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

作者：Klaus Mayer, Thomas Nussbaumer, Heidrun Gundlach, Mihaela Martis, M. Spannagl, Matthias Pfeifer, Robbie Waugh, Pete E. Hedley, Hui Liu, Jenny Morris, Joanne Russell, Arnis Druka, David Marshall, Micha Bayer, John W. Brown, Peter Langridge, Bu-Jun Shi, Timothy J. Close, Kavitha Madishetty, Prasanna R. Bhat, Matthew Moscou, Josh Resnik, Steve Wanamaker, Steve Wannamaker, Roger P. Wise, Andreas Graner, Nils Stein, Ruvini Ariyadasa, Daniela Schulte, Naser Poursarebani, Ruonan Zhou, Burkhard Steuernagel, Martin Mascher, Uwe Scholz, Axel Himmelbach, Thomas Schmutzer, Takashi Matsumoto, Tsuyoshi Tanaka, Kazuhiro Sato, Alan H. Schulman, Cédric Moisy, Jaakko Tanskanen, Gary J. Muehlbauer, Zeev Frenkel, A. Korol, Hélène Bergès, Stefan Taudien, Marius Felder, Marco Groth, Matthias Platzer, Stefano Lonardi, Denisa Duma, Matthew Alpert, Francesa Cordero, Marco Beccuti, Gianfranco Ciardo, Yaqin Ma, Federica Cattonaro, Simone Scalabrin, Michele Morgante, Andrea Zuccolo, Vera Vendramin, Slobodanka Radović, Rod Wing, Jesse Poland, David Swarbreck, Dharanya Sampath, Sarah Ayling, Melanie Febrer, Mario Cáccamo, Fincher Gt · 发表于：Nature · 年份：2012 · DOI：10.1038/nature11543 · 被引用次数：1514 · 研究领域：Wheat and Barley Genetics and Pathology、Genetic Mapping and Diversity in Plants and Animals、Plant Disease Resistance and Genetics

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. An integrated high-resolution genetic, physical and shotgun sequence assembly of the barley genome, one of the earliest domesticated and most important crops, is described; it will provide a platform for genome-assisted research and future crop improvement. Two groups in this issue report the compilation and analysis of the genome sequences of major cereal crops — bread wheat and barley — providing important resources for...