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Related Experiment Videos

Sequence-specific amplification polymorphisms (SSAPs): a multi-locus approach for analyzing transposon insertions.

Naeem H Syed1, Andrew J Flavell

  • 1Plant Research Unit, University of Dundee at SCRI, Invergowrie, Dundee DD2 5DA, UK.

Nature Protocols
|April 5, 2007
PubMed
Summary
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Sequence-specific amplification polymorphisms (SSAPs) use transposable elements as molecular markers for DNA fingerprinting. This method is adaptable across species and yields results within two weeks.

Area of Science:

  • Molecular Biology
  • Genetics
  • Genomics

Background:

  • Transposable elements are mobile genetic sequences found throughout genomes.
  • Their random insertion patterns can serve as unique molecular markers.
  • Developing efficient methods for their utilization is crucial for genetic studies.

Purpose of the Study:

  • To detail the methodology for developing Sequence-specific Amplification Polymorphisms (SSAPs) markers.
  • To provide practical guidance and experimental parameters for SSAP marker development.
  • To highlight the applicability of SSAP markers across diverse species, particularly plants.

Main Methods:

  • SSAP markers are developed by amplifying DNA regions flanking transposable elements.
  • This involves using a primer specific to the transposable element and another primer at a restriction site in the adjacent genomic DNA.

Related Experiment Videos

  • Amplified fragments are visualized as bands using gel electrophoresis or capillary electrophoresis.

    • Main Results:

    • The SSAP technique generates a characteristic banding pattern (fingerprint) for each genomic DNA sample.
    • The study provides recommendations for experimental parameters optimized for several plant species.
    • The entire SSAP marker development procedure can be completed within approximately 1-2 weeks.

    Conclusions:

    • SSAP marker development is a versatile and efficient method applicable to any species.
    • This technique offers a rapid approach to DNA fingerprinting and genetic analysis using transposable elements.
    • The described protocol facilitates the use of SSAP markers in various research applications, including population genetics and marker-assisted selection.