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The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements
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SYSNO ASEP 0446962 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements Author(s) Akpinar, B.A. (TR)
Magni, F. (IT)
Yuce, M. (TR)
Lucas, S. J. (TR)
Šimková, Hana (UEB-Q) RID, ORCID
Šafář, Jan (UEB-Q) RID, ORCID
Vautrin, S. (FR)
Berges, H. (FR)
Cattonaro, F. (IT)
Doležel, Jaroslav (UEB-Q) RID, ORCID
Budak, H. (TR)Source Title BMC Genomics. - : BioMed Central - ISSN 1471-2164
Roč. 16, JUN 13 (2015)Number of pages 16 s. Language eng - English Country US - United States Keywords Triticum aestivum ; 5DS ; Hexaploid wheat Subject RIV EB - Genetics ; Molecular Biology R&D Projects GBP501/12/G090 GA ČR - Czech Science Foundation (CSF) LO1204 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) Institutional support UEB-Q - RVO:61389030 UT WOS 000356031200001 DOI 10.1186/s12864-015-1641-y Annotation Background: The substantially large bread wheat genome, organized into highly similar three sub-genomes, renders genomic research challenging. The construction of BAC-based physical maps of individual chromosomes reduces the complexity of this allohexaploid genome, enables elucidation of gene space and evolutionary relationships, provides tools for map-based cloning, and serves as a framework for reference sequencing efforts. In this study, we constructed the first comprehensive physical map of wheat chromosome arm 5DS, thereby exploring its gene space organization and evolution. Results: The physical map of 5DS was comprised of 164 contigs, of which 45 were organized into 21 supercontigs, covering 176 Mb with an N50 value of 2,173 kb. Fifty-eight of the contigs were larger than 1 Mb, with the largest contig spanning 6,649 kb. A total of 1,864 molecular markers were assigned to the map at a density of 10.5 markers/Mb, anchoring 100 of the 120 contigs (>5 clones) that constitute similar to 95 % of the cumulative length of the map. Ordering of 80 contigs along the deletion bins of chromosome arm 5DS revealed small-scale breaks in syntenic blocks. Analysis of the gene space of 5DS suggested an increasing gradient of genes organized in islands towards the telomere, with the highest gene density of 5.17 genes/Mb in the 0.67-0.78 deletion bin, 1.4 to 1.6 times that of all other bins. Conclusions: Here, we provide a chromosome-specific view into the organization and evolution of the D genome of bread wheat, in comparison to one of its ancestors, revealing recent genome rearrangements. The high-quality physical map constructed in this study paves the way for the assembly of a reference sequence, from which breeding efforts will greatly benefit. Workplace Institute of Experimental Botany Contact David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469 Year of Publishing 2016
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