2. Whole-Genome Sequencing for Marker Discovery

  1. Robert J. Henry
  1. Mark Edwards

Published Online: 10 OCT 2012

DOI: 10.1002/9781118473023.ch2

Molecular Markers in Plants

Molecular Markers in Plants

How to Cite

Edwards, M. (2012) Whole-Genome Sequencing for Marker Discovery, in Molecular Markers in Plants (ed R. J. Henry), Blackwell Publishing Ltd., Oxford, UK. doi: 10.1002/9781118473023.ch2

Editor Information

  1. Queensland Alliance for Agriculture and Food Innovation, University of Queensland, Brisbane, Queensland, Australia

Author Information

  1. Southern Cross Plant Sciences, Southern Cross University, Lismore, Australia

Publication History

  1. Published Online: 10 OCT 2012
  2. Published Print: 3 DEC 2012

ISBN Information

Print ISBN: 9780470959510

Online ISBN: 9781118473023



  • whole-genome sequencing in facilitating marker discovery;
  • SGS sequencing, short length reads as problems in genome;
  • sequencing/plant related “omics,” for attaining gains;
  • third-generation sequencing, or SMS for very long reads;
  • comparative with “genome partitioning,” or “genomic capture”;
  • targeted, barcode/index sequences, to library molecules;
  • SGS and large data volume, short sequence reads and low cost;
  • mRNA expression, on SGS, biomarker/whole-genome resequencing;
  • third-generation SMS, epigenetic, GS for GEBVs and low cost;
  • Ion Torrent and Pacific Biosciences systems, SMRT technology


This chapter contains sections titled:

  • Sequencing Strategies

  • Sequencing Technologies

  • Epigenetic Markers

  • Genome-Wide Selection

  • Data Analysis Resources

  • References