A physical, genetic and functional sequence assembly of the barley genome

TY - JOUR

T1 - A physical, genetic and functional sequence assembly of the barley genome

AU - Mayer, Klaus F. X.

AU - Waugh, Robbie

AU - Brown, John W. S.

AU - Schulman, Alan

AU - Langridge, Peter

AU - Platzer, Matthias

AU - Fincher, Geoffrey B.

AU - Muehlbauer, Gary J.

AU - Sato, Kazuhiro

AU - Close, Timothy J.

AU - Wise, Roger P.

AU - Stein, Nils

AU - International Barley Genome Sequencing Consortium

PY - 2012/11/29

Y1 - 2012/11/29

N2 - Barley (Hordeum vulgare L.) is among the world's earliest domesticated and most important crop plants. It is diploid with a large haploid genome of 5.1 gigabases (Gb). Here we present an integrated and ordered physical, genetic and functional sequence resource that describes the barley gene-space in a structured whole-genome context. We developed a physical map of 4.98?Gb, with more than 3.90?Gb anchored to a high-resolution genetic map. Projecting a deep whole-genome shotgun assembly, complementary DNA and deep RNA sequence data onto this framework supports 79,379 transcript clusters, including 26,159 'high-confidence' genes with homology support from other plant genomes. Abundant alternative splicing, premature termination codons and novel transcriptionally active regions suggest that post-transcriptional processing forms an important regulatory layer. Survey sequences from diverse accessions reveal a landscape of extensive single-nucleotide variation. Our data provide a platform for both genome-assisted research and enabling contemporary crop improvement.

AB - Barley (Hordeum vulgare L.) is among the world's earliest domesticated and most important crop plants. It is diploid with a large haploid genome of 5.1 gigabases (Gb). Here we present an integrated and ordered physical, genetic and functional sequence resource that describes the barley gene-space in a structured whole-genome context. We developed a physical map of 4.98?Gb, with more than 3.90?Gb anchored to a high-resolution genetic map. Projecting a deep whole-genome shotgun assembly, complementary DNA and deep RNA sequence data onto this framework supports 79,379 transcript clusters, including 26,159 'high-confidence' genes with homology support from other plant genomes. Abundant alternative splicing, premature termination codons and novel transcriptionally active regions suggest that post-transcriptional processing forms an important regulatory layer. Survey sequences from diverse accessions reveal a landscape of extensive single-nucleotide variation. Our data provide a platform for both genome-assisted research and enabling contemporary crop improvement.

U2 - 10.1038/nature11543

DO - 10.1038/nature11543

M3 - Article

C2 - 23075845

VL - 491

SP - 711

EP - 716

JO - Nature

JF - Nature

IS - 7426

ER -