A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome

Jarrod A. Chapman, Martin Mascher, Aydin Buluç, Kerrie Barry, Evangelos Georganas, Adam Session, Veronika Strnadova, Jerry Jenkins, Sunish Sehgal, Leonid Oliker, Jeremy Schmutz, Katherine A. Yelick, Uwe Scholz, Robbie Waugh, Jesse A. Poland, Gary J. Muehlbauer, Nils Stein, Daniel S. Rokhsar (Lead / Corresponding author)

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    Abstract

    Polyploid species have long been thought to be recalcitrant to whole-genome assembly. By combining high-throughput sequencing, recent developments in parallel computing, and genetic mapping, we derive, de novo, a sequence assembly representing 9.1 Gbp of the highly repetitive 16 Gbp genome of hexaploid wheat, Triticum aestivum, and assign 7.1 Gb of this assembly to chromosomal locations. The genome representation and accuracy of our assembly is comparable or even exceeds that of a chromosome-by-chromosome shotgun assembly. Our assembly and mapping strategy uses only short read sequencing technology and is applicable to any species where it is possible to construct a mapping population.

    Original languageEnglish
    Article number26
    Pages (from-to)1-17
    Number of pages17
    JournalGenome Biology
    Volume16
    Issue number1
    DOIs
    Publication statusPublished - 31 Jan 2015

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    Chapman, J. A., Mascher, M., Buluç, A., Barry, K., Georganas, E., Session, A., Strnadova, V., Jenkins, J., Sehgal, S., Oliker, L., Schmutz, J., Yelick, K. A., Scholz, U., Waugh, R., Poland, J. A., Muehlbauer, G. J., Stein, N., & Rokhsar, D. S. (2015). A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome. Genome Biology, 16(1), 1-17. [26]. https://doi.org/10.1186/s13059-015-0582-8