Unlocking the barley genome by chromosomal and comparative genomics

Klaus F X Mayer, Mihaela Martis, Pete E. Hedley, Hana Šimková, Hui Liu, Jenny A. Morris, Burkhard Steuernagel, Stefan Taudien, Stephan Roessner, Heidrun Gundlach, Marie Kubaláková, Pavla Suchánková, Florent Murat, Marius Felder, Thomas Nussbaumer, Andreas Graner, Jerome Salse, Takashi Endo, Hiroaki Sakai, Tsuyoshi TanakaTakeshi Itoh, Kazuhiro Sato, Matthias Platzer, Takashi Matsumoto, Uwe Scholz, Jaroslav Doležel, Robbie Waugh, Nils Stein

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326 Citations (Scopus)

Abstract

We used a novel approach that incorporated chromosome sorting, next-generation sequencing, array hybridization, and systematic exploitation of conserved synteny with model grasses to assign;86% of the estimated;32,000 barley (Hordeum vulgare) genes to individual chromosome arms. Using a series of bioinformatically constructed genome zippers that integrate gene indices of rice (Oryza sativa), sorghum (Sorghum bicolor), and Brachypodium distachyon in a conserved synteny model, we were able to assemble 21,766 barley genes in a putative linear order. We show that the barley (H) genome displays a mosaic of structural similarity to hexaploid bread wheat (Triticum aestivum) A, B, and D subgenomes and that orthologous genes in different grasses exhibit signatures of positive selection in different lineages. We present an ordered, information-rich scaffold of the barley genome that provides a valuable and robust framework for the development of novel strategies in cereal breeding.

Original languageEnglish
Pages (from-to)1249-1263
Number of pages15
JournalPlant Cell
Volume23
Issue number4
DOIs
Publication statusPublished - Apr 2011

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ASJC Scopus subject areas

  • Plant Science
  • Cell Biology

Cite this

Mayer, K. F. X., Martis, M., Hedley, P. E., Šimková, H., Liu, H., Morris, J. A., Steuernagel, B., Taudien, S., Roessner, S., Gundlach, H., Kubaláková, M., Suchánková, P., Murat, F., Felder, M., Nussbaumer, T., Graner, A., Salse, J., Endo, T., Sakai, H., ... Stein, N. (2011). Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell, 23(4), 1249-1263. https://doi.org/10.1105/tpc.110.082537