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

by Strnadova, Veronika , Georganas, Evangelos , Schmutz, Jeremy , Scholz, Uwe , Chapman, Jarrod A , Jenkins, Jerry , Muehlbauer, Gary J , Stein, Nils , Poland, Jesse A , Rokhsar, Daniel S , Waugh, Robbie , Barry, Kerrie , Buluç, Aydın , Session, Adam , Yelick, Katherine A , Oliker, Leonid , Mascher, Martin , Sehgal, Sunish

in Barley / Bioinformatics / Bread / Chromosome Mapping / Chromosomes / Cloning / Contig Mapping / Deoxyribonucleic acid / DNA / DNA, Complementary - genetics / Gene mapping / Genetic Linkage / Genetic Variation / Genome, Plant / Genomes / Homozygote / Next-generation sequencing / Nucleotides - genetics / Parameter estimation / Polyploidy / Population / Reproducibility of Results / Sequence Analysis, DNA - methods / Triticum - genetics

2015

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

2015

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

2015

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Journal Article

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

Strnadova, Veronika,

Georganas, Evangelos,

Schmutz, Jeremy,

Scholz, Uwe,

Chapman, Jarrod A,

Jenkins, Jerry,

Muehlbauer, Gary J,

Stein, Nils,

Poland, Jesse A,

Rokhsar, Daniel S,

Waugh, Robbie,

Barry, Kerrie,

Buluç, Aydın,

Session, Adam,

Yelick, Katherine A,

Oliker, Leonid,

Mascher, Martin,

Sehgal, Sunish

2015

Overview

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.

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Publisher

Springer Nature B.V

Subject

/ Bread

/ Cloning