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Related Experiment Videos

Sequence-tagged microsatellite profiling (STMP): a rapid technique for developing SSR markers.

M J Hayden1, P J Sharp

  • 1Plant Breeding Institute, University of Sydney, PMB 11, Camden, NSW 2570, Australia and Quality Wheat CRC, Locked Bag 1345, PO North Ryde, NSW 2113, Australia. matthewh@camden.usyd.edu.au

Nucleic Acids Research
|April 9, 2001
PubMed
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Sequence-tagged microsatellite profiling (STMP) rapidly generates numerous simple sequence repeat (SSR) markers from DNA. This high-throughput method streamlines microsatellite marker development, significantly reducing costs and effort.

Area of Science:

  • Molecular Biology
  • Genomics
  • Plant Science

Background:

  • Microsatellite markers are crucial for genetic studies.
  • Traditional methods for microsatellite marker development are time-consuming and labor-intensive.
  • There is a need for efficient and high-throughput methods to generate microsatellite markers.

Purpose of the Study:

  • To introduce a novel technique, sequence-tagged microsatellite profiling (STMP), for rapid generation of simple sequence repeat (SSR) markers.
  • To demonstrate the efficiency and cost-effectiveness of STMP compared to traditional methods.
  • To develop SSR markers in bread wheat using STMP.

Main Methods:

  • STMP generates sequence tags from SSR-containing fragments in a DNA pool.
  • Tags are ligated into concatemers for cloning and sequencing.

Related Experiment Videos

  • Analysis of tags provides a profile of SSR abundance and frequency.
  • Sequence tags are used to design primers for amplifying SSR loci.

    • Main Results:

    • STMP significantly increases sequencing throughput (approx. 25-fold) compared to traditional methods.
    • The technique allows for the identification of low copy SSR sequences.
    • STMP enables cost-effective development of microsatellite markers by reducing primer synthesis.
    • Successful development of SSR markers in bread wheat was demonstrated.

    Conclusions:

    • STMP is a rapid, efficient, and cost-effective method for generating large numbers of SSR markers.
    • This technique has broad applicability for marker development in various species.
    • STMP simplifies and accelerates genetic research and breeding applications.