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Related Experiment Videos

SNPWave: a flexible multiplexed SNP genotyping technology.

Michiel J T van Eijk1, José L N Broekhof, Hein J A van der Poel

  • 1Keygene NV, Agro Business Park 90, PO Box 216, 6700 AE Wageningen, The Netherlands. michiel.van-eijk@keygene.com

Nucleic Acids Research
|March 9, 2004
PubMed
Summary

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SNPWave offers a scalable, cost-effective solution for large-scale single nucleotide polymorphism (SNP) genotyping. This novel technology enables flexible detection of diverse sequence subsets using multiplexed ligation and selective amplification.

Area of Science:

  • Molecular Biology
  • Genetics
  • Biotechnology

Background:

  • Cost-effective, large-scale genotyping of genetic markers like single nucleotide polymorphisms (SNPs) requires scalable multiplexed amplification technologies.
  • Existing methods may lack the flexibility and cost-efficiency needed for widespread application in genetic studies.

Purpose of the Study:

  • To introduce SNPWave, a novel SNP genotyping technology designed for flexible and cost-effective large-scale genotyping.
  • To demonstrate the capability of SNPWave in detecting various subsets of sequences within a fixed detection format.

Main Methods:

  • SNPWave utilizes highly multiplexed ligation followed by amplification of up to 20 ligated probes in a single polymerase chain reaction (PCR).
  • Selective amplification is employed using amplified fragment length polymorphism (AFLP) technology, with multiplexing levels adjusted based on ligation reaction complexity.

Related Experiment Videos

  • Detection of amplified products is achieved through size separation on a sequencing instrument, incorporating multiple fluorescence labels for efficient analysis.

    • Main Results:

    • The SNPWave technique was successfully applied to a 100-plex genotyping assay in Arabidopsis.
    • A 40-plex assay for tomato and a 10-plex assay for Caenorhabditis elegans were also demonstrated using SNPWave.
    • All assays were effectively detected on the MegaBACE 1000 capillary sequencer, showcasing short run times and high multiplexing capabilities.

    Conclusions:

    • SNPWave provides a scalable and flexible platform for high-throughput SNP genotyping.
    • The technology enables cost-effective analysis of genetic markers across different species, facilitating large-scale genetic studies.
    • SNPWave's performance on diverse organisms highlights its potential for broad application in genomics research.