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  Multiple reference genomes and transcriptomes for Arabidopsis thaliana

Gan, X., Stegle, O., Behr, J., Steffen, J., Drewe, P., Hildebrand, K., et al. (2011). Multiple reference genomes and transcriptomes for Arabidopsis thaliana. Nature, 477(7365), 419-423. doi:10.1038/nature10414.

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Gan, XC, Author
Stegle, O1, 2, Author              
Behr, J3, Author              
Steffen, JG, Author
Drewe, P3, Author              
Hildebrand, KL, Author
Lyngsoe , R, Author
Schultheiss, SJ3, Author              
Osborne, EJ, Author
Sreedharan, VT3, Author              
Kahles, A3, Author              
Bohnert, R3, Author              
Jean, G3, Author              
Derwent, P, Author
Kersey, P, Author
Belfield, EJ, Author
Harberd, NP, Author
Kemen, F, Author
Toomajian, C, Author
Kover , PX, Author
Clark, RM, AuthorRätsch, G3, Author              Mott, R, Author more..
Affiliations:
1Max Planck Institute for Intelligent Systems, Max Planck Society, Heisenbergstr. 3 70569 Stuttgart , DE, ou_1497638              
2Max Planck Institute for Developmental Biology, Max Planck Society, Max-Planck-Ring 5, 72076 Tübingen, DE, ou_2421691              
3Friedrich Miescher Laboratory, Max Planck Society, Max-Planck-Ring 9, 72076 Tübingen, DE, ou_2575692              

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 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.

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 Dates: 2011-09
 Publication Status: Published in print
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 Rev. Type: -
 Identifiers: DOI: 10.1038/nature10414
BibTex Citekey: GanSBSDHLSOSKBJDKBHKTKCRM2011
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Title: Nature
  Abbreviation : Nature
Source Genre: Journal
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Publ. Info: London : Nature Publishing Group
Pages: - Volume / Issue: 477 (7365) Sequence Number: - Start / End Page: 419 - 423 Identifier: ISSN: 0028-0836
CoNE: https://pure.mpg.de/cone/journals/resource/954925427238