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

International Barley Genome Sequencing Consortium

Research output: Contribution to journalArticleResearchpeer-review

870 Citations (Scopus)

Abstract

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.

Original languageEnglish
Pages (from-to)711-716
Number of pages6
JournalNature
Volume491
DOIs
Publication statusPrint publication - 29 Nov 2012
Externally publishedYes

Fingerprint

Hordeum
Genome
Plant Genome
Nonsense Codon
Haploidy
Firearms
Alternative Splicing
Diploidy
Genes
Nucleotides
Complementary DNA
Research

Keywords

  • Alternative splicing
  • Codon
  • Crops
  • Gene expression regulation,
  • Genomics
  • Hordeum
  • Repetitive sequences
  • DNA sequence analysis

Cite this

International Barley Genome Sequencing Consortium (2012). A physical, genetic and functional sequence assembly of the barley genome. Nature, 491, 711-716. https://doi.org/10.1038/nature11543
International Barley Genome Sequencing Consortium. / A physical, genetic and functional sequence assembly of the barley genome. In: Nature. 2012 ; Vol. 491. pp. 711-716.
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abstract = "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.",
keywords = "Alternative splicing, Codon, Crops, Gene expression regulation,, Genomics, Hordeum, Repetitive sequences, DNA sequence analysis",
author = "Mayer, {Klaus F X} and Robbie Waugh and Brown, {John W S} and Alan Schulman and Peter Langridge and Matthias Platzer and Fincher, {Geoffrey B} and Muehlbauer, {Gary J} and Kazuhiro Sato and Close, {Timothy J} and Wise, {Roger P} and Nils Stein and {International Barley Genome Sequencing Consortium}",
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International Barley Genome Sequencing Consortium 2012, 'A physical, genetic and functional sequence assembly of the barley genome', Nature, vol. 491, pp. 711-716. https://doi.org/10.1038/nature11543

A physical, genetic and functional sequence assembly of the barley genome. / International Barley Genome Sequencing Consortium.

In: Nature, Vol. 491, 29.11.2012, p. 711-716.

Research output: Contribution to journalArticleResearchpeer-review

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.

KW - Alternative splicing

KW - Codon

KW - Crops

KW - Gene expression regulation,

KW - Genomics

KW - Hordeum

KW - Repetitive sequences

KW - DNA sequence analysis

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International Barley Genome Sequencing Consortium. A physical, genetic and functional sequence assembly of the barley genome. Nature. 2012 Nov 29;491:711-716. https://doi.org/10.1038/nature11543