Abstract

BackgroundDemocratising the growing body of whole genome sequencing data available for Triticum aestivum (bread wheat) has been impeded by the lack of a genome reference and the large computational requirements for analysing these data sets.ResultsDAWN (Diversity Among Wheat geNomes) integrates data from the T. aestivum Chinese Spring (CS) IWGSC RefSeq v1.0 genome with public WGS and exome data from 17 and 62 accessions respectively, enabling researchers and breeders alike to investigate genotypic differences between wheat accessions at the level of whole chromosomes down to individual genes.ConclusionsUsing DAWN we show that it is possible to visualise small and large chromosomal deletions, identify haplotypes at a glance and spot the consequences of selective breeding. DAWN allows us to detect the break points of alien introgression segments brought into an accession when transferring desired genes. Furthermore, we can find possible explanations for reduced recombination in parts of a chromosome, we can predict regions with linkage drag, and also look at diversity in centromeric regions.

Highlights

  • Democratising the growing body of whole genome sequencing data available for Triticum aestivum has been impeded by the lack of a genome reference and the large computational requirements for analysing these data sets

  • Below we present examples to demonstrate the utility of Diversity Among Wheat geNomes (DAWN) in the investigation of genetic diversity among wheat genomes, opportunities for discovery of new alleles or introgression segments as well as its application for marker development and breeding strategies

  • The ability to visualise data from several accessions at once, together with gene expression data, marker information and gene annotations provides a powerful resource for investigating genetic diversity among wheat genomes

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Summary

Results

DAWN (Diversity Among Wheat geNomes) integrates data from the T. aestivum Chinese Spring (CS) IWGSC RefSeq v1.0 genome with public WGS and exome data from 17 and 62 accessions respectively, enabling researchers and breeders alike to investigate genotypic differences between wheat accessions at the level of whole chromosomes down to individual genes

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