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  The genome of the recently domesticated crop plant sugar beet (Beta vulgaris)

Dohm, J., Minoche, A. E., Holtgräwe, D., Capella-Gutiérrez, S., Zakrzewski, F., Tafer, H., et al. (2014). The genome of the recently domesticated crop plant sugar beet (Beta vulgaris). Nature, 505(7484), 546-549. doi: 10.1038/nature12817.

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2013-12-18
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Dohm, Juliane1, 2, Author              
Minoche, André E.2, Author
Holtgräwe, Daniela3, Author
Capella-Gutiérrez, Salvador 2, Author
Zakrzewski, Falk4, Author
Tafer, Hakim5, Author
Rupp, Oliver2, Author
Rosleff Sörensen, Thomas2, Author
Stracke, Ralf2, Author
Reinhardt, Richard6, Author
Goesmann, Alexander2, Author
Kraft, Thomas7, Author
Schulz, Britta8, Author
Stadler, Peter5, Author              
Schmidt, Thomas4, Author
Gabaldón, Toni2, Author
Lehrach, Hans1, Author              
Weisshaar, Bernd2, Author
Himmelbauer, Heinz1, Author              
Affiliations:
1Dept. of Vertebrate Genomics (Head: Hans Lehrach), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_1433550              
2Centre for Genomic Regulation (CRG), C. Dr. Aiguader 88, 08003 Barcelona, Spain, ou_persistent22              
3Bielefeld University, CeBiTec and Department of Biology, Universitätsstraße 25, 33615 Bielefeld, Germany, ou_persistent22              
4TU Dresden, Department of Biology, Zellescher Weg 20b, 01217 Dresden, Germany, ou_persistent22              
5University of Leipzig, Department of Computer Science, Härtelstraße 16-18, 04107 Leipzig, Germany, ou_persistent22              
6Max Planck Genome Centre Cologne, Carl-von-Linné-Weg 10, 50829 Köln, Germany, ou_persistent22              
7Syngenta, Box 302, 26123 Landskrona, Sweden, ou_persistent22              
8KWS SAAT AG, Grimsehlstraße 31, 37574 Einbeck, Germany, ou_persistent22              

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 Abstract: Sugar beet (Beta vulgaris ssp. vulgaris) is an important crop of temperate climates which provides nearly 30% of the world's annual sugar production and is a source for bioethanol and animal feed. The species belongs to the order of Caryophylalles, is diploid with 2n = 18 chromosomes, has an estimated genome size of 714-758 megabases and shares an ancient genome triplication with other eudicot plants. Leafy beets have been cultivated since Roman times, but sugar beet is one of the most recently domesticated crops. It arose in the late eighteenth century when lines accumulating sugar in the storage root were selected from crosses made with chard and fodder beet. Here we present a reference genome sequence for sugar beet as the first non-rosid, non-asterid eudicot genome, advancing comparative genomics and phylogenetic reconstructions. The genome sequence comprises 567 megabases, of which 85% could be assigned to chromosomes. The assembly covers a large proportion of the repetitive sequence content that was estimated to be 63%. We predicted 27,421 protein-coding genes supported by transcript data and annotated them on the basis of sequence homology. Phylogenetic analyses provided evidence for the separation of Caryophyllales before the split of asterids and rosids, and revealed lineage-specific gene family expansions and losses. We sequenced spinach (Spinacia oleracea), another Caryophyllales species, and validated features that separate this clade from rosids and asterids. Intraspecific genomic variation was analysed based on the genome sequences of sea beet (Beta vulgaris ssp. maritima; progenitor of all beet crops) and four additional sugar beet accessions. We identified seven million variant positions in the reference genome, and also large regions of low variability, indicating artificial selection. The sugar beet genome sequence enables the identification of genes affecting agronomically relevant traits, supports molecular breeding and maximizes the plant's potential in energy biotechnology.

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Language(s): eng - English
 Dates: 2013-10-292013-12-182014-01-23
 Publication Status: Published in print
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 Rev. Type: -
 Identifiers: DOI: 10.1038/nature12817
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Title: Nature
Source Genre: Journal
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Publ. Info: London : Nature Publishing Group
Pages: - Volume / Issue: 505 (7484) Sequence Number: - Start / End Page: 546 - 549 Identifier: ISSN: 0028-0836
CoNE: https://pure.mpg.de/cone/journals/resource/954925427238