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New Technologies for Ultrahigh-Throughput Genotyping in Plant Taxonomy

  • David Edwards
  • Manuel Zander
  • Jessica Dalton-Morgan
  • Jacqueline Batley
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1115)

Abstract

Molecular genetic markers represent one of the most powerful tools for the analysis of variation between plant genomes. Molecular marker technology has developed rapidly over the last decade, with the introduction of new DNA sequencing methods and the development of high-throughput genotyping methods. Single nucleotide polymorphisms (SNPs) now dominate applications in modern plant genetic analysis. The reducing cost of DNA sequencing and increasing availability of large sequence data sets permit the mining of this data for large numbers of SNPs. These may then be used in applications such as genetic linkage analysis and trait mapping, diversity analysis, association studies, and marker-assisted selection. Here we describe automated methods for the discovery of SNP molecular markers and new technologies for high-throughput, low-cost molecular marker genotyping. Examples include SNP discovery using autoSNPdb and wheatgenome.info as well as SNP genotyping using Illumina’s GoldenGate™ and Infinium™ methods.

Key words

autoSNP autoSNPdb Wheatgenome.info Infinium™ Single nucleotide polymorphism SNP SNPlex™ 

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Copyright information

© Springer New York 2014

Authors and Affiliations

  • David Edwards
    • 1
    • 2
  • Manuel Zander
    • 1
    • 2
    • 3
  • Jessica Dalton-Morgan
    • 1
    • 3
  • Jacqueline Batley
    • 1
    • 3
  1. 1.School of Agriculture and Food SciencesUniversity of QueenslandBrisbaneAustralia
  2. 2.Australian Centre for Plant Functional Genomics, School of Land Crop and Food SciencesUniversity of QueenslandBrisbaneAustralia
  3. 3.ARC Centre for Integrated Legume ResearchUniversity of QueenslandBrisbaneAustralia

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