A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome

Polyploid species have long been thought to be recalcitrant to whole-genome assembly. By combining high-throughput sequencing, recent developments in parallel computing, and genetic mapping, we derive, de novo, a sequence assembly representing 9.1 Gbp of the highly repetitive 16 Gbp genome of hexapl...

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Detalles Bibliográficos
Autores principales: Chapman, Jarrod A, Mascher, Martin, Buluç, Aydın, Barry, Kerrie, Georganas, Evangelos, Session, Adam, Strnadova, Veronika, Jenkins, Jerry, Sehgal, Sunish, Oliker, Leonid, Schmutz, Jeremy, Yelick, Katherine A, Scholz, Uwe, Waugh, Robbie, Poland, Jesse A, Muehlbauer, Gary J, Stein, Nils, Rokhsar, Daniel S
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2015
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4373400/
https://www.ncbi.nlm.nih.gov/pubmed/25637298
http://dx.doi.org/10.1186/s13059-015-0582-8
Descripción
Sumario:Polyploid species have long been thought to be recalcitrant to whole-genome assembly. By combining high-throughput sequencing, recent developments in parallel computing, and genetic mapping, we derive, de novo, a sequence assembly representing 9.1 Gbp of the highly repetitive 16 Gbp genome of hexaploid wheat, Triticum aestivum, and assign 7.1 Gb of this assembly to chromosomal locations. The genome representation and accuracy of our assembly is comparable or even exceeds that of a chromosome-by-chromosome shotgun assembly. Our assembly and mapping strategy uses only short read sequencing technology and is applicable to any species where it is possible to construct a mapping population. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13059-015-0582-8) contains supplementary material, which is available to authorized users.

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