(ga)m repeats in HLA-DRB genes. Immunogenet. 32: 110–116.

    Article  Google Scholar 

  • Schwaiger, F.-W., Weyers, E., Epplen, C., Brün, J., Ruff, G., Crawford, A., Epplen, J.T. (1993) The paradox of MHC-DRB exon/intron evolution: α-helix and β-sheet encoding regions diverge while hypervariable intronic simple repeats co-evolve with β sheet codons. J. Mol. Evol. 37: 260–272.

    Article  PubMed  CAS  Google Scholar 

  • Sherman, P.W. and Morton, M.L. (1988) Extra-pair fertilizations in mountain white-crowned sparrows. Behav. Ecol. Sociobiol. 22: 413–420.

    Article  Google Scholar 

  • Stallings, R.L., Ford, A.F., Nelson, D., Torney, D.C., Hildebrandt, C.E. and Moyzis, R.K. (1991) Evolution and distribution of (GT)n repetitive sequences in human genomes. Genomics 10: 807–815.

    Article  PubMed  CAS  Google Scholar 

  • Valdes, A.M., Slatkin, M. and Freimer, N.B. (1993) Allele frequencies at microsatellite loci: the stepwise mutation model revisited. Genetics 133: 737–749.

    PubMed  CAS  Google Scholar 

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

    Article  PubMed  CAS  Google Scholar 

  • Vergnaud, G., Mariat, D., Zoroastro, M. and Lauthier, V. (1991) Detection of single and multiple polymorphic loci by synthetic tandem repeats of short oligonucleotides. Electrophoresis 12: 134–140.

    Article  PubMed  CAS  Google Scholar 

  • Weber, J.L. and May, P.E. (1989) Abundant class of human DNA polymorphism which can be typed using the polymerase chain reaction. Am. J. Hum. Genet. 445: 388–396.

    Google Scholar 

  • Weber, J.L. (1990) Informativeness of human (dC-dA)n · (dG-dT)n polymorphisms. Genomics 7: 524–530.

    Article  PubMed  CAS  Google Scholar 

  • Weissenbach, J., Gyapay, G., Dib, C., Vignal, A., Morisette, J., Millasseau, P., Vaysseix, G. and Lathrop, M. (1992) A second-generation linkage map of the human genome. Nature 359: 794–801.

    Article  PubMed  CAS  Google Scholar 

  • Westneat, D.F. (1987) Extra-pair fertilizations in a predominantly monogamous bird: genetic evidence. Anim. Behav. 35: 877–886.

    Article  Google Scholar 

  • Wiklund, C.G. and Stigh, J. (1983) Nest defence and evolution of reversed sexual size dimorphism in snowy owls Nyctea scandiaca. Omis Scand. 14: 58–62.

    Article  Google Scholar 

  • Wiklund, C.G. (1990) Offspring protection by merlin Falco columbarius females; the importance of brood size and expected offspring survival for defense of young. Behav. Ecol. Sociobiol. 26: 217–223.

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Arbeitsgruppe für Verhaltensforschung/Fakultät für Biologie, Ruhr-Universität, D-44780, Bochum, Germany

    T. Lubjuhn

  2. Molecular Human Genetics, Ruhr-Universität, D-44780, Bochum, Germany

    F.-W. Schwaiger & J. T. Epplen

Authors
  1. T. Lubjuhn
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. F.-W. Schwaiger
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. J. T. Epplen
    View author publications

    You can also search for this author in PubMed Google Scholar

Editor information

Editors and Affiliations

  1. Zoologisches Institut, Universität Frankfurt, Siesmayerstr. 70, D-60054, Frankfurt, Germany

    B. Schierwater  & B. Streit  & 

  2. Department of Biology, Yale University, 165 Prospect St., New Haven, CT, 06511, USA

    G. P. Wagner

  3. Department of Entomology, American Museum of Natural History, 79th Street at Central Park West, New York, NY, 10024, USA

    R. DeSalle

Rights and permissions

Reprints and permissions

Copyright information

© 1994 Springer Basel AG

About this chapter

Cite this chapter

Lubjuhn, T., Schwaiger, FW., Epplen, J.T. (1994). The analysis of simple repeat loci as applied in evolutionary and behavioral sciences. In: Schierwater, B., Streit, B., Wagner, G.P., DeSalle, R. (eds) Molecular Ecology and Evolution: Approaches and Applications. Experientia Supplementum, vol 69. Birkhäuser, Basel. https://doi.org/10.1007/978-3-0348-7527-1_3

Download citation

  • DOI: https://doi.org/10.1007/978-3-0348-7527-1_3

  • Publisher Name: Birkhäuser, Basel

  • Print ISBN: 978-3-0348-7529-5

  • Online ISBN: 978-3-0348-7527-1

  • eBook Packages: Springer Book Archive

Publish with us

Policies and ethics

Search

Navigation