A physical, genetic and functional sequence assembly of the barley genome
2012
Mayer, Klaus F. X. | Waugh, Robbie | Langridge, Peter | Close, Timothy J. | Wise, Roger P. | Graner, Andreas | Matsumoto, Takashi | Sato, Kazuhiro | Schulman, Alan | Muehlbauer, Gary J. | Stein, Nils | Ariyadasa, Ruvini | Schulte, Daniela | Poursarebani, Naser | Zhou, Ruonan | Steuernagel, Burkhard | Mascher, Martin | Scholz, Uwe | Shi, Bujun | Langridge, Peter | Madishetty, Kavitha | Svensson, Jan T. | Bhat, Prasanna | Moscou, Matthew | Resnik, Josh | Close, Timothy J. | Muehlbauer, Gary J. | Hedley, Pete | Liu, Hui | Morris, Jenny | Waugh, Robbie | Frenkel, Zeev | Korol, Avraham | Berges, Hélène | Graner, Andreas | Stein, Nils | Steuernagel, Burkhard | Taudien, Stefan | Groth, Marco | Felder, Marius | Platzer, Matthias | Brown, John W. S. | Schulman, Alan | Platzer, Matthias | Fincher, Geoffrey B. | Muehlbauer, Gary J. | Sato, Kazuhiro | Taudien, Stefan | Sampath, Dharanya | Swarbreck, David | Scalabrin, Simone | Zuccolo, Andrea | Vendramin, Vera | Morgante, Michele | Mayer, Klaus F. X. | Schulman, Alan | MIPS/IBIS ; Helmholtz Zentrum München = German Research Center for Environmental Health (HMGU) | The James Hutton Institute | University of Adelaide | Iowa State University (ISU) | Leibniz Institute of Plant Genetics and Crop Plant Research [Gatersleben] (IPK-Gatersleben) | Natl Inst Agrobiol Sci ; Partenaires INRAE | Okayama University | Helsingin yliopisto = Helsingfors universitet = University of Helsinki | University of Minnesota [Twin Cities] (UMN) ; University of Minnesota System (UMN) | Inst Evolut ; Ǧāmiʿat͏̈ Hayfā = University of Haifa | German Ministry of Education and Research (BMBF) [0314000]; Leibniz Association; European project of the 7th framework programme "TriticeaeGenome"; Austrian Wissenschaftsfond (FWF) [SFB F3705]; ERA-NET PG project "BARCODE"; Scottish Government/BBSRC [BB/100663X/1]; National Science Foundation [DBI 0321756, DBI-1062301]; USDA-CSREES-NRI [2006-55606-16722]; Agriculture and Food Research Initiative Plant Genome, Genetics and Breeding Program of USDA-CSREES-NIFA [2009-65300-05645]; BRAIN and NBRP-Japan; Japanese MAFF [TRG1008]
International audience
Show more [+] Less [-]English. 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.
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