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Title: The genome of woodland strawberry (Fragaria vesca)

Author
item SHULAEV, VLADIMIR - Virginia Bioinformatics Institute
item SARGENT, DANIEL - East Malling Research
item CROWHURST, ROSS - New Zealand Institute For Crop & Food Research
item MOCKLER, TODD - Oregon State University
item VEILLEUX, RICHARD - Virginia Polytechnic Institution & State University
item FOLKERTS , OTTO - Virginia Bioinformatics Institute
item DELCHER, ARTHUR - University Of Maryland
item JAISWAL, PANKAJ - Oregon State University
item LISTER , AARON - Oregon State University
item MANE, SHRINIVASRAO - Virginia Bioinformatics Institute
item BURNS, PAUL - Georgia Tech
item MOCKAITIS , KEITHANNE - Indiana University
item DAVIS, THOMAS - University Of New Hampshire
item Slovin, Janet
item Bassil, Nahla
item HELLENS, ROGER - Plant And Food Research
item EVANS, CLIVE - Virginia Bioinformatics Institute
item JENSEN, RODERICK - Virginia Polytechnic Institution & State University
item ALLEN, ANDREW - Plant And Food Research
item MICHAEL, TODD - Rutgers University
item SETUBAL , JOAO - Virginia Polytechnic Institution & State University
item CELTON, JEAN-MARC - University Of The Western Cape
item REES, D. JASPER - University Of The Western Cape
item WILLIAMS, KELLY - Virginia Bioinformatics Institute
item HOLT, SARAH - The Institute For Advanced Learning And Research
item DICKERMAN, ALLAN - Virginia Bioinformatics Institute
item RUIZ-ROJAS, JUAN - Virginia Polytechnic Institution & State University
item CHATTERJEE, MITHU - University Of Florida
item LIU, BO - University Of New Hampshire
item SILVA, HERMAN - Universidad San Sebastian
item MEISEL, LEE - Universidad Andres Bello (UNAB)
item ADAVO, AVITAL - Weizmann Institite Of Science
item FILICHKIN, SERGEI - Oregon State University
item VELASCO, RICCARDO - Agricultural Institute Of San Michele (IASMA)
item TROGGIO, MICHELA - Agricultural Institute Of San Michele (IASMA)
item VIOLA, ROBERTO - Agricultural Institute Of San Michele (IASMA)
item BORODOVSKY, MARK - Georgia Tech
item ASHMAN, TIA-LYNN - University Of Pittsburgh
item AHARONI, ASAPH - Weizmann Institite Of Science
item BENNETZEN, JEFFREY - University Of Georgia
item DHARMAWARDHANA, PALITHA - Oregon State University
item ELSER , JUSTIN - Oregon State University
item RAJA, RAJAN - Oregon State University
item PRIEST , HENRY - Oregon State University
item BRYANT, JR., DOUGLAS - Oregon State University
item FOX , SAMUEL - Oregon State University
item GIVAN , SCOTT - Oregon State University
item NAITHANI, SUSHMA - Oregon State University
item CHRISTOFFELS, ALAN - University Of The Western Cape
item SALAMA, DAVID - The Institute For Advanced Learning And Research
item CARTER, JADE - Indiana University
item GIRONA, ELENA - East Malling Research
item ZDEPSKI, ANNA - Rutgers University
item WANG, WENQIN - Rutgers University
item KERSTETTER, RANDALL - Rutgers University
item SALZBERG, STEVEN - University Of Maryland
item SCHWAB, WILFRIED - Technical University Of Munich
item KORBAN, SCHUYLER - University Of Illinois
item DAVIK, JAHN - Norwegian Institute For Food Research
item MONFORT, AMPARO - Institute De Recerca I Tecnologia Agroalimentaries (IRTA)
item DENOYES-ROTHAN, BEATRICE - Institut National De La Recherche Agronomique (INRA)
item ARUS, PERE - Institute De Recerca I Tecnologia Agroalimentaries (IRTA)
item MITTLER , RON - University Of North Texas
item FLINN, BARRY - The Institute For Advanced Learning And Research
item FOLTA, KEVIN - University Of Florida

Submitted to: Nature Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 12/2/2010
Publication Date: 12/26/2010
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.