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

Klaus F. X. Mayer (1) , Robbie Waugh (2) , Peter Langridge (3) , Timothy J. Close , Roger P. Wise (4) , Andreas Graner (5) , Takashi Matsumoto (6) , Kazuhiro Sato (7) , Alan Schulman (8) , Gary J. Muehlbauer (9) , Nils Stein (5) , Ruvini Ariyadasa (5) , Daniela Schulte (5) , Naser Poursarebani (5) , Ruonan Zhou (5) , Burkhard Steuernagel (5) , Martin Mascher (5) , Uwe Scholz (5) , Bujun Shi , Peter Langridge (3) , Kavitha Madishetty , Jan T. Svensson , Prasanna Bhat , Matthew Moscou , Josh Resnik , Timothy J. Close , Gary J. Muehlbauer (9) , Pete Hedley (2) , Hui Liu (2) , Jenny Morris (2) , Robbie Waugh (2) , Zeev Frenkel (10) , Avraham Korol , Hélène Berges , Andreas Graner (5) , Nils Stein (5) , Burkhard Steuernagel (5) , Stefan Taudien , Marco Groth , Marius Felder , Matthias Platzer , John W. S. Brown , Alan Schulman (8, 8) , Matthias Platzer , Geoffrey B. Fincher , Gary J. Muehlbauer (9) , Kazuhiro Sato (7) , Stefan Taudien , Dharanya Sampath , David Swarbreck , Simone Scalabrin , Andrea Zuccolo , Vera Vendramin , Michele Morgante , Klaus F. X. Mayer (1) , Alan Schulman (8, 8)

1 MIPS/IBIS
2 The James Hutton Institute
3 University of Adelaide
4 ISU - Iowa State University
5 Leibniz Institute of Plant Genetics and Crop Plant Research
6 Natl Inst Agrobiol Sci
7 Okayama University
8 Helsingin yliopisto = Helsingfors universitet = University of Helsinki
9 UMN - University of Minnesota [Twin Cities]
10 Inst Evolut

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.

Mots clés: MESSENGER-RNA DECAY; MILDEW RESISTANCE LOCUS; HORDEUM-VULGARE L.; NONCODING RNAS; MAP; ARABIDOPSIS; REVEALS

Mots clés: EVOLUTION; EXPRESSION; RICE

Domaines: Sciences du Vivant [q-bio]

Klaus F. X. Mayer, Robbie Waugh, Peter Langridge, Timothy J. Close, Roger P. Wise, et al.. A physical, genetic and functional sequence assembly of the barley genome. Nature, 2012, 491 (7426), pp.711 - +. ⟨10.1038/nature11543⟩. ⟨hal-02652608⟩