Lucas, S.J., Akpınar, B.A., Šimková, H., Kubaláková, M., Doležel, J., Budak, H.
BMC GENOMICS
15:
1080,
2014
Keywords:
Wheat genome, Chromosome sorting, Triticum aestivum, Genome zipper, Triticeae genome, Chromosome arm shotgun, Comparative grass genomics
Abstract:
Background: The ~17 Gb hexaploid bread wheat genome is a high priority and a major technical challenge for
genomic studies. In particular, the D sub-genome is relatively lacking in genetic diversity, making it both difficult to
map genetically, and a target for introgression of agriculturally useful traits. Elucidating its sequence and structure
will therefore facilitate wheat breeding and crop improvement.
Results: We generated shotgun sequences from each arm of flow-sorted Triticum aestivum chromosome 5D using 454
FLX Titanium technology, giving 1.34× and 1.61× coverage of the short (5DS) and long (5DL) arms of the chromosome
respectively. By a combination of sequence similarity and assembly-based methods, ~74% of the sequence reads were
classified as repetitive elements, and coding sequence models of 1314 (5DS) and 2975 (5DL) genes were generated.
The order of conserved genes in syntenic regions of previously sequenced grass genomes were integrated with
physical and genetic map positions of 518 wheat markers to establish a virtual gene order for chromosome 5D.
Conclusions: The virtual gene order revealed a large-scale chromosomal rearrangement in the peri-centromeric region
of 5DL, and a concentration of non-syntenic genes in the telomeric region of 5DS. Although our data support the
large-scale conservation of Triticeae chromosome structure, they also suggest that some regions are evolving rapidly
through frequent gene duplications and translocations.
Fulltext: contact IEB authors
IEB authors: Jaroslav Doležel,
Marie Kubaláková,
Hana Šimková
Čeština
English