A Sequence-Ready Physical Map of Barley Anchored Genetically by Two Million Single-Nucleotide Polymorphisms

Ruvini Ariyadasa, Martin Mascher, Thomas Nussbaumer, Daniela Schulte, Zeev Frenkel, Naser Poursarebani, Ruonan Zhou, Burkhard Steuernagel, Heidrun Gundlach, Stefan Taudien, Marius Felder, Matthias Platzer, Axel Himmelbach, Thomas Schmutzer, Pete E. Hedley, Gary J. Muehlbauer, Uwe Scholz, Abraham Korol, Klaus F.X. Mayer, Robbie WaughPeter Langridge, Andreas Graner, Nils Stein

    Research output: Contribution to journalArticle

    58 Citations (Scopus)

    Abstract

    Barley (Hordeum vulgare) is an important cereal crop and a model species for Triticeae genomics. To lay the foundation for hierarchical map-based sequencing, a genome-wide physical map of its large and complex 5.1 billion-bp genome was constructed by high-information content fingerprinting of almost 600,000 bacterial artificial chromosomes representing 14-fold haploid genome coverage. The resultant physical map comprises 9,265 contigs with a cumulative size of 4.9 Gb representing 96% of the physical length of the barley genome. The reliability of the map was verified through extensive genetic marker information and the analysis of topological networks of clone overlaps. A minimum tiling path of 66,772 minimally overlapping clones was defined that will serve as a template for hierarchical clone-by-clone map-based shotgun sequencing. We integrated whole-genome shotgun sequence data from the individuals of two mapping populations with published bacterial artificial chromosome survey sequence information to genetically anchor the physical map. This novel approach in combination with the comprehensive whole-genome shotgun sequence data sets allowed us to independently validate and improve a previously reported physical and genetic framework. The resources developed in this study will underpin fine-mapping and cloning of agronomically important genes and the assembly of a draft genome sequence.

    Original languageEnglish
    Pages (from-to)412-423
    Number of pages12
    JournalPlant Physiology
    Volume164
    Issue number1
    DOIs
    Publication statusPublished - 7 Jan 2014

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    Ariyadasa, R., Mascher, M., Nussbaumer, T., Schulte, D., Frenkel, Z., Poursarebani, N., Zhou, R., Steuernagel, B., Gundlach, H., Taudien, S., Felder, M., Platzer, M., Himmelbach, A., Schmutzer, T., Hedley, P. E., Muehlbauer, G. J., Scholz, U., Korol, A., Mayer, K. F. X., ... Stein, N. (2014). A Sequence-Ready Physical Map of Barley Anchored Genetically by Two Million Single-Nucleotide Polymorphisms. Plant Physiology, 164(1), 412-423. https://doi.org/10.1104/pp.113.228213