Multiple reference genomes and transcriptomes for Arabidopsis thaliana

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Show simple item record Gan, Xiangchao Stegle, Oliver Behr, Jonas Steffen, Joshua G. Drewe, Philipp Hildebrand, Katie L. Lyngsoe, Rune Schultheiss, Sebastian J. Osborne, Edward J. Sreedharan, Vipin T. Kahles, André Bohnert, Regina Jean, Géraldine Derwent, Paul Kersey, Paul Belfield, Eric J. Harberd, Nicholas P. Kemen, Eric Toomajian, Christopher Kover, Paula X. Clark, Richard M. Rätsch, Gunnar Mott, Richard 2014-02-18T22:38:55Z 2014-02-18T22:38:55Z 2014-02-18
dc.description.abstract Genetic differences between Arabidopsis thaliana accessions underlie the plant’s extensive phenotypic variation, and until now these have been interpreted largely in the context of the annotated reference accession Col-0. Here we report the sequencing, assembly and annotation of the genomes of 18 natural A. thaliana accessions, and their transcriptomes. When assessed on the basis of the reference annotation, one-third of protein-coding genes are predicted to be disrupted in at least one accession. However, re-annotation of each genome revealed that alternative gene models often restore coding potential. Gene expression in seedlings differed for nearly half of expressed genes and was frequently associated with cis variants within 5 kilobases, as were intron retention alternative splicing events. Sequence and expression variation is most pronounced in genes that respond to the biotic environment. Our data further promote evolutionary and functional studies in A. thaliana, especially the MAGIC genetic reference population descended from these accessions. en_US
dc.language.iso en_US en_US
dc.relation.uri en_US
dc.rights This paper is distributed under the terms of the Creative Commons Attribution-Non-Commercial-Share Alike licence, and is freely available to all readers at . en_US
dc.subject Arabidopsis thaliana en_US
dc.subject Phenotypic variation en_US
dc.subject Gene expression en_US
dc.title Multiple reference genomes and transcriptomes for Arabidopsis thaliana en_US
dc.type Article (publisher version) en_US 2011 en_US
dc.citation.doi doi:10.1038/nature10414 en_US
dc.citation.epage 423 en_US
dc.citation.issue 7365 en_US
dc.citation.jtitle Nature en_US
dc.citation.spage 419 en_US
dc.citation.volume 477 en_US
dc.contributor.authoreid toomajia en_US

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