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Next-generation sequencing of flow-sorted wheat chromosome 5D reveals lineage-specific translocations and widespread gene duplications
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SYSNO ASEP 0441332 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Next-generation sequencing of flow-sorted wheat chromosome 5D reveals lineage-specific translocations and widespread gene duplications Author(s) Lucas, S. J. (TR)
Akpinar, B. A. (TR)
Šimková, Hana (UEB-Q) RID, ORCID
Kubaláková, Marie (UEB-Q) RID
Doležel, Jaroslav (UEB-Q) RID, ORCID
Budak, H. (TR)Source Title BMC Genomics. - : BioMed Central - ISSN 1471-2164
Roč. 15, DEC 9 2014 (2014)Number of pages 18 s. Language eng - English Country GB - United Kingdom Keywords Wheat genome ; Chromosome sorting ; Triticum aestivum Subject RIV EB - Genetics ; Molecular Biology R&D Projects GBP501/12/G090 GA ČR - Czech Science Foundation (CSF) Institutional support UEB-Q - RVO:61389030 UT WOS 000347572200001 DOI 10.1186/1471-2164-15-1080 Annotation Background: The similar to 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 1.34x and 1.61x coverage of the short (5DS) and long (5DL) arms of the chromosome respectively. By a combination of sequence similarity and assembly-based methods, similar to 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. Workplace Institute of Experimental Botany Contact David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469 Year of Publishing 2015
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