The genome of woodland strawberry (Fragaria vesca)

Vladimir Shulaev, Daniel J. Sargent, Ross N. Crowhurst, Todd C. Mockler, Otto Folkerts, Arthur L. Delcher, Pankaj Jaiswal, Keithanne Mockaitis, Aaron Liston, Shrinivasrao P. Mane, Paul Burns, Thomas M. Davis, Janet P. Slovin, Nahla Bassil, Roger P. Hellens, Clive Evans, Tim Harkins, Chinnappa Kodira, Brian Desany, Oswald R. CrastaRoderick V. Jensen, Andrew C. Allan, Todd P. Michael, Joao Carlos Setubal, Jean Marc Celton, D. Jasper G. Rees, Kelly P. Williams, Sarah H. Holt, Juan Jairo Ruiz Rojas, Mithu Chatterjee, Bo Liu, Herman Silva, Lee Meisel, Avital Adato, Sergei A. Filichkin, Michela Troggio, Roberto Viola, Tia Lynn Ashman, Hao Wang, Palitha Dharmawardhana, Justin Elser, Rajani Raja, Henry D. Priest, Douglas W. Bryant, Samuel E. Fox, Scott A. Givan, Larry J. Wilhelm, Sushma Naithani, Alan Christoffels, David Y. Salama, Jade Carter, Elena Lopez Girona, Anna Zdepski, Wenqin Wang, Randall A. Kerstetter, Wilfried Schwab, Schuyler S. Korban, Jahn Davik, Amparo Monfort, Beatrice Denoyes-Rothan, Pere Arus, Ron Mittler, Barry Flinn, Asaph Aharoni, Jeffrey L. Bennetzen, Steven L. Salzberg, Allan W. Dickerman, Riccardo Velasco, Mark Borodovsky, Richard E. Veilleux, Kevin M. Folta

Research output: Contribution to journalArticle

Abstract

The woodland strawberry, Fragaria vesca (2n = 2x = 14), is a versatile experimental plant system. This diminutive herbaceous perennial has a small genome (240 Mb), is amenable to genetic transformation and shares substantial sequence identity with the cultivated strawberry (Fragaria Ã- ananassa) and other economically important rosaceous plants. Here we report the draft F. vesca genome, which was sequenced to ×-39 coverage using second-generation technology, assembled de novo and then anchored to the genetic linkage map into seven pseudochromosomes. This diploid strawberry sequence lacks the large genome duplications seen in other rosids. Gene prediction modeling identified 34,809 genes, with most being supported by transcriptome mapping. Genes critical to valuable horticultural traits including flavor, nutritional value and flowering time were identified. Macrosyntenic relationships between Fragaria and Prunus predict a hypothetical ancestral Rosaceae genome that had nine chromosomes. New phylogenetic analysis of 154 protein-coding genes suggests that assignment of Populus to Malvidae, rather than Fabidae, is warranted.

Original languageEnglish (US)
Pages (from-to)109-116
Number of pages8
JournalNature genetics
Volume43
Issue number2
DOIs
StatePublished - Feb 2011

ASJC Scopus subject areas

  • Genetics

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    Shulaev, V., Sargent, D. J., Crowhurst, R. N., Mockler, T. C., Folkerts, O., Delcher, A. L., Jaiswal, P., Mockaitis, K., Liston, A., Mane, S. P., Burns, P., Davis, T. M., Slovin, J. P., Bassil, N., Hellens, R. P., Evans, C., Harkins, T., Kodira, C., Desany, B., ... Folta, K. M. (2011). The genome of woodland strawberry (Fragaria vesca). Nature genetics, 43(2), 109-116. https://doi.org/10.1038/ng.740