First Survey of the Wheat Chromosome 5A Composition through a Next Generation Sequencing Approach

0366036 - ÚEB 2012 RIV US eng J - Journal Article
Vitulo, N. - Albiero, A. - Forcato, C. - Šimková, Hana - Kubaláková, Marie - Perrotta, G. - Doležel, Jaroslav - Cattivelli, L. … Total 21 authors
First Survey of the Wheat Chromosome 5A Composition through a Next Generation Sequencing Approach.
PLoS ONE. Roč. 6, č. 10 (2011), s. 1-14. ISSN 1932-6203. E-ISSN 1932-6203
R&D Projects: GA MŠMT ED0007/01/01
Institutional research plan: CEZ:AV0Z50380511
Keywords : wheat chromosome 5A * Chromosome arm sorting * DNA amplification
Subject RIV: EB - Genetics ; Molecular Biology
Impact factor: 4.092, year: 2011

Wheat is one of the world’s most important crops and is characterized by a large polyploid genome. One way to reduce genome complexity is to isolate single chromosomes using flow cytometry. Low coverage DNA sequencing can provide a snapshot of individual chromosomes, allowing a fast characterization of their main features and comparison with other genomes. We used massively parallel 454 pyrosequencing to obtain a 2x coverage of wheat chromosome 5A. The resulting sequence assembly was used to identify TEs, genes and miRNAs, as well as to infer a virtual gene order based on the synteny with other grass genomes. Repetitive elements account for more than 75% of the genome. Gene content was estimated considering non-redundant reads showing at least one match to ESTs or proteins. The results indicate that the coding fraction represents 1.08% and 1.3% of the short and long arm respectively, projecting the number of genes of the whole chromosome to approximately 5,000.
Permanent Link: http://hdl.handle.net/11104/0201136