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United States Department of Agriculture

Agricultural Research Service

Research Project: ENHANCEMENT OF BLUEBERRY, STRAWBERRY, AND BRAMBLES THROUGH MOLECULAR APPROACHES Title: The genome of woodland strawberry (Fragaria vesca)

Authors
item Shulaev, Vladimir -
item Sargent, Daniel -
item Crowhurst, Ross -
item Mockler, Todd -
item Veilleux, Richard -
item Folkerts, Otto -
item Delcher, Arthur -
item Jaiswal, Pankaj -
item Lister, Aaron -
item Mane, Shrinivasrao -
item Burns, Paul -
item Mockaitis, Keithanne -
item Davis, Thomas -
item SLOVIN, JANET
item BASSIL, NAHLA
item Hellens, Roger -
item Evans, Clive -
item Jensen, Roderick -
item Allen, Andrew -
item Michael, Todd -
item Setubal, Joao -
item Celton, Jean-Marc -
item Rees, D. Jasper -
item Williams, Kelly -
item Holt, Sarah -
item Dickerman, Allan -
item Ruiz-Rojas, Juan -
item Chatterjee, Mithu -
item Liu, Bo -
item Silva, Herman -
item Meisel, Lee -
item Adavo, Avital -
item Filichkin, Sergei -
item Velasco, Riccardo -
item Troggio, Michela -
item Viola, Roberto -
item Borodovsky, Mark -
item Ashman, Tia-Lynn -
item Aharoni, Asaph -
item Bennetzen, Jeffrey -
item Dharmawardhana, Palitha -
item Elser, Justin -
item Raja, Rajan -
item Priest, Henry -
item Bryant, JR., Douglas -
item Fox, Samuel -
item Givan, Scott -
item Naithani, Sushma -
item Christoffels, Alan -
item Salama, David -
item Carter, Jade -
item Girona, Elena -
item Zdepski, Anna -
item Wang, Wenqin -
item Kerstetter, Randall -
item Salzberg, Steven -
item Schwab, Wilfried -
item Korban, Schuyler -
item Davik, Jahn -
item Monfort, Amparo -
item Denoyes-Rothan, Beatrice -
item Arus, Pere -
item Mittler, Ron -
item Flinn, Barry -
item Folta, Kevin -

Submitted to: Nature Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: December 2, 2010
Publication Date: December 26, 2010
Citation: Shulaev, V., Sargent, D., Crowhurst, R.N., Mockler, T., Veilleux, R., Folkerts , O., Delcher, A., Jaiswal, P., Lister , A., Mane, S., Burns, P., Mockaitis , K., Davis, T., Slovin, J.P., Bassil, N.V., Hellens, R., Evans, C., Jensen, R., Allen, A., Michael, T., Setubal , J.C., Celton, J., Rees, D., Williams, K., Holt, S., Dickerman, A., Ruiz-Rojas, J., Chatterjee, M., Liu, B., Silva, H., Meisel, L., Adavo, A., Filichkin, S., Velasco, R., Troggio, M., Viola, R., Borodovsky, M., Ashman, T., Aharoni, A., Bennetzen, J., Dharmawardhana, P., Elser , J., Raja, R., Priest , H., Bryant, Jr., D., Fox , S., Givan , S., Naithani, S., Christoffels, A., Salama, D., Carter, J., Girona, E., Zdepski, A., Wang, W., Kerstetter, R., Salzberg, S., Schwab, W., Korban, S., Davik, J., Monfort, A., Denoyes-Rothan, B., Arus, P., Mittler , R., Flinn, B., Folta, K. 2010. The genome of woodland strawberry (Fragaria vesca). Nature Genetics. 43:109-116.

Interpretive Summary: New information on the genetic makeup of strawberry is needed to speed progress in developing new improved strawberries. The commercially grown strawberry, Fragaria ananassa, has eight copies of each chromosome and as a result, is difficult to do genetic studies with. The small woodland strawberry, Fragaria vesca, has only two of each type of chromosome and hence is easier to use for laboratory studies. We used the woodland strawberry to determine the DNA code, or sequence, for each of the genes in the strawberry in order to make it easier to breed new disease resistant varieties that have nutritious, attractive, and delicious fruit. As part of an international group of scientists, we used the most modern technology to obtain the sequence of all the DNA of the woodland strawberry. The DNA sequence is a useful tool for researchers working to discover the function of genes from all kinds of strawberries, and from important horticultural crops such as apples and peaches, which are related to strawberry.

Technical Abstract: The woodland strawberry, Fragaria vesca (2n=2x=14) is a versatile experimental plant system. This diminutive herbaceous perennial has a small genome (206Mb), is amenable to genetic transformation, and shares substantial sequence identity with the cultivated strawberry (F. × ananassa) as well as other economically important members of the Rosaceae family. The F. vesca genome has been sequenced to 39× coverage exclusively using second-generation technology and de novo assembly. Anchorage to the genetic linkage map assembles the genome into seven pseudochromosomes. Gene prediction modeling identified 34,809 genes, with the vast majority supported by transcriptome mapping. Genes critical to valuable horticultural traits such as flavor, nutritional value and flowering time are identified. Macro-syntenic relationships between Fragaria and Prunus permit reconstruction of a hypothetical ancestral Rosaceae genome having nine chromosomes. Inclusion of Fragaria sequence in a phylogenetic analysis of 154 protein-coding genes indicates that Populus should be reassigned from Fabidae to Malvidae. This work was performed by an open-access community effort with no central funding source.

Last Modified: 9/10/2014
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