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Nature. 2017 Nov 23;551(7681):498-502. doi: 10.1038/nature24486. Epub 2017 Nov 15.

Genome sequence of the progenitor of the wheat D genome Aegilops tauschii.

Author information

1
Department of Plant Sciences, University of California, Davis, California, USA.
2
Crop Improvement & Genetics Research, USDA-ARS, Albany, California USA.
3
Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA.
4
Institute of Plant Breeding, Genetics and Genomics, Department of Crop & Soil Sciences, University of Georgia, Athens, Georgia, USA.
5
Department of Plant Biology, University of Georgia, Athens, Georgia, USA.
6
Department of Genetics, University of Georgia, Athens, Georgia, USA.
7
Plant Genome and Systems Biology, Helmholtz Zentrum München, Neuherberg, Germany.
8
China Agricultural University, Beijing, China.
9
Department of Statistics, University of California, Davis, California, USA.
10
School of Life Sciences Weihenstephan, Technical University of Munich, Munich, Germany.
11
Department Cell and Developmental Biology, John Innes Centre, Norwich Research Park, Norwich, UK.
12
INRA, UBP, UMR 1095, GDEC, Clermont-Ferrand, France.
13
Agriculture & Agri-Food Canada, Morden, Winnipeg, Canada.
14
CyVerse, University of Arizona, Tucson, Arizona, USA.
15
Department of Plant and Microbial Biology, University of Zürich, Zürich, Switzerland.
16
Departments of Biomedical Engineering, Computer Science, and Biostatistics, Johns Hopkins University, Baltimore, Maryland, USA.

Abstract

Aegilops tauschii is the diploid progenitor of the D genome of hexaploid wheat (Triticum aestivum, genomes AABBDD) and an important genetic resource for wheat. The large size and highly repetitive nature of the Ae. tauschii genome has until now precluded the development of a reference-quality genome sequence. Here we use an array of advanced technologies, including ordered-clone genome sequencing, whole-genome shotgun sequencing, and BioNano optical genome mapping, to generate a reference-quality genome sequence for Ae. tauschii ssp. strangulata accession AL8/78, which is closely related to the wheat D genome. We show that compared to other sequenced plant genomes, including a much larger conifer genome, the Ae. tauschii genome contains unprecedented amounts of very similar repeated sequences. Our genome comparisons reveal that the Ae. tauschii genome has a greater number of dispersed duplicated genes than other sequenced genomes and its chromosomes have been structurally evolving an order of magnitude faster than those of other grass genomes. The decay of colinearity with other grass genomes correlates with recombination rates along chromosomes. We propose that the vast amounts of very similar repeated sequences cause frequent errors in recombination and lead to gene duplications and structural chromosome changes that drive fast genome evolution.

PMID:
29143815
DOI:
10.1038/nature24486
[Indexed for MEDLINE]

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