Optical Nano-mapping and Analysis of Plant Genomes

  • Ming-Cheng Luo
  • Karin R. Deal
  • Armond Murray
  • Tingting Zhu
  • Alex R. Hastie
  • Will Stedman
  • Henry Sadowski
  • Michael Saghbini
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 1429)

Abstract

Application of optical mapping based on BioNano Genomics Irys® technology (http://www.bionanogenomics.com/) is growing rapidly since its debut in November 2012. The technology can be used to facilitate genome sequence assembly and analysis of genome structural variations. We describe here the detailed protocol that we used to generate a whole genome BioNano map for Aegilops tauschii, the D genome progenitor of hexaploid wheat (Triticum aestivum). We are using the whole genome BioNano map to validate sequence assembly based on the next-generation sequencing, order sequence scaffolds, and ultimately build pseudomolecules for the genome.

Key words

BioNano genome map Optical mapping Physical map 

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Copyright information

© Springer Science+Business Media New York 2016

Authors and Affiliations

  • Ming-Cheng Luo
    • 1
  • Karin R. Deal
    • 1
  • Armond Murray
    • 1
  • Tingting Zhu
    • 1
  • Alex R. Hastie
    • 2
  • Will Stedman
    • 2
  • Henry Sadowski
    • 2
  • Michael Saghbini
    • 2
  1. 1.Department of Plant SciencesUniversity of CaliforniaDavisUSA
  2. 2.BioNano GenomicsSan DiegoUSA

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