Aegilops tauschii Projects

Project Description

To assist the international bread wheat genome sequencing effort, a high quality draft of the genome of Aegilops tauschii, one of the three progenitors of bread wheat, was produced. The large size and great complexity of the Ae. tauschii genome necessitate adopting the ordered-clone sequencing strategy for generating a high-quality genome sequence. This strategy involves the sequencing of about 50,000 bacterial artificial chromosome (BAC) clones harboring large fragments of Ae. tauschii DNA that have been ordered on the Ae. tauschii physical map to represent the contiguous sequence of nucleotides in Ae. tauschii chromosomal DNA. Pools of BAC clones are being sequenced with a next generation DNA sequencing platform and assembled into sequence scaffolds. The correctness of the assembled sequences is validated with a novel optical nanotechnique. Genes and transposable elements in the assembled sequences are being annotated in order to sequence, locate, and orient all genes and transposable elements in the Ae. tauschii genome.

Sequencing the Aegilops tauschii Genome

Project Leaders: Jan Dvorak & Mingcheng Luo, University of California, Davis, US

Publication:

• Genome sequence of the progenitor of the wheat D genome Aegilops tauschii
  Ming-Cheng Luo, Yong Q. Gu, Daniela Puiu, Hao Wang, Sven O. Twardziok, Karin R. Deal, Naxin Huo, Tingting Zhu, Le Wang, Yi Wang, Patrick E. McGuire, Shuyang Liu, Hai Long, Ramesh K. Ramasamy, Juan C. Rodriguez, Sonny L. Van, Luxia Yuan, Zhenzhong Wang, Zhiqiang Xia, Lichan Xiao, Olin D. Anderson, Shuhong Ouyang, Yong Liang, Aleksey V. Zimin, Geo Pertea, Peng Qi, Jeffrey L. Bennetzen, Xiongtao Dai, Matthew W. Dawson, Hans-Georg Müller, Karl Kugler, Lorena Rivarola-Duarte, Manuel Spannagl, Klaus F. X. Mayer, Fu-Hao Lu, Michael W. Bevan, Philippe Leroy, Pingchuan Li, Frank M. You, Qixin Sun, Zhiyong Liu, Eric Lyons, Thomas Wicker, Steven L. Salzberg, Katrien M. Devos & Jan Dvořák
  Nature, 2017
  doi:10.1038/nature24486

Physical Mapping of Aegilops tauschii (Wheat D-Genome)

Project Leader: Jan Dvorak, University of California, Davis, US

Publications:

• Luo, M.-C., Y. Q. Gu, F. M. You, K. R. Deal, Y. Ma, Y. Hu, N. Huo, Y. Wang, J. Wang, S. Chen, C. M. Jorgensen, Y. Zhang, P. E. McGuire, S. Pasternak, J. C. Stein, D. Ware, M. Kramer, W. R. McCombie, S. F. Kianian, M. M. Martis, K. F. X. Mayer, S. K. Sehgal, W. Li, B. S. Gill, M. W. Bevan, H. Šimková, J. Doležel, S. Weining, G. R. Lazo, O. D. Anderson and J. Dvorak (2013). " A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor. " Proceedings of the National Academy of Sciences, 2013.
• Luo M-C, K Xu, Y Ma, KR Deal, CM Nicolet, and J Dvorak. (2009). A high-throughput strategy for screening of bacterial artificial chromosome libraries and anchoring of clones on a genetic map constructed with single nucleotide polymorphisms . BMC Genomics, v.10, 28.
• Luo MC; Ma Y; You FM; Anderson OD; Kopecky D; Simkova H; Safar J; Dolezel J; Gill B; McGuire PE; Dvorak J. (2010). Feasibility of physical map construction from fingerprinted bacterial artificial chromosome libraries of polyploid plant species . BMC Genomics, v.11, 122.