Abstract
A combination of advanced sequencing and mapping techniques is used to produce a reference genome of Aegilops tauschii, progenitor of the wheat D genome, providing a valuable resource for comparative genetic studies.
Highlights
Aegilops tauschii is the diploid progenitor of the D genome of hexaploid wheat[1] (Triticum aestivum, genomes AABBDD) and an important genetic resource for wheat[2,3,4]
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
Summary
Polymorphism among the three genotypes did not prevent contig alignments but was sufficient to alter the locations of some of the fragile sites The use of these two additional BNG maps improved the ordering and orienting of super-scaffolds on the pseudomolecules, leaving only 16 (5.6%) of the 283 super-scaffolds unordered (Extended Data Fig. 1f, step 2). The user can use the name and look up the gene in the HCC gene colinearity database (Supplementary Data 1) or click on the ‘download sequence’ icon and download sequence including the SSR of selected length for primer design or BLAST searches in wheat or Ae. tauschii. A database was created via a homology search of amino acid sequences of the HCC gene set 2.0 on the Ae. tauschii pseudomolecules (query) and amino acid sequences of all genes in B. distachyon, v3.1, rice, v7.0, and sorghum, v3.1, genome sequences, using BLASTP at an E-value of 10−5 (subjects). A database showing colinearity of each of the 38,775 Ae. tauschii HCC genes and those along the B. distachyon, rice, and sorghum pseudomolecules is in
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