• Open Access

Sequencing and assembly of low copy and genic regions of isolated Triticum aestivum chromosome arm 7DS

Authors

  • Paul J. Berkman,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Adam Skarshewski,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Michał T. Lorenc,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Kaitao Lai,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Chris Duran,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Edmund Y.S. Ling,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Jiri Stiller,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Lars Smits,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Michael Imelfort,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Sahana Manoli,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Megan McKenzie,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Marie Kubaláková,

    1. Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic
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  • Hana Šimková,

    1. Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic
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  • Jacqueline Batley,

    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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  • Delphine Fleury,

    1. Australian Centre for Plant Functional Genomics, University of Adelaide, Glen Osmond, Australia
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  • Jaroslav Doležel,

    1. Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic
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  • David Edwards

    Corresponding author
    1. School of Land, Crop and Food Sciences and Australian Centre for Plant Functional Genomics, University of Queensland, Brisbane, QLD, Australia
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(fax +61 (0) 7 3365 1176; email Dave.Edwards@uq.edu.au)

Summary

The genome of bread wheat (Triticum aestivum) is predicted to be greater than 16 Gbp in size and consist predominantly of repetitive elements, making the sequencing and assembly of this genome a major challenge. We have reduced genome sequence complexity by isolating chromosome arm 7DS and applied second-generation technology and appropriate algorithmic analysis to sequence and assemble low copy and genic regions of this chromosome arm. The assembly represents approximately 40% of the chromosome arm and all known 7DS genes. Comparison of the 7DS assembly with the sequenced genomes of rice (Oryza sativa) and Brachypodium distachyon identified large regions of conservation. The syntenic relationship between wheat, B. distachyon and O. sativa, along with available genetic mapping data, has been used to produce an annotated draft 7DS syntenic build, which is publicly available at http://www.wheatgenome.info. Our results suggest that the sequencing of isolated chromosome arms can provide valuable information of the gene content of wheat and is a step towards whole-genome sequencing and variation discovery in this important crop.

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