The genome of woodland strawberry (Fragaria vesca)
Shulaev_Vladimir.pdf (1.539Mb)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 × 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.
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This work was supported by Roche and 454 Sequencing; the Virginia Bioinformatics Institute; the University of Florida Institute of Food and Agricultural Sciences (IFAS) Dean for Research; the University of Florida Strawberry Breeding Program; The Province of Trento, Italy (to R.V.); Driscoll’s Strawberry Associates; United States Department of Agriculture/Cooperative
State Research, Education and Extension Service (USDA/CSREES) Hatch
Project VA-135816 (to B.F.); Rutgers Busch Biomedical Funding (to T.P.M.);
East Malling Trust (EMT) and Biotechnology and Biological Sciences Research Council (BBSRC) (to D.J.S. and E.L.G.); the Oregon State Agricultural Research Foundation #ARF4435 (to T.C.M.); the Oregon State Computational and
Genome Biology Initiative (to T.C.M.); Oregon State University start-up fund (to P.J.); the Center for Genomics and Bioinformatics, supported in part by the METACyt Initiative of Indiana University (to K.M.); US National Institutes of
Health (grant HG00783; to M.B.); USDA-CSREES National Research Initiative (NRI) Plant Genome Grant 2008-35300-04411 and New Hampshire Agricultural Experiment Station Project NH00535 (to T.M.D.); and USDA/ARS CRIS #1275-21000-180-01R (to J.P.S.).
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URI: https://repositorio.uchile.cl/handle/2250/120187
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Nature Genetics VOLUME 43 | NUMBER 2 | FEBRUARY 2011
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